A139u998

wwPDBEMValidationSummaryReportiODec6,202003:14amGMTPDBID:4V8MEMDBID:EMD-2239Title:High-resolutioncryo-electronmicroscopystructureoftheTrypanosomabruceiribosomeAuthors:Hashem,Y.
;desGeorges,A.
;Fu,J.
;Buss,S.
N.
;Jossinet,F.
;Jobe,A.
;Zhang,Q.
;Liao,H.
Y.
;Grassucci,R.
A.
;Bajaj,C.
;Westhof,E.
;Madison-Antenucci,S.
;Frank,J.
Depositedon:2012-12-09Resolution:5.
57(reported)Basedoninitialmodels:4A17,3IZ9,3IZ6,3IZ7,4A18,4A19,3U5G,3U5F,3U5E,3U5D,3U5C,3U5B,3U5I,3U5H,2XZM,2XZN,3IZR,4A1D,4A1E,4A1B,4A1C,4A1AThisisawwPDBEMValidationSummaryReportforapubliclyreleasedPDBentry.
Wewelcomeyourcommentsatvalidation@mail.
wwpdb.
orgAuserguideisavailableathttps://www.
wwpdb.
org/validation/2017/EMValidationReportHelpwithspecichelpavailableeverywhereyouseetheiOsymbol.
Thefollowingversionsofsoftwareanddata(seereferencesiO)wereusedintheproductionofthisreport:EMDBvalidationanalysis:0.
0.
0.
dev61MolProbity:4.
02b-467Percentilestatistics:20191225.
v01(usingentriesinthePDBarchiveDecember25th2019)Idealgeometry(proteins):Engh&Huber(2001)Idealgeometry(DNA,RNA):Parkinsonetal.
(1996)ValidationPipeline(wwPDB-VP):2.
15.
1Page2wwPDBEMValidationSummaryReportEMD-2239,4V8M1OverallqualityataglanceiOThefollowingexperimentaltechniqueswereusedtodeterminethestructure:ELECTRONMICROSCOPYThereportedresolutionofthisentryis5.
57.
Percentilescores(rangingbetween0-100)forglobalvalidationmetricsoftheentryareshowninthefollowinggraphic.
Thetableshowsthenumberofentriesonwhichthescoresarebased.
MetricWholearchive(#Entries)EMstructures(#Entries)Ramachandranoutliers1545714023Sidechainoutliers1543153826RNAbackbone4643859Thetablebelowsummarisesthegeometricissuesobservedacrossthepolymericchainsandtheirttothemap.
Thered,orange,yellowandgreensegmentsofthebarindicatethefractionofresiduesthatcontainoutliersfor>=3,2,1and0typesofgeometricqualitycriteriarespectively.
Agreysegmentrepresentsthefractionofresiduesthatarenotmodelled.
Thenumericvalueforeachfractionisindicatedbelowthecorrespondingsegment,withadotrepresentingfractionsU998G999G1000G1001U1002A1003U1004C1005G1006G1007A1008G1009C1010G1011A1012A1013A1014G1015A1016C1017U1018C1019A1020U1021C1022G1023A1024A1025C1026C1027A1028C1029C1030U1031A1032G1033U1034A1035G1036C1037U1038G1039G1040U1041U1042C1043A1044C1045G1046U1047C1048G1049A1050A1051G1052U1053U1054U1055C1056C1057C1058U1059C1060A1061G1062G1063A1064U1065A1066G1067C1068U1069G1070G1071U1072G1073C1074U1075U1076G1077U1078C1079U1080Page32wwPDBEMValidationSummaryReportEMD-2239,4V8MU1081U1082A1083A1084G1085A1086A1087G1088U1089A1090U1091U1092G1093U1094G1095C1096G1097G1098U1099A1100A1101A1102G1103C1104A1105A1106A1107U1108G1109A1110U1111U1112A1113G1114A1115G1116G1117C1118A1119U1120U1121G1122G1123U1124G1125U1126U1127C1128U1129U1130G1131U1132A1133A1134U1135A1136U1137C1138G1139A1140C1141C1142U1143A1144U1145U1146C1147U1148C1149A1150A1151A1152C1153U1154U1155U1156A1157A1158A1159U1160G1161U1162G1163C1164A1165A1166A1167C1168A1169A1170C1171C1172C1173A1174G1175C1176C1177U1178U1179A1180G1181U1182U1183A1184U1185U1186U1187U1188A1189A1190C1191A1192A1193G1194G1195C1196U1197U1198U1199U1200G1201G1202G1203U1204A1205C1206A1207U1208A1209A1210G1211A1212A1213U1214U1215G1216A1217G1218G1219C1220A1221C1222C1223A1224A1225G1226U1227G1228G1229G1230C1231C1232U1233U1234C1235U1236U1237C1238G1239G1240U1241A1242A1243G1244C1245G1246G1247A1248G1249C1250A1251G1252G1253C1254G1255A1256U1257G1258C1259G1260G1261A1262A1263U1264G1265A1266A1267C1268C1269G1270C1271U1272U1273A1274G1275G1276G1277A1278U1279A1280U1281G1282U1283G1284G1285C1286G1287U1288C1289A1290A1291A1292A1293C1294U1295U1296G1297U1298G1299G1300G1301C1302U1303C1304A1305U1306U1307C1308U1309C1310G1311A1312U1313A1314C1315G1316U1317G1318A1319A1320A1321A1322G1323G1324G1325U1326G1327U1328U1329G1330G1331U1332G1333G1334A1335U1336A1337G1338G1339G1340A1341C1342A1343G1344U1345U1346G1347G1348A1349C1350G1351G1352U1353G1354G1355C1356C1357A1358U1359G1360G1361A1362A1363G1364U1365C1366G1367G1368C1369A1370U1371C1372C1373G1374C1375U1376A1377A1378G1379G1380A1381G1382U1383G1384U1385G1386U1387A1388A1389C1390A1391A1392C1393U1394C1395A1396C1397C1398A1399A1400C1401C1402G1403A1404A1405U1406C1407C1408A1409C1410C1411G1412G1413C1414C1415C1416C1417G1418A1419A1420A1421A1422U1423G1424G1425A1426U1427G1428A1429C1430G1431C1432U1433U1434A1435A1436G1437C1438C1439C1440C1441A1442U1443G1444U1445G1446C1447G1448U1449G1450A1451U1452U1453G1454C1455C1456C1457A1458U1459U1460A1461U1462U1463C1464C1465U1466U1467U1468G1469G1470U1471G1472A1473G1474G1475G1476C1477G1478G1479C1480U1481A1482U1483A1484U1485U1486U1487C1488U1489U1490U1491G1492U1493G1494A1495G1496A1497A1498A1499G1500U1501G1502U1503A1504G1505C1506C1507C1508U1509C1510C1511C1512G1513A1514U1515G1516U1517A1518G1519A1520C1521G1522U1523G1524G1525C1526G1527U1528G1529G1530G1531G1532G1533U1534G1535A1536G1537G1538A1539C1540G1541A1542A1543G1544C1545C1546G1547A1548U1549G1550G1551C1552G1553C1554G1555A1556G1557C1558C1559U1560C1561G1562G1563A1564U1565G1566G1567A1568C1569C1570C1571G1572C1573C1574U1575C1576U1577A1578G1579U1580G1581C1582A1583G1584A1585U1586C1587U1588U1589G1590G1591U1592U1593G1594G1595C1596G1597U1598A1599G1600C1601A1602A1603A1604G1605A1606U1607C1608U1609A1610A1611C1612G1613G1614A1615A1616U1617A1618U1619U1620U1621U1622U1623U1624C1625U1626U1627A1628A1629A1630U1631G1632C1633A1634A1635C1636G1637U1638U1639G1640G1641A1642U1643A1644C1645U1646G1647G1648A1649G1650C1651G1652G1653G1654G1655A1656A1657G1658G1659A1660U1661U1662U1663C1664G1665U1666G1667C1668C1669A1670A1671C1672G1673G1674C1675A1676C1677U1678C1679G1680U1681A1682C1683A1684C1685G1686A1687G1688U1689U1690G1691U1692U1693C1694G1695G1696U1697C1698A1699C1700U1701G1702A1703G1704C1705A1706C1707A1708A1709C1710G1711U1712U1713A1714C1715A1716C1717C1718G1719U1720U1721U1722U1723G1724U1725U1726A1727G1728G1729A1730A1731A1732G1733U1734G1735A1736A1737G1738G1739U1740G1741G1742U1743C1744G1745G1746C1747G1748C1749A1750C1751A1752U1753C1754U1755C1756C1757C1758U1759U1760U1761U1762U1763U1764G1765G1766G1767G1768U1769U1770U1771G1772U1773G1774U1775G1776U1777U1778U1779U1780A1781C1782C1783G1784G1785C1786U1787U1788A1789U1790C1791U1792G1793A1794A1795A1796A1797G1798G1799G1800G1801C1802A1803A1804C1805A1806G1807A1808G1809A1810A1811C1812C1813U1814G1815G1816G1817A1818U1819G1820A1821U1822A1823U1824U1825C1826C1827A1828A1829A1830A1831A1832G1833A1834A1835A1836U1837U1838G1839C1840A1841U1842G1843U1844G1845G1846G1847Molecule35:BETACHAINOFTHELARGERIBOSOMALSUBUNIT28SRRNAPage33wwPDBEMValidationSummaryReportEMD-2239,4V8MChainBB:U1C2C3C4A5A6C7U8G9C10A11G12A13C14C15G16U17A18C19U20C21A22U23C24A25C26C27G28C29A30U31C32A33G34G35U36C37C38C39C40A41A42G43C44A45U46C47G48A49A50U51G52C53U54C55U56G57G58U59A60A61C62A63U64A65G66A67G68A69A70A71G72G73U74A75C76A77C78U79C80A81G82G83G84A85A86G87U88C89G90G91C92A93A94A95A96U97A98G99A100U101G102C103G104U105A106A107G108U109U110C111G112C113A114A115G116A117A118G119C120A121U122U123G124G125C126U127C128U129G130A131G132G133G134C135A136A137A138G139U140G141G142G143G144G145U146C147C148A149C150A1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7U1378U1379G1380U1381U1382C1383A1384C1385C1386C1387A1388C1389U1390G1391A1392C1393A1394G1395G1396G1397A1398A1399C1400G1401U1402G1403A1404G1405C1406U1407G1408G1409G1410U1411U1412U1413A1414G1415A1416C1417C1418G1419U1420C1421G1422U1423G1424A1425G1426A1427C1428A1429G1430G1431U1432U1433G1434G1435U1436U1437U1438U1439A1440C1441C1442C1443U1444A1445C1446U1447U1448G1449G1450C1451U1452G1453G1454A1455G1456A1457U1458U1459G1460C1461G1462A1463G1464U1465A1466A1467A1468A1469G1470A1471U1472U1473A1474U1475C1476C1477G1478C1479G1480C1481A1482A1483A1484G1485C1486G1487G1488A1489G1490G1491C1492A1493G1494U1495C1496C1497G1498U1499U1500U1501U1502U1503U1504U1505C1506U1507G1508G1509G1510U1511C1512U1513G1514C1515C1516G1517U1518U1519C1520G1521G1522U1523G1524G1525C1526A1527U1528G1529U1530G1531C1532U1533U1534G1535G1536C1537G1538C1539U1540G1541C1542C1543A1544U1545C1546U1547C1548Molecule36:5.
8SRRNACHAINOFTHELARGERIBOSOMALSUBUNITChainBC:A1A2C3G4U5G6U7C8G9C10G11A12U13G14G15A16U17G18A19C20U21U22G23G24C25U26U27C28C29U30A31U32U33U34C35G36U37U38G39A40A41G42A43A44C45G46C47A48G49C50A51A52A53G54U55G56C57G58A59U60A61A62G63U64G65G66U67A68U69C70A71A72U73U74G75C76A77G78A79A80U81C82A83U84U85U86C87A88U89U90G91C92C93C94A95A96U97C98U99U100U101G102A103A104C105G106C107A108A109A110C111G112G113C114G115C116A117U118G119G120G121A122G123A124A125G126C127U128C129U130C131U132C133G134A135G136C137C138A139U140C141C142C143C144G145U146G147C148A149U150G151C152C153A154C155A156U157U158U159C160U161C162A163G164U165G166U167C168G169Page35wwPDBEMValidationSummaryReportEMD-2239,4V8MMolecule37:5SRRNACHAINOFTHELARGERIBOSOMALSUBUNITChainBD:G1G2G3U4A5C6G7A8C9C10A11U12A13C14U15U16G17G18C19C20G21A22A23U24G25C26A27C28C29A30U31A32U33C34C35C36G37U38C39C40G41A42U43U44U45G46U47G48A49A50G51U52U53A54A55G56C57G58G59C60C61A62C63A64G65G66C67C68U69C70G71U72U73A74G75U76A77C78G79G80C81G82A83U84C85A86G87U88G89A90U91G92G93C94G95C96U97G98G99A100A101C102C103C104G105G106G107G108U109G110U111U112G113U114A115C116U117C118U119Molecule38:SHORTRRNA-IOFTHELARGERIBOSOMALSUBUNITChainBE:U1G2G3A4A5A6U7G8C9G10A11A12A13C14A15C16U17U18G19C20C21A22G23G24U25G26A27C28C29C30A31U32C33C34A35U36C37C38U39C40C41C42A43C44G45G46U47G48A49G50C51U52U53U54C55U56U57U58U59C60A61C62C63A64U65A66A67U68C69C70A71C72A73U74C75U76C77C78G79G80C81C82U83U84G85C86U87G88G89G90G91C92U93U94G95G96G97C98C99U100C101U102C103G104A105C106U107U108C109U110C111G112C113G114U115U116A117C118U119C120G121G122A123G124C125G126G127G128G129G130C131U132C133A134A135G136A137U138U139G140A141A142A143A144A145U146G147C148A149G150C151U152C153A154C155C156C157U158A159C160G161U162A163C164U165G166U167C168C169U170U171U172G173U174U175G176U177G178A179G180U181U182C183G184G185C186G187C188A189U190U191A192A193A194G195C196A197A198A199A200A201C202C203U204G205G206G207G208U209G210Molecule39:SHORTRRNA-IIOFTHELARGERIBOSOMALSUBUNITChainBF:C1G2A3A4U5C6G7C8C9A10C11U12U13C14U15C16U17U18A19U20C21U22G23G24G25U26G27C28U29C30U31G32C33C34C35G36C37C38C39U40U41G42U43C44G45G46C47G48C49C50C51A52G53U54A55C56C57U58U59C60A61U62U63U64U65C66A67C68A69A70G71A72U73Molecule40:SHORTRRNA-IIIOFTHELARGERIBOSOMALSUBUNITChainBG:G1U2G3A4G5A6U7U8G9U10G11A12A13G14G15G16A17U18C19U20C21G22C23A24G25G26C27A28U29C30G31U32G33A34G35G36G37A38A39G40U41A42U43G44G45G46G47U48A49G50U51A52C53G54A55G56A57G58G59A60A61C62U63C64C65C66A67U68G69C70C71G72U73G74C75C76U77C78U79G80G81U82U83U84C85U86G87G88A89G90U91U92U93G94U95C96G97A98A99G100G101G102C103A104A105G106U107G108C109U110C111C112G113A114C115G116C117U118A119U120C121G122C123A124C125G126G127U128G129G130U131U132C133U134C135G136G137C138U139G140A141A142C143G144C145C146U147C148U149A150A151G152C153C154A155G156A157A158A159C160C161A162G163U164C165C166C167A168A169G170A171C172C173G174G175G176U177G178C179C180Page36wwPDBEMValidationSummaryReportEMD-2239,4V8MC181G182Molecule41:SHORTRRNA-IVOFTHELARGERIBOSOMALSUBUNITChainBH:U1U2U3U4G5U6C7C8C9U10C11U12C13C14A15A16A17C18G19A20G21A22G23U24A25C26A27U28G29C30A31U32G33G34G35C36U37G38G39C40A41U42G43A44G45C46G47G48C49A50C51G52C53U54C55C56A57C58G59A60C61C62G63U64G65G66G67G68C69U70C71G72A73G74G75G76G77C78A79C80U81U82U83A84C85G86U87C88C89C90G91A92G93G94C95G96C97U98G99A100A101C102C103U104U105G106A107U108G109C110U111U112G113G114A115A116U117U118U119C120A121U122G123C124U125C126A127G128G129G130A131C132U133U134U135Molecule42:60SRIBOSOMALPROTEINL18ChainBI:METG2V3D4L5T6G7V8Q9K10K11K12R13V14V15R16H17H18T19Y20S21Y25I26K27L28L29I30K31L32Y33K38R39T40N41F44I48H49K50R51R56N57N58R59A60P61R66V69C70M71R72R73R74T75V76W77L78K79K80S84P85I86A87V88I89D92V93L94D95D96V97R98M99T100R101I102P103A104L105R106I107C108A109L110R111F112S113K114S115R119A134M135M136A137P138T139G140T143M144R147G148R149K150S151G152R153K157H158F159G160A161A162S167H168A169K170P171H172V173S174S175R176G177K178E179R180Q181R182S183S184K185R186R187H188A189F190R191H192K193Molecule43:RIBOSOMALPROTEINChainBJ:M1S2K3I4P5P6A7L8L9S10E11A12I13Q14N15V16L17K18D19R20K21E22R23K24F25K26E27S28I29D30L31Q32V33N34L35K36N37Y38D39P40Q41K42D43K44R45F46S47G48S49V50R51L52P53H54V55C56R57P58R59M60T61V62C63L64L65C66D67L68V69H70E71D72I73A74K75K76N77D78V79P80T81M82N83Q84E85E86L87K88K89L90N91K92N93K94K95L96V97K98K99M100C101N102Q103Y104D105A106F107L108C109S110E111S112I113I114K115T116V117P118R119L120V121G122P123H124M125H126R127V128G129K130F131P132T133V134C135A136Q137N138E139S140L141P142D143K144V145L146E147L148Q149S150T151V152K153F154Q155L156K157K158V159L160C161L162G163T164C165V166G167H168V169D170M171T172E173D174Q175V176R177Q178N179V180V181M182A183I184N185F186L187V188S189L190L191K192K193N194W195Q196N197L198K199S200A201Y202I203K204S205T206M207G208K209S210Q211R212I213Y214Molecule44:60SRIBOSOMALPROTEINL10,PUTATIVEPage37wwPDBEMValidationSummaryReportEMD-2239,4V8MChainBK:META2R3R4R7C8Y9R10F11C12K13N14K15P16Y17R21F22C23R24P29R30I31R40F46C49V50H51V52V53S54R55E56L57E58Q59A64R69Y75R79A80N81K82E83C84F85H86M87R88I89R90P93F94H95R98I99N100K101M102L103S104C105A106G107A108D109R110L111Q112T113G114M115R116Q117S118Y119G120K121P122N123G124T125C126A127R128V129R130I131G132L136R139D142T143Y144S151L152R153R154M157P160G161R162Q163I167S168K169Y170W171G172F173T174N175I176L177Y181R185K189L190Q191Q192R193G194L195H196V197K198L199I200T201P202K203G204K205I206Y209N210I211M212A213Molecule45:60SRIBOSOMALPROTEINL11,PUTATIVEChainBL:METALAGLUALALYSVALSERALAGLULYSLYSALAA13N14P15M16R17E18V21K22K23L24C25I26N27E32R36E49Q50T51P52V53R56A57R58L59R62T63F64R67E70K71V74T77E88E95S104G112I113S114E115H116I117D118L119G120I121K122Y123D124T127Y130G131M132D133F134Y135L138G139R140R141G142E143R144H147R148K149R150R151V152S153R154V155G156F157N158H159R160V161R162M167F170H174D175F179Q180A181K182LYSLYSLYSLYSSERMETVALARGARGARGARGARGMolecule46:60SRIBOSOMALPROTEINL12,PUTATIVEChainBM:METPROPROLYSPHEASPP7N8Q9E10I11T12V13V14V15R16A17V18G19G20E21V22P23A24T25A26S27L28A29P30K31V32G33P34L35G36L37N38A39K40K41I42G43E44D45I46A47K48S49T50K51D52W53K54G55L56K57V58T59C60Q61L62R63V64K65N66R67V68A69T70V71V72V73T74P75S76V77A78S79R80L81I82R83A84L85K86E87P88P89R90D91R92K93K94V95K96N97I98K99H100D101G102N103I104A105F106S107E108I109L110K111I112A113K114E115S116A117P118N119S120M121G122A123S124M125K126S127V128V129M130E131V132L133G134T135A136V137S138I139G140C141T142I143D144G145GLUHISPROARGALAILEGLNGLULYSVALGLNGLUGLYLYSLEULYSVALPROASNMolecule47:60SRIBOSOMALPROTEINL13ChainBN:M1P2K3G4N5N6A7I8P9H10V11H12Q13R14K15H16W17N18P19C20Q23K24V27K28V29F30F31N32Q33P34R39R40R41R42L43R44L45L46I51F52P53R54L59R60P61Q62V63N64C65P66T67V68R69Y70N71Page38wwPDBEMValidationSummaryReportEMD-2239,4V8MM72K73R74R78G79F80S81E84V90K91P92R93Y94A95R96G99I100R101V102D103R104R105R106E111E112G113M114Q119R120L121Y124M125S126L130R135Q139K140G141D142A143K149A150A151T152Q153D154R155S156R157Y158A162V163G164G165L166V167R171E172A173P174R175K176V177E180Y187K188F189K192N193H194R198R201A202R203N204R205R206A207A208R209K210E214N215E216LYSLYSMolecule48:60SRIBOSOMALPROTEINL13A,PUTATIVEChainBO:METVALLEUPROSERARGARGSERLEUASNARGSERSERARGLYSGLYPHELYSLYSHISARGP22D23I24I25V26I27D28V33L34G35R36L46L47G48K49K50R55C56T60I61A62R67N68K69Y72F75L76R77K78R79S82K85P88F89H90H91D96V97F98I99R100R103S104M105R108Y109R112R115R118Q119L120Y123P127V128V131R132T133G134G135R136V137P140K141A142Q143R144H145N146C147Y148R149N150E151R152R153F154T155N159M160C161K162H163W166K167Y168E176R179S183H186H187K188K189V193W197K198N199A200R201K202E203A204L205K206K207M208P209Q210K211N212V213L216F219G220L221A222Molecule49:PROBABLE60SRIBOSOMALPROTEINL14ChainBP:METV2K3A4N5Y6I7R8R11L12V13R14R17G18P19R20R23D32A33N34R35V38M46W47R48Q51L59K60F61C62S66R67N68C69L74K75E76K82Y87V92R93H96R97A98F102T106R110Y111Q112L113R114S119R120A121Y122W123I127F128N131D132K133K134N135P136H140L144N150A151K152K153V154D155S156T157P158A159A160R163A167R168R171R174T182K183V184A185ALASERLYSLYSMolecule50:RIBOSOMALPROTEINL15ChainBQ:METSERHISSERVALTYRTYRTYRPHETHRPHEGLUSERSERPROALAPROMETG19S20F21M22Y23L24K29K30K31S32V35M36R37F38I39Q40R43R48H49Q50H51T52I53V54R55L56R57R58P59T60R61P62E63K64A65R66M67V68G69Y70K71T72K73Q74G75Y76F79R80V81R82V83R84R85G86G87R88K89R90P91V92H93K94G95I96T97Y98G99K100P101N102T103A104G105V106L107G108R109K110L111N112R116G124K125K126Y127G128N129L130R131V132L133N134S135Y136W137T143F144L145W146Y147E148V149V150D153P154M155H156R157R160R164W167V172H173K174H175R176E177Q178R179G180L181T182R186K187H188R189G190L191R192Q193K194K197A198S199K200L201R202P203S204R205R206W209R210R211R214Page39wwPDBEMValidationSummaryReportEMD-2239,4V8MM215V216F217L218R219K220R221Molecule51:60SRIBOSOMALPROTEINL17,PUTATIVEChainBR:METV2H3Y4S5R6K7P8Q9V10S11S12K13T14A15K16A17K18I19A20D21L22R23C24H25Y26K27N28T29F30I36N37G38M39K40L41R42K43A44Q45Q46L47Y48R49Q50V51L52A53K54T55R56C57I58P59F60K61R62Y63N64G65K66I67G68N69T70A71E75W76G77Q78T79K80G81R82W83K86A102I103M112Q118V119D120Q121A122P123R124V125R126R127R128T129F130R131A132H133G134R135I136T137P138Y139M140R141C144H145V146Q147L148F149Q154E155R156VALPROVALPROLYSSERLYSPROLYSLYSMolecule52:60SRIBOSOMALPROTEINL18AChainBS:M1V2R3P4H5L6R7H8Y9C10V11V12G13R14E15T16P17S18E19K20N21P22Q23P24T25V26Y27K28F29E30F36R42F43W44R45M46M47R48V53H57V60L61K64V65V66K67D68R69K70L71R74N75Y76Y82Y83S84Q85R86C87G88Y89T90H91M92V93K94E95F96Y109N110S114R115H116R117A118R119Y120H121N122L126G127V128K129S130H134E135V136R137R138F144H145P146S150F151P152Q155R156R157V158K159A160P161R162K163D164R165V166I167F168V169K170S173K174R175A176V177V178A179Molecule53:60SRIBOSOMALPROTEINL19,PUTATIVEChainBT:METV2S3L4K5L6Q7A8R9L10D13I14L15R16C17G18R19G20R21V22P26S37R38K39R42K43R52V55R60S61R62W63R64Q65G73R74H75E76G77T78G79R80R81E82R85E86A87R88M89P90D93L94W95M96R97R98L99R100R103R104R107K108Y109R110K113D116R117Y120R121N130V131F132R133N134K135R136N137K144V145K146R153Q154L155A156E157Q158L159A160R163L164K165D166R170R171R174K175K179K180R181R185E186R187A188R189R190D191D192A193A194A197A198A199K200Q201ARGALAALAALALYSLYSALAALAALAPROALAALALYSLYSGLYGLYLYSALAVALALAPROALATHRPROALALYSALAALAPROALALYSALAALAALAALALYSVALALAPROALALYSALAALAPROALALYSALAALASERPROALAGLYLYSLYSALAALAGLYLYSLYSMolecule54:60SRIBOSOMALPROTEINL21E,PUTATIVEPage40wwPDBEMValidationSummaryReportEMD-2239,4V8MChainBU:METV2H3S4Y7K8R12H13L14F15K18F19R20K21H22G23I30L31T32N33F34K35D38Y39V42V43A44D45A46A47V48R49A50G51M52P53H54K55Y56Y57R60T61W65P69V74I75I76N77R81N82R83T84V85R86K87R88I89C90V91R92V96R97K98S99R100K108E113A114F115R116K120A121G122T123P124L125P126P127K128K129V130S131T132R133G136F137K141K142V143E144V145L146A147R148R149T150A151D152Y153E154A155M156I157P158Y159Molecule55:60SRIBOSOMALPROTEINL22,PUTATIVEChainBV:METVALALAVALARGALALYSVALGLYSERARGGLYPHETHRARGGLNARGGLNLEUALAK21G22K23K24V25F26K27I28D29C30S31I32P33A34S35D36G37I38F39S40D41D42I43L44S45N46F47Q48Q49Y50F51Q52D53N54V55K56L57R60K61G62K63L64T65S66K67V68R69V70N71M72R73E74N75T76L77S78I79T80T81T82M83A84Y85R86K87K88Y89F90K91Y92L93T94K95K96F97L98K99K100K101D102L103R104D105W106I107R108I109L110A111K112G113K114D115T116Y117Q118L119K120Y121F122N123I124GLNASPGLNGLUGLUALAMolecule56:60SRIBOSOMALPROTEINL23,PUTATIVEChainBW:METG2K3D4K5A6N7V8C11R12F13R14V15S16L17A18L19G22A23N26L36Y37K42G43Y44H45G46R47L48N49R50L56G57D58M59R72R73K74V75L76N77I81R84W87R88R89K90D91G92T93Y96F97V105N106G109E110M111S114G115I116A117G118P119V120L127W128P129K130I131H134A135P136A137I138V139Molecule57:60SRIBOSOMALPROTEINL23AChainBX:METPROALALYSALAALASERALAALAALASERLYSLYSASNSERALAPROLYSSERALAVALSERLYSLYSVALALALYSLYSGLYALAPROALAALAALAALALYSPROTHRLYSVALVALLYSVALT44K45R46K47A48Y49T50R51F54R55R56P57H58T59Y60R61R62P63A64T65V66K67P68S69S70N71V72I75K76N77A81F82R83R86Y87P88L89T90T91M95N101N102D109A112R122Y125T129T134L135I136R137P138D139G140K143A144Y145I146R147A150D153Page41wwPDBEMValidationSummaryReportEMD-2239,4V8MD156K160V164Molecule58:60SRIBOSOMALPROTEINL24,PUTATIVEChainBY:M1R2D5F8S9H10F11A12V13H14H17G18R19R20Y21V22P23F26L27S28T29K30P31V32R37C40F41M45R46K47R51F52I53A54W55T56R57T58Y59R60R61I62H63R64K65T66T67T68D69R70V71G72R73R74R75A76A77R78T79V80R81A82E83R84A85I86V87G88A89E90L91S92Y93I94Q95E96V97R98A99K100ALALYSLYSVALASPARGTHRALALYSGLYLYSALAVALARGGLUGLUMETALAALAARGLYSALAALALYSLYSMolecule59:60SRIBOSOMALPROTEINL26,PUTATIVEChainBZ:METV2G3I4K5C6R7N8R9R10K11A12R13R14A15H16F17Q18H22V23R24R25S33K34R37A38K39Y40N41V42R43V47R48K49D50D51E52V53R54V55K56R57F60R63R66V67Y71R72W75H78I79D80C84E85K86T91V92H97T98S99K105L106R111R121S122D126LYSSERLYSGLYLYSVALTHRALAALAGLULYSALAMETGLNGLNMETASPMolecule60:60SRIBOSOMALPROTEINL27,PUTATIVEChainBa:METK2F3K8I11M12T13S14G15R16Y17A18K21A22V23T28D29T30R31E34R35P36Y37R50K51V52V53R54G55M56S57K58R59S60I61T62R63R64V67F70L71R72V73V74N75H76K77H78F79L80P81T82R83Y84N85M86D87L88S89R90E91L92R93G94R95I96D100A101R113L114F115Q116Y119N120A121R125W126F127R130L131R132F133Molecule61:60SRIBOSOMALPROTEINL27AChainBb:METP2T3R4K7T8R9H10Q11R12G13S14T15F16C17G18Y19G20R21V22G23K24H25R26K27H28P29R32G33N34A35G36G37E38H39H40H41R42I43N44F45R46K47Y48H49P50G51Y52F53G54K55M58Y61H62K63K64K65T68W69K70P71L75D76N77M82M88K91D100L101L102Y106S107K108L109L110G111N112G113H114L115Q116A117P118K122A123R124K128D131K132K133I134R135A145Molecule62:60SRIBOSOMALPROTEINL28,PUTATIVEPage42wwPDBEMValidationSummaryReportEMD-2239,4V8MChainBc:METTHRHISSERT5D6L7Q8W9L10L11V12R13Q14N15S16K17F18K21R22I25R26L27S28S29D30P31F32N33N34N35A36N37W38T39K40R41Q42F45L46A50A51V52I53K54T55D58R59T64K65S66G67D68T69N70K74L75M76Y77K78K79M82E83P84K87S88S89R93A94V95A96D97I98R99P100D101L102A103K104Y107R108R109A110R111K112M113R119K122V123C124R127R130S131S132K133M134H135F136H137R138V141R142P143K144R145ASNMolecule63:60SRIBOSOMALPROTEINL29,PUTATIVEChainBd:META2K3S4K5N6H7T8N9H10N11R14H17R18N19G20I21K22P23P24L25P26L27Y28M29Y30N31S32K33R34G35G36K49N50N51A54A55A58R59R60E61R62A68A69Q70K71Molecule64:60SRIBOSOMALPROTEINL2,PUTATIVEChainBe:METGLYLYSTHRVALLEUTHRCYSARGLYSGLYASNGLYSERVALTYRGLNVALHISGLYHISLYSARGLEUGLYPROALALYSLEUARGILELEUASPTYRALAGLUARGHISGLYPHEMETARGGLYVALVALLYSALAILEGLUHISGLUPROGLYARGGLYALAPROLEUALAARGVALGLUPHEARGHISPROTYRLYSY69R70R71V72K73E74V77E80F83T84S87M88L89P95L96A97I98G99N100Q106E109G110C111I112V113C114N115V116E117A118K119V120G121D122R123R128A129S130G131D132Y133C134I135I136H139N140T141E142T143G144R145T146R147L148K149L150G153Q154K155K156S160S161C162R163A164G173R174L180F186Y187R188F189R190G191K192R193N194C195W196R200A203R204N205P206V207E208H211G212G213G214N215H216Q217H218I219G220H221P222S223S226R227H228A229P230P231G232Q233K234V235G236L237I238R241R242T243G244R245I246R247G248S249R250A251V252R253G254ALATRPHISPROGLUGLUMolecule65:RIBOSOMALPROTEINL3,MITOCHONDRIAL,PUTATIVEChainBf:METS53H54C55K56F57E58H59P60R61H62G63H64L65G66F67R70K71R72S73R74Q75I76R77G78R79A80R81S82D86Q90K91P92H93L94T95S96F97M98V99Y100K101A102G103M104T105H106I107V111D112R113E122V123V124E125P126V127T128I129L130E131A132P133P134M135V136V137V138G139I140Y143R144Q145T146P147V148G149H150K151T152I153V156W157A158H159H160T161S162V163E164F165R166R167R168F169Y170K171N172W173K174R184A188R189G193R194R199F204Page43wwPDBEMValidationSummaryReportEMD-2239,4V8MD209R212A215H216T217Q218L219R220R223N224N225R226V227G228V229A232H233V234S235Q238I239N240G241G242T243L250K257E258V259R260I261D262F265Q266Q267S268E269A270C271D272V273C274A275V276T277K278G279H280G281F282T283G284V285V286K287R288W289G290V291A292C293L294P295R296K297T298H299R300G301L302R303K304V305A306C307I308G309A310W311H312P313S314R315V316M317Y318T319V320A321R322A323G324Y328H329H330R331T332H333L334Y339Q340L341G342R343A344V345S346M347E348P349N350Q351A352T353T354A355Y356A360K361T362I363T364F369V370G371Y372G373R376N377V380M381L382K383G384S385V386A387R390R391R392V393I394R397R398P399M400Q403T404S405R406K407L408T409E410K411I412T413F416I417D418T419S420S421K422I423G424H425G426R427F428Q429T430K431K432Y438K443D444R445I446R447R448E449E450R451L452R453K454E455R456A457A458R459A460A461E462R463K464A465K466GLYGLYALATHRTHRTHRALAALAPROARGLYSSERLYSLYSMolecule66:60SRIBOSOMALPROTEINL30ChainBg:METALALYSLYSVALLYSSERLYSVALD19T20I21N22M29Y34V35L36K43T44L45R46R49L52V53V54N58C59P60P61I62R63Y69Y70P77I78H79H80Y81G93R94H95F96R97A98C99S102I103T104D105V106G107D108S109D110A114Molecule67:60SRIBOSOMALSUBUNITPROTEINL31,PUTATIVEChainBh:M1T2R3F6K7G8K9K15R23K24K25A26A27E28A29R30K31S32R33D34D35R36R37W38K39R40V41L42A43K44M45E48K49R50K51K52Y53H54G55V56G57N58T59A60E61H62S63R64V65R66T69R70A71S72L73F74K75R76T77G78R79K80P81D82N83M86S89I90H91L95L96K97K98R99T100F101H102K103R104I109K110R111I112R113S114K118L119M120K121T122K123D124N125R126I127D128L131N132T133F134G139V140K141G142R146V147R148V149R150E159G160G161K162R163K164Y167S171P174V175P176S177F178K179N180T183K184Q188Molecule68:60SRIBOSOMALPROTEINL32,PUTATIVEChainBi:METV2K3P4F5V6P7R8N9I10V11K12K13R14T15R20H21R22C23E24L25F26P27S30R34R37G38E39D40R44R45R46Y47K48G49Q50K51A52N55Y58G59S60D61R62R63T68P69S70G71F72K73N74Page44wwPDBEMValidationSummaryReportEMD-2239,4V8MV77N78Y84M85L86L87M88R91K92Y93A94G95H99T100V101G102A103R106R111H114R119N122G123N124A125K126L127R128R129V130ASPVALMolecule69:60SRIBOSOMALPROTEINL34,PUTATIVEChainBj:METS2C3P4R5V6Q7Y8R9R10R11Y14A15T16R17R20M21R22L23V24R25T26P27R30L31R36G37K38R39S40P43H44T45P46W47V48R53L54A55G56T57K58A59L60R61H62T63R66L67A68P69R70H71T74T75S76R77P78Y79G80L83S84H85E86Q87V88R89D90R91R94A95F96Q101R102I103R106A107L108K109A110H111A112K113V114Q115R120K124R125K128E129E130K131V132A133A134V135A136K137K138V139A140A141K142V143G144A145K146S147V148I149A150K151K152E153A154P155K156R157K158A159G160K161A162P163VALGLYALALYSLEULYSLYSMolecule70:60SRIBOSOMALPROTEINL35,PUTATIVEChainBk:METSERHISILEVALLYSILEARGASPLEULYSGLULYSGLYLYSASPASPLEULEULYSGLNLEUSERGLUPHELYSLYSGLULEUSERGLNLEUARGVALSERGLNGLNMETASNVALGLYALAALAR44L45G46R47I48R49R52K53R57I58M59T60V61L62R67E68R71K72F73Y74S75D76K77K78L79R80S81A82K83L87R88A89K90L91T92H93R94R95R96L97A98L99K100A101N102E103K104N105R106K107R110Q111A115H116K117R120R121I122Y123K126V127Molecule71:60SRIBOSOMALPROTEINL35A,PUTATIVEChainBl:METALALEUVALLYSLYSPHESERGLYSERVALALAALAASNARGSERLYSLYSILEHISGLNLEUTHRLYSLYSTHRTHRARGVALLYSARGASPARGK34S35P36R37L38Y39G42A45G46Y47T48R49G50L51H52G53Q54N55K56N57T58A59L60V61R62I63E64N65V66T69Y75V76G77K78R79Y82V83Y84Y87K88I89K90R91C92V93R94W95S96K97A98P99A100R101R102S103R106A107I108W109G110R111I112T113R114P115H116G117T118S119G120T121V122R123V124K125F126N127G128S129S130V131P132A133S134A135I136G137R138R139I140R141V142Y143L144Y145P146S147R148I149Molecule72:RIBOSOMALPROTEINL36,PUTATIVEChainBm:Page45wwPDBEMValidationSummaryReportEMD-2239,4V8MMETA2A3T4K5R6E7A8P9R12T13I16A17N20K21G22Y23K24T25T26R27R28A29R30R31P32S33S34N35D36R37Y38A39L40P41H42K43K44L45R46I51L55V56G57F58M61E62R63R64R70V71R76A77L78K79K83R84L85G86S87A90R94R95A96K97V98E99E100R103Q104Q105T106K107K108LYSMolecule73:RIBOSOMALPROTEINL37ChainBn:METT2R11H12G13R14T15H16I17L18C19R20R21R24H28W31E32R33C34A35A36Y39P40R41A42Q43R44R45R46Y47N48W49K52R56R57R58T59G60T61G62R63C64R65Y66L67K68R72R73I74R75N76H77F78K79T80D81I82K83A84Molecule74:60SRIBOSOMALPROTEINL37A,PUTATIVEChainBo:META2K3R4T5V6K7M8M11G12R13Y14G15A16R17Y18G19S20N21P22R25E30Q33H34A35K36H37F38C39S40F41C42G43K44F45A46F47R48R49K50A51V52R56C57D58G59C60S61G67A68Y69T70L71S72T73P74T78V79R84R85L86R87K90Q91S92N93Molecule75:60SRIBOSOMALPROTEINL38,PUTATIVEChainBp:METP2K6N7L8K9E10F11R17K18D19A20R21V25K26H27N28P29K30V31F34K35V36R37C38S39R40M47A48D49K50K51R58S59I60S63V69T70S71R72S73N76K77N78T79P80S81K82Molecule76:60SRIBOSOMALPROTEINL39,PUTATIVEChainBq:METG2R3F4K5P6L7A8I9K10K11K12Y13K16L17K18R21P22V23P24Y25R30N33R34I35K36W37N38E39K40R41R42H43W44R45R46T47Y51Molecule77:60SRIBOSOMALPROTEINL4ChainBr:Page46wwPDBEMValidationSummaryReportEMD-2239,4V8MMETTHRA3R4P5S6V7S8V9Y10S11A12S13E14D15K16V17V18G19T20C21S22L23V26F27I31R32H33D34V35F38V39H40M43R48Y51A52V53N54R55L56S57G58M59K60H61S62A63E64S65W66G67T68G69R70R74I75P76R77I78H79G80G81G82A88G89A90F91G92N93M94C95R96G97G98R99M100F101A102P103T104K105I106F107R108R109W110H111R112K113I114N115L116H117Q118K119R120F121V124L132P133A134L135V136M137S138R139G140I143E144N145V146A147L151E154D155R158A159Y160E161E165F169V173G174A175I176D177D178V179N180R181D184S185R186Q187I188R189R192G193K194M195R196N197R198R199Y200V201A202R203R204G205P206V209M210K214G215T216R217A218F219R220N221I222F223G224L225D226L227A228N229V230N231S232L233N234H237G242H243V244G245R246F247W250E256K257L258F262G263T264F265S269T270V271K272S273G274F275M276L277P278A279P280M281S284T285D286V287T288R289I290M291Q292S293E294E295V296R297R298V299L300K301P302K303K304L305Q306P307K308R309P310S311R312Y313R314Q315I320R323R324L325R326L327R328L329Q333K334A338M339M343Q344R349E350A351R352R359R364K365N366V367A368K369A370LEULYSLYSLYSMolecule78:UBIQUITIN-60SRIBOSOMALPROTEINL40ChainBs:METGLNILEPHEVALLYSTHRLEUTHRGLYLYSTHRILEALALEUGLUVALGLUALASERASPTHRILEGLUASNVALLYSALALYSILEGLNASPLYSGLUGLYILEPROPROASPGLNGLNARGLEUILEPHEALAGLYLYSGLNLEUGLUGLUGLYARGTHRLEUALAASPTYRASNILEGLNLYSGLUSERTHRLEUHISLEUVALLEUARGLEUARGGLYGLYV1M2E3K11K12Y13N14W15E16C20R21R22C23Y24A25R26V29R30A31C34R35K36K37H41R46M47L51R52Molecule79:60SRIBOSOMALPROTEINL44ChainBt:METV2N3Y4P5K6M10D14E15R16C17H20F23Y28K29A30G31K32A33R34R38G39K40R41R45K46Q47S48G49Y50G51G52Q53T54K55P56I57F58K61A62K63Q73C74S75I80I81Q82N83V84R87H90F91E92L93K98T99G100N101K102D103P104T105W106Molecule80:60SRIBOSOMALPROTEINL5,PUTATIVEChainBu:METT2F3V4K5V6V7K8N9K10A11Y12Y13K14R15F16Y20R21R22R23R24E25G26K27T28D29Y30R33R34L38Q39D40F44G45T46P47K48V52V53R54I55T56N57R58I61I64V65H66A67K68V69V70Page47wwPDBEMValidationSummaryReportEMD-2239,4V8MV75M76A77A78Y79S80H81P84H90G91L92A98Y99R107R108M109L115A116E117K118F119V120G121D126G127S128A131V132R133T134K135D136D137D138Q139G140D141D142E143S144R145F146P147F148L152D153V154G155L156A157R158T159T160T161G162A163R164L169K170A178V179R182P183N184R185F186P187G188Y189N190K191E192S193D194R202D203R204I205F206G207R208Y213V217R218E219E220A221S222D226E227K228T229C230Q231F232I236A237A238K239D243D244M245M248Y249K250R251A252H253R257P260T261K262R263R264K267E268R269P270A271E272A273K276K277Y278N279T280V281K282L283T284E287K288K289K293A294K295V296A297A298V299I300GLUARGILEARGASPARGALALYSMolecule81:60SRIBOSOMALPROTEINL6,PUTATIVEChainBv:METP2A3A4T5K6K7A8V9E10K11K12A13K14K15V16S17R18K19Y23S24R27K28S29C30K31G41R42F43R44G45R46R47A48Q53L54G58P59S63G64P65M66K67Y68S69R74R75I76R79Y80I81I82A83T86R87V88D89D94A97E101R105E109LYSARGVALLYSSERGLUGLYGLUPHEMETGLYASPLYSASPLYSLYSLYSALAGLUSERLYSALALYSLYSTHRSERLYSALAALAPROLYSGLYTHRV143R147L167G168K169E170M171A172G173Y174L175H176S177V178F179T180I181K182P183G184D185A186P187H188R189L190K191W192Molecule82:60SRIBOSOMALPROTEINL7,PUTATIVEChainBw:M1F2M3T4G5L6I7L8L9G10K11V15M16P17A18K19P22S26A27I28K29R30F33K34Q35Q36N40F41K42K43A44I45A46Y60S61R62Y66S67R68E69Y70T73E74K75L80R81R82R85Y90Y91L92E93A94K97V98R103I104R105G106I107A108K109V110P111P112K113Q114R115K116I117L118Q119L120L121R122L123R124F127N128T129V130F131V132R133L134N135K136P137M138E139N140M141L142R143A144V145E146I149A150Y151G152Y153L156R160Y164K165R166G167H168L169K170I171N172G173Q174R175V176K177I178T179M183Y188D191D192N201Q202I203Y204A205K208H209F210R211W218P219F220K221L222A223P224P225A226G227G228M229R230Q231K232R233R234H235E238G239G240D241Y242R245R251F252R255M256I257Molecule83:60SRIBOSOMALPROTEINL7A,PUTATIVEChainBx:Page48wwPDBEMValidationSummaryReportEMD-2239,4V8MMETALAGLYLYSGLUVALLYSLYSALAVALLYSPROTHRLYSLYSALAGLYVALPROTYRLYSLYSPROGLUVALTHRGLNLYSLYSALALYSALASERALAALAALAP37S38P39F40V41A42R43P44K45D46F47G48I49G50R51D52V53P54Y55A56R57D58L59S60R61F62M63R64R73R76Q79R80R81L82K83V84P85Q90F91T92K93V94L95D96R97R100V107Y110A111P112E113T114R115K116A117R118R119D120R121E128K129K130K131K134G135T136V137S138T139K140A141G148L149Q150E157T160A161R162L165I166A167N168N169V170D171P172I173E174L175V176L177T181R184Y190V193K194D195R198L199G200R205K206T207A208T209C210V211A212F213T214D215V216L224R234D240R243R244Q245W246G247G248L249L253R256L259R260K261K262R263A264R265T266A267G268N269D270A271A272A273K274A275A276Molecule84:60SRIBOSOMALPROTEINL9,PUTATIVEChainBy:M1K2I3K4S5H6D7Q8I9T10F11P12E13T16V17S18V19K20D21R22I23V24R30K35R38H39L40Q41L42D43F44R45V46N47R51T52F53T54A55V56R57W58F59N64N65S66H74V75R76N77M78V82R87F88F92A93Y94A95H96F97P98E104N105Q106R111N112F113E116K117R118V119R120R121D127V128Y131R132T133D134V138K139D140E145E150R154M159L164V165K166K167K168D169I170R171K172F173L174D175Y178V179Q180T181N184I185E186V187D188E189Molecule85:18SRRNAOFTHESMALLRIBOSOMALSUBUNITChainAA:G1A2U3C4U5G6G7U8U9G10A11U12U13C14U15G16C17C18A19G20U21A22G23U24C25A26U27A28U29G30C31U32U33G34U35U36U37C38A39A40G41G42A43C44U45U46A47G48C49C50A51U52G53C54A55U56G57C58C59U60C61A62G63A64A65U66C67A68C69U70G71C72A73U74U75G76C77A78G79G80A81A82U83C84U85G86C87G88C89A90U91G92G93C94U95C96A97U98U99A100C101A102U103C104A105G106A107C108G109U110A111A112U113C114U115G116C117C118G119C120C121A122A123A124A125U126U127U128U129G130C131G132G133U134C135U136C137C138G139C140A141U142U143A144C145U146G147G148A149U150A151A152C153U154U155G156G157C158G159A160A161A162C163G164C165C166A167A168G169C170U171A172A173U174A175C176A177U178G179A180A181C182C183A184A185U186C187G188G189A190C191G192C193U194C195U196C197U198U199U200U201U202C203U204A205U206G207U208C209G210C211G212G213C214U215U216G217U218G219U220U221U222A223C224G225C226A227C228U229U230G231U232C233G234U235G236G237C238G239A240U241G242A243G244A245C246G247U248C249C250A251G252C253G254A255A256U257G258A259A260U261G262A263A264A265U266U267A268G269A270A271C272C273A274A275C276G277C278C279U280C281C282A283C284C285C286G287G288G289G290G291C292A293G294U295A296A297C298A299C300Page49wwPDBEMValidationSummaryReportEMD-2239,4V8MU301C302A303G304A305C306G307U308G309U310U311G312A313C314U315C316A317A318U319U320C321A322U323U324C325C326G327U328G329C330G331A332A333A334G335C336C337G338A339G340C341C342U343U344U345U346U347G348C349U350C351G352G353C354G355U356C357U358A359C360U361G362A363C364G365A366A367C368A369A370C371U372G373C374C375C376U377A378U379C380A381G382C383C384A385G386U387G388A389U390G391G392C393C394G395U396G397U398A399G400U401G402G403A404C405U406G407C408C409A410U411G412G413C414G415U416U417G418A419C420G421G422G423A424G425C426G427G428G429G430G431A432U433U434A435G436G437G438U439U440C441G442A443U444U445C446C447G448G449A450G451A452G453G454G455A456G457C458C459U460G461A462G463A464A465A466U467A468G469C470U471A472C473C474A475C476U477U478C479U480A481C482G483G484A485G486G487G488C489A490G491C492A493G494G495C496G497C498G499C500A501A502A503U504U505G506C507C508C509A510A511U512G513U514C515G516A517A518A519A520A521A522U523A524C525G526A527U528G529A530G531G532C533A534G535C536G537A538A539A540A541G542A543A544A545U546A547G548A549G550C551C552G553A554C555C556G557U558G559C560C561C562U563A564G565U566G567C568A569U570G571G572U573U574G575U576U577U578U579C580A581A582U583G584G585G586G587G588A589U590A591C592U593C594A595A596A597C598C599C600A601U602C603C604A605A606U607A608U609C610G611A612G613U614A615A616C617A618A619U620U621G622G623A624G625G626A627C628A629A630G631U632C633U634G635G636U637G638C639C640A641G642C643A644C645C646C647G648C649G650G651U652A653A654U655U656C657C658A659G660C661U662C663C664A665A666A667A668G669C670G671U672A673U674A675U676U677A678A679U680G681C682U683G684U685U686G687C688U689G690U691U692A693A694A695G696G697G698U699U700C701G702U703A704G705U706U707G708A709A710C711U712G713U714G715G716G717C718C719A720C721G722U723A724G725U726U727U728U729G730U731G732C733C734G735U736G737C738C739A740G741U742C743C744C745G746U747C748C749A750C751C752U753C754G755G756A757C758G759U760G761U762U763U764U765G766A767C768C769C770A771C772G773C774C775C776U777C778G779U780G781G782C783C784C785G786U787G788A789A790C791A792C793A794C795U796C797A798G799A800U801A802C803A804A805G806A807A808A809C810A811C812G813G814G815A816G817C818G819G820U821U822C823C824U825C826C827U828C829A830C831U832U833U834C835A836C837G838C839A840U841G842U843C844A845U846G847C848A849U850G851C852G853A854G855G856G857G858G859C860G861U862C863C864G865U866G867A868A869U870U871U872U873A874C875U876G877U878G879A880C881C882A883A884A885A886A887A888G889U890G891C892G893A894C895C896A897A898A899G900C901A902G903U904C905U906G907C908C909G910A911C912U913U914G915A916A917U918U919A920C921A922A923A924G925C926A927U928G929G930G931A932U933A934A935C936G937A938A939G940C941A942U943C944A945GCCCUGGGGCC956A957C958C959G960U961U962U963C964G965G966C967U968U969U970U971G972U973U974G975G976U977U978U979U980A981G982A983A984G985U986C987C988U989U990G991G992G993A994G995A996U997U998A999U1000G1001G1002G1003G1004C1005C1006G1007C1008G1009U1010G1011C1012C1013U1014U1015G1016G1017G1018U1019C1020G1021G1022U1023G1024U1025U1026U1027C1028G1029U1030G1031U1032C1033U1034C1035A1036U1037U1038U1039U1040U1041G1042U1043G1044G1045C1046G1047C1048G1049C1050A1051C1052A1053U1054U1055C1056G1057G1058C1059U1060C1061U1062U1063C1064G1065U1066G1067A1068U1069G1070U1071U1072U1073U1074U1075U1076U1077A1078C1079A1080U1081U1082C1083A1084U1085U1086G1087C1088G1089A1090C1091G1092C1093G1094C1095G1096G1097C1098U1099U1100C1101C1102A1103G1104G1105A1106A1107U1108G1109A1110A1111G1112G1113A1114G1115G1116G1117U1118A1119G1120U1121U1122C1123G1124G1125G1126G1127G1128A1129G1130A1131A1132C1133G1134U1135A1136C1137U1138G1139G1140Page50wwPDBEMValidationSummaryReportEMD-2239,4V8MU1141G1142C1143G1144U1145C1146A1147G1148A1149G1150G1151U1152G1153A1154A1155A1156U1157U1158C1159U1160U1161A1162G1163A1164C1165C1166G1167C1168A1169C1170C1171A1172A1173G1174A1175C1176G1177A1178A1179C1180U1181A1182C1183A1184G1185C1186G1187A1188A1189G1190G1191C1192A1193U1194U1195C1196U1197U1198C1199A1200A1201G1202G1203A1204U1205A1206C1207C1208U1209U1210C1211C1212U1213C1214A1215A1216U1217C1218A1219A1220G1221A1222A1223C1224C1225A1226A1227A1228G1229U1230G1231U1232G1233G1234G1235G1236A1237U1238C1239A1240A1241A1242G1243A1244U1245G1246A1247U1248U1249A1250G1251A1252G1253A1254C1255C1256A1257U1258U1259G1260U1261A1262G1263U1264C1265C1266A1267C1268A1269C1270U1271G1272C1273A1274A1275A1276C1277C1278A1279U1280G1281A1282C1283A1284C1285C1286C1287A1288U1289G1290A1291A1292U1293U1294G1295G1296G1297G1298A1299A1300C1301A1302U1303C1304A1305U1306U1307G1308G1309G1310U1311G1312C1313C1314C1315G1316U1317G1318U1319G1320G1321C1322G1323G1324C1325C1326U1327U1328U1329U1330G1331U1332G1333C1334C1335G1336A1337C1338C1339C1340U1341C1342G1343G1344C1345C1346C1347C1348A1349A1350U1351U1352U1353A1354U1355U1356U1357A1358U1359C1360A1361A1362U1363U1364U1365A1366C1367G1368U1369G1370C1371C1372U1373A1374U1375U1376C1377U1378A1379U1380C1381A1382C1383C1384C1385C1386C1387G1388G1389U1390U1391C1392C1393C1394U1395C1396U1397U1398U1399U1400G1401A1402G1403G1404U1405U1406C1407U1408U1409C1410C1411G1412G1413G1414G1415U1416U1417U1418U1419U1420U1421A1422C1423G1424G1425G1426A1427A1428U1429A1430U1431C1432C1433U1434C1435A1436G1437C1438A1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781DepositorMinimummapvalue-202702.
703DepositorAveragemapvalue7679.
429DepositorMapvaluestandarddeviation33729.
660DepositorRecommendedcontourlevel108000.
0DepositorMapsize()391.
31,391.
31,391.
31wwPDBMapdimensions359,359,359wwPDBMapangles()90.
0,90.
0,90.
0wwPDBPixelspacing()1.
09,1.
09,1.
09DepositorPage53wwPDBEMValidationSummaryReportEMD-2239,4V8M5ModelqualityiO5.
1StandardgeometryiOTheZscoreforabondlength(orangle)isthenumberofstandarddeviationstheobservedvalueisremovedfromtheexpectedvalue.
Abondlength(orangle)with|Z|>5isconsideredanoutlierworthinspection.
RMSZistheroot-mean-squareofallZscoresofthebondlengths(orangles).
MolChainBondlengthsBondanglesRMSZ#|Z|>5RMSZ#|Z|>51A01.
192/1808(0.
1%)1.
8345/2432(1.
9%)2A11.
375/1973(0.
3%)1.
9053/2657(2.
0%)3A21.
080/15071.
7636/2027(1.
8%)4A31.
321/2026(0.
0%)1.
9253/2699(2.
0%)5A41.
332/1623(0.
1%)2.
0460/2185(2.
7%)6A51.
426/1574(0.
4%)1.
8336/2100(1.
7%)7A61.
383/1548(0.
2%)1.
9544/2076(2.
1%)8A71.
060/24711.
6433/3368(1.
0%)9A81.
090/3371.
684/445(0.
9%)10A90.
910/5421.
558/722(1.
1%)11AC1.
411/1655(0.
1%)1.
7629/2240(1.
3%)12AD1.
020/8771.
6013/1182(1.
1%)13AE1.
324/1324(0.
3%)1.
8329/1771(1.
6%)14AF0.
760/9461.
3611/1270(0.
9%)15AG1.
452/1170(0.
2%)1.
9341/1567(2.
6%)16AH1.
240/9371.
7721/1263(1.
7%)17AI0.
920/10981.
6415/1473(1.
0%)18AJ1.
290/10351.
7813/1386(0.
9%)19AK1.
060/12111.
7724/1625(1.
5%)20AL1.
241/1033(0.
1%)1.
9127/1380(2.
0%)21AM1.
050/12471.
7629/1666(1.
7%)22AO1.
080/12061.
8123/1613(1.
4%)23AP1.
401/1766(0.
1%)1.
8337/2383(1.
6%)24AQ1.
110/8391.
7723/1139(2.
0%)25AR1.
523/612(0.
5%)1.
9626/835(3.
1%)26AS1.
220/11371.
7327/1520(1.
8%)27AT1.
172/1065(0.
2%)1.
9930/1411(2.
1%)28AU1.
000/6811.
546/907(0.
7%)29AV1.
170/8251.
9519/1105(1.
7%)30AW1.
371/648(0.
2%)1.
8414/868(1.
6%)31AX1.
112/1649(0.
1%)1.
7135/2203(1.
6%)32AY1.
220/5211.
839/685(1.
3%)33AZ1.
201/527(0.
2%)1.
7713/702(1.
9%)34BA4.
088852/44057(20.
1%)3.
348033/68678(11.
7%)Page54wwPDBEMValidationSummaryReportEMD-2239,4V8MMolChainBondlengthsBondanglesRMSZ#|Z|>5RMSZ#|Z|>535BB3.
665797/34826(16.
6%)2.
995090/54269(9.
4%)36BC4.
32938/4004(23.
4%)3.
24674/6235(10.
8%)37BD4.
09601/2830(21.
2%)3.
33521/4410(11.
8%)38BE3.
90902/4956(18.
2%)3.
641067/7716(13.
8%)39BF3.
69277/1691(16.
4%)3.
64354/2627(13.
5%)40BG4.
341057/4358(24.
3%)3.
41840/6797(12.
4%)41BH3.
79548/3201(17.
1%)3.
52652/4987(13.
1%)42BI1.
474/1553(0.
3%)2.
0464/2070(3.
1%)43BJ0.
720/17431.
2812/2339(0.
5%)44BK1.
403/1760(0.
2%)1.
8945/2359(1.
9%)45BL1.
331/1385(0.
1%)1.
8033/1851(1.
8%)46BM0.
670/10331.
211/1394(0.
1%)47BN2.
404/1793(0.
2%)2.
1880/2392(3.
3%)48BO1.
462/1655(0.
1%)1.
8444/2214(2.
0%)49BP1.
483/1506(0.
2%)1.
9745/2014(2.
2%)50BQ1.
521/1755(0.
1%)1.
8442/2346(1.
8%)51BR1.
391/1270(0.
1%)1.
9939/1705(2.
3%)52BS1.
363/1508(0.
2%)2.
0654/2028(2.
7%)53BT1.
451/1689(0.
1%)1.
9765/2232(2.
9%)54BU1.
351/1290(0.
1%)1.
8939/1734(2.
2%)55BV0.
960/8781.
5713/1169(1.
1%)56BW1.
445/1059(0.
5%)2.
0032/1424(2.
2%)57BX1.
564/1007(0.
4%)1.
9735/1353(2.
6%)58BY1.
281/857(0.
1%)1.
8226/1150(2.
3%)59BZ1.
443/1021(0.
3%)2.
0743/1362(3.
2%)60Ba1.
400/11111.
9531/1479(2.
1%)61Bb1.
354/1165(0.
3%)1.
9234/1554(2.
2%)62Bc2.
503/1145(0.
3%)2.
2062/1528(4.
1%)63Bd1.
212/582(0.
3%)1.
9822/777(2.
8%)64Be1.
507/1416(0.
5%)1.
9138/1905(2.
0%)65Bf1.
438/3387(0.
2%)1.
99129/4548(2.
8%)66Bg1.
753/745(0.
4%)2.
0923/1005(2.
3%)67Bh1.
274/1551(0.
3%)2.
0056/2059(2.
7%)68Bi1.
392/1076(0.
2%)1.
9130/1439(2.
1%)69Bj1.
243/1312(0.
2%)1.
8534/1743(2.
0%)70Bk1.
460/7262.
0631/957(3.
2%)71Bl1.
444/958(0.
4%)2.
0535/1290(2.
7%)72Bm1.
541/859(0.
1%)1.
9729/1141(2.
5%)73Bn1.
601/713(0.
1%)2.
0128/949(3.
0%)74Bo1.
708/727(1.
1%)1.
8826/968(2.
7%)75Bp1.
501/666(0.
2%)1.
8715/885(1.
7%)76Bq1.
311/471(0.
2%)1.
719/626(1.
4%)77Br1.
465/2937(0.
2%)1.
98106/3943(2.
7%)Page55wwPDBEMValidationSummaryReportEMD-2239,4V8MMolChainBondlengthsBondanglesRMSZ#|Z|>5RMSZ#|Z|>578Bs1.
401/433(0.
2%)1.
8612/572(2.
1%)79Bt1.
361/883(0.
1%)1.
8724/1170(2.
1%)80Bu1.
301/2397(0.
0%)1.
8865/3219(2.
0%)81Bv1.
301/1242(0.
1%)1.
8429/1667(1.
7%)82Bw1.
442/2105(0.
1%)1.
9149/2823(1.
7%)83Bx1.
485/1936(0.
3%)1.
8538/2603(1.
5%)84By1.
321/1561(0.
1%)1.
9562/2098(3.
0%)85AA3.
427237/52940(13.
7%)3.
108226/82489(10.
0%)86AB2.
3680/1740(4.
6%)2.
66188/2712(6.
9%)AllAll3.
0626432/250887(10.
5%)2.
8028260/369909(7.
6%)Chiralcenteroutliersaredetectedbycalculatingthechiralvolumeofachiralcenterandverifyingifthecenterismodelledasaplanarmoietyorwiththeoppositehand.
Aplanarityoutlierisdetectedbycheckingplanarityofatomsinapeptidegroup,atomsinamainchaingrouporatomsofasidechainthatareexpectedtobeplanar.
MolChain#Chiralityoutliers#Planarityoutliers1A00192A10183A20114A30235A40276A50237A60268A70179A80410A90411AC02112AD01013AE02514AF0615AG01716AH0817AI01018AJ01119AK02020AL0621AM01822AO01723AP01424AQ0725AR012Continuedonnextpage.
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Page56wwPDBEMValidationSummaryReportEMD-2239,4V8MContinuedfrompreviouspage.
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MolChain#Chiralityoutliers#Planarityoutliers26AS0727AT02728AU0729AV01330AW01331AX01032AY01333AZ0334BA0140435BB096736BC012837BD08938BE016939BF06140BG014441BH08742BI01943BJ0744BK02645BL01547BN13148BO02149BP02450BQ02851BR02152BS02153BT02454BU02155BV0656BW01057BX0758BY01559BZ01260Ba02061Bb01562Bc02763Bd01064Be02165Bf04866Bg0867Bh02368Bi013Continuedonnextpage.
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Page57wwPDBEMValidationSummaryReportEMD-2239,4V8MContinuedfrompreviouspage.
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MolChain#Chiralityoutliers#Planarityoutliers69Bj12370Bk01271Bl02372Bm01673Bn01474Bo01275Bp0676Bq0977Br04678Bs0579Bt01380Bu03481Bv02282Bw03283Bx01984By12785AA0156786AB045AllAll35934Theworst5of26432bondlengthoutliersarelistedbelow:MolChainResTypeAtomsZObserved()Ideal()85AA469GC5-C480.
151.
941.
3847BN7ALACA-C79.
393.
591.
5234BA743AN9-C474.
201.
821.
3762Bc78LYSCD-CE69.
913.
261.
5134BA214AC6-N157.
251.
751.
35Theworst5of28260bondangleoutliersarelistedbelow:MolChainResTypeAtomsZObserved(o)Ideal(o)85AA469GN9-C4-C5-49.
2385.
71105.
4039BF32GP-O3'-C3'41.
15169.
07119.
7035BB1212CC6-N1-C2-40.
14104.
24120.
3085AA769CC6-N1-C2-39.
18104.
63120.
3034BA692UP-O3'-C3'38.
13165.
46119.
70All(3)chiralityoutliersarelistedbelow:MolChainResTypeAtom47BN66PROCAContinuedonnextpage.
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Page58wwPDBEMValidationSummaryReportEMD-2239,4V8MContinuedfrompreviouspage.
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MolChainResTypeAtom69Bj5ARGCA84By7ASPCA5of5934planarityoutliersarelistedbelow:MolChainResTypeGroup1A0103HISSidechain1A041ARGSidechain1A043PHESidechain1A064ARGSidechain1A083TYRSidechain5.
2Too-closecontactsiODuetosoftwareissuesweareunabletocalculateclashes-thissectionisthereforeempty.
5.
3TorsionanglesiO5.
3.
1ProteinbackboneiOInthefollowingtable,thePercentilescolumnshowsthepercentRamachandranoutliersofthechainasapercentilescorewithrespecttoallPDBentriesfollowedbythatwithrespecttoallEMentries.
TheAnalysedcolumnshowsthenumberofresiduesforwhichthebackboneconformationwasanalysed,andthetotalnumberofresidues.
MolChainAnalysedFavouredAllowedOutliersPercentiles1A0217/256(85%)180(83%)22(10%)15(7%)1142A1246/273(90%)189(77%)38(15%)19(8%)1133A2185/190(97%)159(86%)17(9%)9(5%)2204A3248/250(99%)204(82%)24(10%)20(8%)1125A4190/202(94%)148(78%)24(13%)18(10%)0106A5191/220(87%)158(83%)18(9%)15(8%)1127A6185/190(97%)135(73%)30(16%)20(11%)088A7313/318(98%)256(82%)39(12%)18(6%)1189A840/57(70%)34(85%)3(8%)3(8%)11310A964/153(42%)50(78%)9(14%)5(8%)113Continuedonnextpage.
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Page59wwPDBEMValidationSummaryReportEMD-2239,4V8MContinuedfrompreviouspage.
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MolChainAnalysedFavouredAllowedOutliersPercentiles11AC202/277(73%)162(80%)25(12%)15(7%)11312AD102/172(59%)79(78%)9(9%)14(14%)0413AE158/174(91%)126(80%)12(8%)20(13%)0514AF119/144(83%)105(88%)11(9%)3(2%)53215AG139/151(92%)120(86%)12(9%)7(5%)22016AH124/144(86%)99(80%)14(11%)11(9%)11117AI132/152(87%)100(76%)21(16%)11(8%)11218AJ127/130(98%)114(90%)7(6%)6(5%)22119AK146/149(98%)118(81%)18(12%)10(7%)11520AL125/142(88%)94(75%)19(15%)12(10%)0921AM151/153(99%)114(76%)16(11%)21(14%)0422AO147/167(88%)128(87%)10(7%)9(6%)11623AP222/266(84%)171(77%)29(13%)22(10%)0924AQ103/117(88%)86(84%)10(10%)7(7%)11525AR79/194(41%)59(75%)12(15%)8(10%)0926AS140/143(98%)111(79%)18(13%)11(8%)11227AT129/137(94%)100(78%)15(12%)14(11%)0828AU84/113(74%)66(79%)12(14%)6(7%)11429AV99/111(89%)64(65%)20(20%)15(15%)0430AW81/86(94%)61(75%)11(14%)9(11%)0731AX204/214(95%)176(86%)17(8%)11(5%)21932AY63/66(96%)46(73%)8(13%)9(14%)0433AZ66/103(64%)56(85%)7(11%)3(4%)22242BI190/193(98%)126(66%)37(20%)27(14%)0443BJ212/214(99%)186(88%)20(9%)6(3%)53044BK210/213(99%)161(77%)26(12%)23(11%)0745BL168/194(87%)134(80%)21(12%)13(8%)11346BM137/164(84%)103(75%)25(18%)9(7%)11547BN214/218(98%)158(74%)20(9%)36(17%)0348BO199/222(90%)164(82%)21(11%)14(7%)11449BP182/189(96%)149(82%)19(10%)14(8%)113Continuedonnextpage.
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Page60wwPDBEMValidationSummaryReportEMD-2239,4V8MContinuedfrompreviouspage.
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MolChainAnalysedFavouredAllowedOutliersPercentiles50BQ201/221(91%)160(80%)21(10%)20(10%)0951BR153/166(92%)121(79%)21(14%)11(7%)11452BS177/179(99%)133(75%)15(8%)29(16%)0353BT198/260(76%)168(85%)20(10%)10(5%)21954BU156/159(98%)118(76%)19(12%)19(12%)0555BV102/130(78%)84(82%)13(13%)5(5%)22056BW136/139(98%)103(76%)18(13%)15(11%)0757BX119/164(73%)97(82%)9(8%)13(11%)0858BY98/125(78%)81(83%)9(9%)8(8%)11259BZ123/143(86%)104(85%)12(10%)7(6%)11860Ba130/133(98%)93(72%)21(16%)16(12%)0561Bb142/145(98%)108(76%)19(13%)15(11%)0862Bc139/146(95%)103(74%)18(13%)18(13%)0563Bd68/71(96%)50(74%)8(12%)10(15%)0464Be184/260(71%)135(73%)32(17%)17(9%)11065Bf412/429(96%)296(72%)66(16%)50(12%)0566Bg94/105(90%)88(94%)5(5%)1(1%)145167Bh186/188(99%)155(83%)13(7%)18(10%)0968Bi127/132(96%)98(77%)18(14%)11(9%)11169Bj160/170(94%)123(77%)22(14%)15(9%)01070Bk82/127(65%)56(68%)14(17%)12(15%)0471Bl114/149(76%)84(74%)10(9%)20(18%)0372Bm105/109(96%)79(75%)8(8%)18(17%)0373Bn81/84(96%)56(69%)15(18%)10(12%)0574Bo90/93(97%)71(79%)6(7%)13(14%)0475Bp79/82(96%)59(75%)10(13%)10(13%)0576Bq48/51(94%)34(71%)6(12%)8(17%)0377Br366/374(98%)274(75%)56(15%)36(10%)0978Bs50/128(39%)44(88%)4(8%)2(4%)32379Bt103/106(97%)75(73%)16(16%)12(12%)0680Bu297/308(96%)216(73%)46(16%)35(12%)06Continuedonnextpage.
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Page61wwPDBEMValidationSummaryReportEMD-2239,4V8MContinuedfrompreviouspage.
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MolChainAnalysedFavouredAllowedOutliersPercentiles81Bv154/192(80%)114(74%)25(16%)15(10%)0982Bw255/257(99%)200(78%)33(13%)22(9%)11183Bx238/276(86%)188(79%)26(11%)24(10%)0984By187/189(99%)155(83%)15(8%)17(9%)111AllAll11687/13211(88%)9172(78%)1415(12%)1100(9%)1105of1100Ramachandranoutliersarelistedbelow:MolChainResType1A037ASN1A0119TRP1A0145THR1A0212LEU1A0225PHE5.
3.
2ProteinsidechainsiOInthefollowingtable,thePercentilescolumnshowsthepercentsidechainoutliersofthechainasapercentilescorewithrespecttoallPDBentriesfollowedbythatwithrespecttoallEMentries.
TheAnalysedcolumnshowsthenumberofresiduesforwhichthesidechainconformationwasanalysed,andthetotalnumberofresidues.
MolChainAnalysedRotamericOutliersPercentiles1A0189/218(87%)159(84%)30(16%)2142A1209/231(90%)172(82%)37(18%)2113A2158/160(99%)132(84%)26(16%)2134A3207/207(100%)174(84%)33(16%)2145A4176/187(94%)144(82%)32(18%)1106A5158/180(88%)140(89%)18(11%)5237A6162/166(98%)137(85%)25(15%)2158A7264/267(99%)232(88%)32(12%)5219A836/49(74%)32(89%)4(11%)62410A957/126(45%)52(91%)5(9%)103311AC179/243(74%)143(80%)36(20%)1812AD92/131(70%)81(88%)11(12%)521Continuedonnextpage.
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Page62wwPDBEMValidationSummaryReportEMD-2239,4V8MContinuedfrompreviouspage.
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MolChainAnalysedRotamericOutliersPercentiles13AE143/156(92%)126(88%)17(12%)52114AF102/120(85%)99(97%)3(3%)426415AG124/131(95%)110(89%)14(11%)62316AH95/112(85%)83(87%)12(13%)42017AI110/128(86%)102(93%)8(7%)144018AJ108/109(99%)90(83%)18(17%)21319AK123/124(99%)105(85%)18(15%)31620AL111/122(91%)101(91%)10(9%)93221AM133/133(100%)121(91%)12(9%)93222AO123/137(90%)107(87%)16(13%)41923AP185/204(91%)154(83%)31(17%)21224AQ94/104(90%)84(89%)10(11%)62525AR66/150(44%)55(83%)11(17%)21326AS117/118(99%)105(90%)12(10%)72627AT110/116(95%)82(74%)28(26%)0428AU73/94(78%)67(92%)6(8%)113629AV87/97(90%)74(85%)13(15%)31630AW71/75(95%)58(82%)13(18%)11031AX173/180(96%)155(90%)18(10%)72632AY52/53(98%)41(79%)11(21%)1633AZ57/84(68%)52(91%)5(9%)103342BI164/165(99%)140(85%)24(15%)31643BJ201/201(100%)189(94%)12(6%)194644BK184/185(100%)154(84%)30(16%)21345BL146/167(87%)120(82%)26(18%)21146BM114/137(83%)106(93%)8(7%)154147BN185/188(98%)142(77%)43(23%)1548BO175/195(90%)150(86%)25(14%)31749BP156/160(98%)139(89%)17(11%)62450BQ176/193(91%)147(84%)29(16%)21351BR132/144(92%)106(80%)26(20%)18Continuedonnextpage.
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Page63wwPDBEMValidationSummaryReportEMD-2239,4V8MContinuedfrompreviouspage.
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MolChainAnalysedRotamericOutliersPercentiles52BS160/160(100%)130(81%)30(19%)1953BT170/198(86%)144(85%)26(15%)21554BU133/134(99%)115(86%)18(14%)41855BV95/116(82%)85(90%)10(10%)72656BW107/108(99%)86(80%)21(20%)1857BX108/136(79%)97(90%)11(10%)72658BY85/102(83%)78(92%)7(8%)113659BZ110/125(88%)98(89%)12(11%)62460Ba116/117(99%)100(86%)16(14%)31861Bb115/116(99%)95(83%)20(17%)21162Bc124/130(95%)95(77%)29(23%)1563Bd58/59(98%)54(93%)4(7%)154264Be145/204(71%)122(84%)23(16%)21465Bf349/360(97%)305(87%)44(13%)42066Bg84/92(91%)72(86%)12(14%)31767Bh162/162(100%)136(84%)26(16%)21468Bi113/117(97%)96(85%)17(15%)31669Bj130/137(95%)105(81%)25(19%)1970Bk75/114(66%)60(80%)15(20%)1871Bl97/126(77%)81(84%)16(16%)21372Bm87/90(97%)72(83%)15(17%)21273Bn70/71(99%)55(79%)15(21%)1674Bo74/76(97%)59(80%)15(20%)1775Bp76/77(99%)68(90%)8(10%)72676Bq46/47(98%)35(76%)11(24%)0477Br304/310(98%)251(83%)53(17%)21178Bs46/111(41%)38(83%)8(17%)21179Bt94/95(99%)83(88%)11(12%)52280Bu238/247(96%)199(84%)39(16%)21381Bv132/160(82%)112(85%)20(15%)31582Bw213/213(100%)176(83%)37(17%)211Continuedonnextpage.
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Page64wwPDBEMValidationSummaryReportEMD-2239,4V8MContinuedfrompreviouspage.
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MolChainAnalysedRotamericOutliersPercentiles83Bx203/229(89%)173(85%)30(15%)31684By172/172(100%)138(80%)34(20%)18AllAll10068/11158(90%)8575(85%)1493(15%)6165of1493residueswithanon-rotamericsidechainarelistedbelow:MolChainResType47BN6ASN52BS92MET81Bv27ARG47BN93ARG49BP140HISSometimessidechainscanbeippedtoimprovehydrogenbondingandreduceclashes.
5of164suchsidechainsarelistedbelow:MolChainResType47BN10HIS51BR121GLN80Bu57ASN48BO91HIS50BQ156HIS5.
3.
3RNAiOMolChainAnalysedBackboneOutliersPuckerOutliers34BA1846/1847(99%)616(33%)225(12%)35BB1464/1465(99%)460(31%)143(9%)36BC169/169(100%)46(27%)20(11%)37BD118/119(99%)31(26%)9(7%)38BE209/210(99%)78(37%)27(12%)39BF73/73(100%)48(65%)23(31%)40BG181/182(99%)40(22%)8(4%)41BH134/135(99%)49(36%)16(11%)85AA2226/2251(98%)767(34%)312(14%)86AB72/73(98%)30(41%)7(9%)AllAll6492/6524(99%)2165(33%)790(12%)5of2165RNAbackboneoutliersarelistedbelow:Page65wwPDBEMValidationSummaryReportEMD-2239,4V8MMolChainResType34BA11U34BA13U34BA22C34BA23A34BA37A5of790RNApuckeroutliersarelistedbelow:MolChainResType35BB1482A39BF60C85AA1787G35BB1535G38BE26G5.
4Non-standardresiduesinprotein,DNA,RNAchainsiOTherearenonon-standardprotein/DNA/RNAresiduesinthisentry.
5.
5CarbohydratesiOTherearenomonosaccharidesinthisentry.
5.
6LigandgeometryiOTherearenoligandsinthisentry.
5.
7OtherpolymersiOTherearenosuchresiduesinthisentry.
5.
8PolymerlinkageissuesiOThefollowingchainshavelinkagebreaks:MolChainNumberofbreaks34BA340BG2Allchainbreaksarelistedbelow:Page66wwPDBEMValidationSummaryReportEMD-2239,4V8MModelChainResidue-1Atom-1Residue-2Atom-2Distance()1BA546:UO3'547:CP2.
111BA557:UO3'558:CP1.
871BA547:CO3'548:GP1.
781BG24:AO3'25:GP1.
391BG9:GO3'10:UP1.
37Page67wwPDBEMValidationSummaryReportEMD-2239,4V8M6MapvisualisationiOThissectioncontainsvisualisationsoftheEMDBentryEMD-2239.
Theseallowvisualinspectionoftheinternaldetailofthemapandidenticationofartifacts.
Norawmaporhalf-mapsweredepositedforthisentryandthereforenoimages,graphs,etc.
pertainingtotherawmapcanbeshown.
6.
1OrthogonalprojectionsiO6.
1.
1PrimarymapXYZTheimagesaboveshowthemapprojectedinthreeorthogonaldirections.
6.
2CentralslicesiO6.
2.
1PrimarymapXIndex:179YIndex:179ZIndex:179Page68wwPDBEMValidationSummaryReportEMD-2239,4V8MTheimagesaboveshowcentralslicesofthemapinthreeorthogonaldirections.
6.
3LargestvarianceslicesiO6.
3.
1PrimarymapXIndex:184YIndex:182ZIndex:161Theimagesaboveshowthelargestvarianceslicesofthemapinthreeorthogonaldirections.
6.
4OrthogonalsurfaceviewsiO6.
4.
1PrimarymapXYZTheimagesaboveshowthe3Dsurfaceviewofthemapattherecommendedcontourlevel108000.
0.
Theseimages,inconjunctionwiththesliceimages,mayfacilitateassessmentofwhetheranap-propriatecontourlevelhasbeenprovided.
Page69wwPDBEMValidationSummaryReportEMD-2239,4V8M6.
5MaskvisualisationiOThissectionwasnotgenerated.
Nomasks/segmentationweredeposited.
Page70wwPDBEMValidationSummaryReportEMD-2239,4V8M7MapanalysisiOThissectioncontainstheresultsofstatisticalanalysisofthemap.
7.
1Map-valuedistributioniOThemap-valuedistributionisplottedin128intervalsalongthex-axis.
They-axisislogarithmic.
Aspikeinthisgraphatzerousuallyindicatesthatthevolumehasbeenmasked.
Page71wwPDBEMValidationSummaryReportEMD-2239,4V8M7.
2VolumeestimateiOThevolumeattherecommendedcontourlevelis1820nm3;thiscorrespondstoanapproximatemassof1644kDa.
Thevolumeestimategraphshowshowtheenclosedvolumevarieswiththecontourlevel.
Therecommendedcontourlevelisshownasaverticallineandtheintersectionbetweenthelineandthecurvegivesthevolumeoftheenclosedsurfaceatthegivenlevel.
Page72wwPDBEMValidationSummaryReportEMD-2239,4V8M7.
3RotationallyaveragedpowerspectrumiO*Reportedresolutioncorrespondstospatialfrequencyof0.
1801Page73wwPDBEMValidationSummaryReportEMD-2239,4V8M8Fourier-ShellcorrelationiOFourier-ShellCorrelation(FSC)isthemostcommonlyusedmethodtoestimatetheresolutionofsingle-particleandsubtomogram-averagedmaps.
Theshapeofthecurvedependsontheimposedsymmetry,maskandwhetherornotthetwo3Dreconstructionsusedwereprocessedfromacommonreference.
Thereportedresolutionisshownasablackline.
Acurveisdisplayedforthehalf-bitcriterioninadditiontolinesshowingthe0.
143goldstandardcut-oand0.
5cut-o.
8.
1FSCiO*Reportedresolutioncorrespondstospatialfrequencyof0.
1801Page74wwPDBEMValidationSummaryReportEMD-2239,4V8M8.
2ResolutionestimatesiOResolutionestimate()Estimationcriterion(FSCcut-o)0.
1430.
5Half-bitReportedbyauthor---Author-providedFSCcurve3.
745.
153.
87Calculated*---*ResolutionestimatebasedonFSCcurvecalculatedbycomparisonofdepositedhalf-maps.
Page75wwPDBEMValidationSummaryReportEMD-2239,4V8M9Map-modeltiOThissectioncontainsinformationregardingthetbetweenEMDBmapEMD-2239andPDBmodel4V8M.
Per-residueinclusioninformationcanbefoundinsection3onpage21.
9.
1Map-modeloverlayiOXYZTheimagesaboveshowthe3Dsurfaceviewofthemapattherecommendedcontourlevel108000.
0at50%transparencyinyellowoverlaidwitharibbonrepresentationofthemodelcolouredinblue.
Theseimagesallowforthevisualassessmentofthequalityoftbetweentheatomicmodelandthemap.
Page76wwPDBEMValidationSummaryReportEMD-2239,4V8M9.
2AtominclusioniOAttherecommendedcontourlevel,75%ofallbackboneatoms,69%ofallnon-hydrogenatoms,areinsidethemap.