PDB Short entry for 5LB6 HEADER OXIDOREDUCTASE 15-JUN-16 5LB6 TITLE HIF PROLYL HYDROXYLASE 2 (PHD2/EGLN1) R371H VARIANT IN COMPLEX WITH TITLE 2 MN(II) AND N-[(1-CHLORO-4-HYDROXYISOQUINOLIN-3-YL)CARBONYL]GLYCINE TITLE 3 (IOX3/UN9) COMPND MOL_ID: 1; COMPND 2 MOLECULE: EGL NINE HOMOLOG 1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: CATALYTIC DOMAIN, UNP RESIDUES 181-426; COMPND 5 SYNONYM: HYPOXIA-INDUCIBLE FACTOR PROLYL HYDROXYLASE 2,HPH-2,PROLYL COMPND 6 HYDROXYLASE DOMAIN-CONTAINING PROTEIN 2,PHD2,SM-20; COMPND 7 EC: 1.14.11.29; COMPND 8 ENGINEERED: YES; COMPND 9 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: EGLN1, C1ORF12, PNAS-118, PNAS-137; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET28A(+) KEYWDS OXIDOREDUCTASE, NON-HEME DIOXYGENASE, IRON, 2-OXOGLUTARATE, HYPOXIA- KEYWDS 2 INDUCIBLE FACTOR, HIF, HIF PROLYL HYDROXYLASE DOMAIN 2, PHD2, EGLN1, KEYWDS 3 OXYGENASE, HYPOXIA, DNA-BINDING, METAL-BINDING, TRANSCRIPTION, KEYWDS 4 HELIX-LOOP-HELIX-BETA, DSBH, FACIAL TRIAD, CYTOPLASM, KEYWDS 5 TRANSCRIPTION/EPIGENETIC REGULATION, SIGNALING, DEVELOPMENT, CELL KEYWDS 6 STRUCTURE, BETA-HYDROXYLATION, TRANSCRIPTION ACTIVATOR/INHIBITOR, KEYWDS 7 UBL CONJUGATION, POLYMORPHISM, VITAMIN C, ZINC-FINGER, FAMILIAL KEYWDS 8 ERYTHROCYTOSIS, BREAST CANCER, TRANSCRIPTION COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR R.CHOWDHURY,C.J.SCHOFIELD REVDAT 3 10-JAN-24 5LB6 1 LINK REVDAT 2 07-SEP-16 5LB6 1 JRNL REVDAT 1 31-AUG-16 5LB6 0 JRNL AUTH R.CHOWDHURY,I.K.LEUNG,Y.M.TIAN,M.I.ABBOUD,W.GE,C.DOMENE, JRNL AUTH 2 F.X.CANTRELLE,I.LANDRIEU,A.P.HARDY,C.W.PUGH,P.J.RATCLIFFE, JRNL AUTH 3 T.D.CLARIDGE,C.J.SCHOFIELD JRNL TITL STRUCTURAL BASIS FOR OXYGEN DEGRADATION DOMAIN SELECTIVITY JRNL TITL 2 OF THE HIF PROLYL HYDROXYLASES. JRNL REF NAT COMMUN V. 7 12673 2016 JRNL REFN ESSN 2041-1723 JRNL PMID 27561929 JRNL DOI 10.1038/NCOMMS12673 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH R.CHOWDHURY,J.I.CANDELA-LENA,M.C.CHAN,D.J.GREENALD,K.K.YEOH, REMARK 1 AUTH 2 Y.M.TIAN,M.A.MCDONOUGH,A.TUMBER,N.R.ROSE,A.CONEJO-GARCIA, REMARK 1 AUTH 3 M.DEMETRIADES,S.MATHAVAN,A.KAWAMURA,M.K.LEE,F.VAN EEDEN, REMARK 1 AUTH 4 C.W.PUGH,P.J.RATCLIFFE,C.J.SCHOFIELD REMARK 1 TITL SELECTIVE SMALL MOLECULE PROBES FOR THE HYPOXIA INDUCIBLE REMARK 1 TITL 2 FACTOR (HIF) PROLYL HYDROXYLASES. REMARK 1 REF ACS CHEM. BIOL. V. 8 1488 2013 REMARK 1 REFN ESSN 1554-8937 REMARK 1 PMID 23683440 REMARK 1 DOI 10.1021/CB400088Q REMARK 1 REFERENCE 2 REMARK 1 AUTH R.CHOWDHURY,M.A.MCDONOUGH,J.MECINOVIC,C.LOENARZ,E.FLASHMAN, REMARK 1 AUTH 2 K.S.HEWITSON,C.DOMENE,C.J.SCHOFIELD REMARK 1 TITL STRUCTURAL BASIS FOR BINDING OF HYPOXIA-INDUCIBLE FACTOR TO REMARK 1 TITL 2 THE OXYGEN-SENSING PROLYL HYDROXYLASES. REMARK 1 REF STRUCTURE V. 17 981 2009 REMARK 1 REFN ISSN 0969-2126 REMARK 1 PMID 19604478 REMARK 1 DOI 10.1016/J.STR.2009.06.002 REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.10_2155: ???) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 36.39 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 31646 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.146 REMARK 3 R VALUE (WORKING SET) : 0.145 REMARK 3 FREE R VALUE : 0.168 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.620 REMARK 3 FREE R VALUE TEST SET COUNT : 1462 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 36.3936 - 3.6615 0.99 3110 148 0.1536 0.1670 REMARK 3 2 3.6615 - 2.9066 1.00 3063 130 0.1408 0.1814 REMARK 3 3 2.9066 - 2.5393 1.00 3030 132 0.1391 0.1599 REMARK 3 4 2.5393 - 2.3072 1.00 3005 181 0.1352 0.1707 REMARK 3 5 2.3072 - 2.1418 1.00 3008 134 0.1348 0.1328 REMARK 3 6 2.1418 - 2.0156 1.00 3009 141 0.1354 0.1707 REMARK 3 7 2.0156 - 1.9146 1.00 2989 147 0.1389 0.1776 REMARK 3 8 1.9146 - 1.8313 1.00 2977 156 0.1456 0.1549 REMARK 3 9 1.8313 - 1.7608 1.00 3014 142 0.1696 0.1839 REMARK 3 10 1.7608 - 1.7000 1.00 2979 151 0.1795 0.2122 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : 0.43 REMARK 3 B_SOL : 56.60 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.120 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 14.640 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 20.10 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 34.00 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.91000 REMARK 3 B22 (A**2) : -0.91000 REMARK 3 B33 (A**2) : 1.82000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.012 1857 REMARK 3 ANGLE : 1.215 2525 REMARK 3 CHIRALITY : 0.072 265 REMARK 3 PLANARITY : 0.009 332 REMARK 3 DIHEDRAL : 14.891 1095 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 15 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN A AND RESID 188:204) REMARK 3 ORIGIN FOR THE GROUP (A): 72.7317 130.5618 2.9369 REMARK 3 T TENSOR REMARK 3 T11: 0.2042 T22: 0.2782 REMARK 3 T33: 0.5397 T12: 0.0408 REMARK 3 T13: -0.1044 T23: 0.0382 REMARK 3 L TENSOR REMARK 3 L11: 1.5498 L22: 2.5324 REMARK 3 L33: 4.2489 L12: -0.5035 REMARK 3 L13: 1.1347 L23: -1.5974 REMARK 3 S TENSOR REMARK 3 S11: 0.0593 S12: -0.1932 S13: -0.3649 REMARK 3 S21: 0.0263 S22: 0.0533 S23: -0.5512 REMARK 3 S31: 0.2457 S32: -0.0308 S33: -0.1250 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN A AND RESID 205:215) REMARK 3 ORIGIN FOR THE GROUP (A): 63.5043 128.9652 1.6105 REMARK 3 T TENSOR REMARK 3 T11: 0.2271 T22: 0.1966 REMARK 3 T33: 0.4153 T12: 0.0483 REMARK 3 T13: -0.0669 T23: 0.0662 REMARK 3 L TENSOR REMARK 3 L11: 0.4628 L22: 2.4473 REMARK 3 L33: 3.8028 L12: 1.0415 REMARK 3 L13: -0.3279 L23: -1.2861 REMARK 3 S TENSOR REMARK 3 S11: 0.1401 S12: -0.1485 S13: -0.5172 REMARK 3 S21: 0.0507 S22: 0.1860 S23: -0.3112 REMARK 3 S31: 0.3633 S32: 0.1232 S33: -0.1959 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN A AND RESID 216:232) REMARK 3 ORIGIN FOR THE GROUP (A): 47.3434 130.0953 13.1713 REMARK 3 T TENSOR REMARK 3 T11: 0.3644 T22: 0.2754 REMARK 3 T33: 0.2397 T12: -0.1070 REMARK 3 T13: -0.0287 T23: 0.1337 REMARK 3 L TENSOR REMARK 3 L11: 7.0183 L22: 4.9028 REMARK 3 L33: 1.3229 L12: -4.3961 REMARK 3 L13: 0.0076 L23: -0.0379 REMARK 3 S TENSOR REMARK 3 S11: 0.0691 S12: -0.3403 S13: -0.5035 REMARK 3 S21: 0.5155 S22: -0.0417 S23: 0.3939 REMARK 3 S31: 0.3507 S32: -0.1390 S33: -0.0761 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN A AND RESID 233:266) REMARK 3 ORIGIN FOR THE GROUP (A): 41.2354 144.0243 3.1150 REMARK 3 T TENSOR REMARK 3 T11: 0.1888 T22: 0.1991 REMARK 3 T33: 0.2269 T12: -0.0222 REMARK 3 T13: 0.0009 T23: -0.0102 REMARK 3 L TENSOR REMARK 3 L11: 2.5584 L22: 2.9768 REMARK 3 L33: 3.4748 L12: -0.1627 REMARK 3 L13: 0.7956 L23: -0.1874 REMARK 3 S TENSOR REMARK 3 S11: 0.1345 S12: -0.1600 S13: 0.1276 REMARK 3 S21: 0.0463 S22: -0.1597 S23: 0.5837 REMARK 3 S31: -0.1383 S32: -0.2650 S33: 0.0153 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN A AND RESID 267:283) REMARK 3 ORIGIN FOR THE GROUP (A): 63.0129 136.3077 13.1250 REMARK 3 T TENSOR REMARK 3 T11: 0.3156 T22: 0.3474 REMARK 3 T33: 0.2459 T12: -0.0545 REMARK 3 T13: -0.2109 T23: 0.1697 REMARK 3 L TENSOR REMARK 3 L11: 2.1065 L22: 1.4239 REMARK 3 L33: 0.6148 L12: 0.1731 REMARK 3 L13: -0.6383 L23: 0.1478 REMARK 3 S TENSOR REMARK 3 S11: 0.0893 S12: -0.5792 S13: -0.2237 REMARK 3 S21: 0.4828 S22: -0.1079 S23: -0.4294 REMARK 3 S31: 0.2405 S32: 0.0264 S33: 0.1976 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: (CHAIN A AND RESID 284:293) REMARK 3 ORIGIN FOR THE GROUP (A): 74.0998 144.0923 3.7090 REMARK 3 T TENSOR REMARK 3 T11: 0.2095 T22: 0.2277 REMARK 3 T33: 0.4217 T12: -0.0036 REMARK 3 T13: -0.0719 T23: 0.0062 REMARK 3 L TENSOR REMARK 3 L11: 2.5686 L22: 3.1408 REMARK 3 L33: 1.9384 L12: -1.6128 REMARK 3 L13: -2.1159 L23: 1.9442 REMARK 3 S TENSOR REMARK 3 S11: 0.1003 S12: -0.2694 S13: -0.2493 REMARK 3 S21: 0.1269 S22: 0.0039 S23: -0.5910 REMARK 3 S31: 0.1457 S32: 0.2395 S33: -0.0910 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: (CHAIN A AND RESID 294:306) REMARK 3 ORIGIN FOR THE GROUP (A): 50.1668 140.6879 4.1068 REMARK 3 T TENSOR REMARK 3 T11: 0.1505 T22: 0.1691 REMARK 3 T33: 0.1319 T12: -0.0291 REMARK 3 T13: -0.0267 T23: 0.0043 REMARK 3 L TENSOR REMARK 3 L11: 4.6627 L22: 1.9238 REMARK 3 L33: 1.1963 L12: 1.3788 REMARK 3 L13: 1.2890 L23: 0.4198 REMARK 3 S TENSOR REMARK 3 S11: 0.0707 S12: -0.1095 S13: -0.0382 REMARK 3 S21: 0.0738 S22: -0.0432 S23: 0.1525 REMARK 3 S31: 0.0331 S32: 0.0055 S33: -0.0581 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: (CHAIN A AND RESID 307:320) REMARK 3 ORIGIN FOR THE GROUP (A): 54.7316 145.7186 -7.1745 REMARK 3 T TENSOR REMARK 3 T11: 0.1973 T22: 0.1750 REMARK 3 T33: 0.1624 T12: -0.0239 REMARK 3 T13: -0.0435 T23: 0.0503 REMARK 3 L TENSOR REMARK 3 L11: 3.5731 L22: 2.2619 REMARK 3 L33: 1.4979 L12: 1.7978 REMARK 3 L13: 0.9704 L23: 0.7290 REMARK 3 S TENSOR REMARK 3 S11: -0.2000 S12: 0.3263 S13: 0.3939 REMARK 3 S21: -0.2803 S22: 0.0353 S23: 0.0584 REMARK 3 S31: -0.1707 S32: 0.0383 S33: 0.1292 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: (CHAIN A AND RESID 321:335) REMARK 3 ORIGIN FOR THE GROUP (A): 55.8167 133.9287 1.7945 REMARK 3 T TENSOR REMARK 3 T11: 0.1641 T22: 0.1162 REMARK 3 T33: 0.2224 T12: 0.0031 REMARK 3 T13: -0.0751 T23: 0.0362 REMARK 3 L TENSOR REMARK 3 L11: 2.1660 L22: 2.7492 REMARK 3 L33: 1.3108 L12: 1.4101 REMARK 3 L13: 0.0186 L23: 0.2418 REMARK 3 S TENSOR REMARK 3 S11: 0.0837 S12: -0.0026 S13: -0.3380 REMARK 3 S21: -0.1120 S22: -0.0208 S23: 0.0210 REMARK 3 S31: 0.2844 S32: 0.0712 S33: -0.0165 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: (CHAIN A AND RESID 336:350) REMARK 3 ORIGIN FOR THE GROUP (A): 54.9214 132.4775 -11.1504 REMARK 3 T TENSOR REMARK 3 T11: 0.3382 T22: 0.2890 REMARK 3 T33: 0.2248 T12: -0.0300 REMARK 3 T13: 0.0061 T23: -0.0950 REMARK 3 L TENSOR REMARK 3 L11: 2.8617 L22: 0.7896 REMARK 3 L33: 1.8645 L12: -1.4555 REMARK 3 L13: -0.0638 L23: 0.3350 REMARK 3 S TENSOR REMARK 3 S11: -0.0784 S12: 0.5137 S13: -0.5096 REMARK 3 S21: -0.7347 S22: 0.1028 S23: -0.1027 REMARK 3 S31: 0.1440 S32: 0.2789 S33: -0.0647 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: (CHAIN A AND RESID 351:361) REMARK 3 ORIGIN FOR THE GROUP (A): 56.7809 128.8347 -6.5660 REMARK 3 T TENSOR REMARK 3 T11: 0.2679 T22: 0.1709 REMARK 3 T33: 0.2781 T12: 0.0163 REMARK 3 T13: -0.0043 T23: -0.0278 REMARK 3 L TENSOR REMARK 3 L11: 2.1611 L22: 2.8469 REMARK 3 L33: 7.7463 L12: 0.3473 REMARK 3 L13: -0.3614 L23: -1.5164 REMARK 3 S TENSOR REMARK 3 S11: 0.0088 S12: 0.2010 S13: -0.5770 REMARK 3 S21: -0.4247 S22: 0.0082 S23: -0.3834 REMARK 3 S31: 0.4536 S32: 0.2640 S33: 0.0251 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: (CHAIN A AND RESID 362:371) REMARK 3 ORIGIN FOR THE GROUP (A): 63.4636 139.0171 -3.5661 REMARK 3 T TENSOR REMARK 3 T11: 0.1655 T22: 0.1908 REMARK 3 T33: 0.2105 T12: 0.0012 REMARK 3 T13: 0.0020 T23: -0.0033 REMARK 3 L TENSOR REMARK 3 L11: 1.2982 L22: 1.4368 REMARK 3 L33: 0.8371 L12: -1.1803 REMARK 3 L13: 0.8948 L23: -0.6040 REMARK 3 S TENSOR REMARK 3 S11: 0.0981 S12: 0.1555 S13: -0.2047 REMARK 3 S21: -0.0921 S22: -0.0693 S23: -0.4492 REMARK 3 S31: 0.0988 S32: 0.2924 S33: -0.0620 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: (CHAIN A AND RESID 372:381) REMARK 3 ORIGIN FOR THE GROUP (A): 50.3645 135.8590 -8.8841 REMARK 3 T TENSOR REMARK 3 T11: 0.2200 T22: 0.2291 REMARK 3 T33: 0.1554 T12: -0.0284 REMARK 3 T13: -0.0422 T23: -0.0286 REMARK 3 L TENSOR REMARK 3 L11: 4.8013 L22: 2.1652 REMARK 3 L33: 1.0269 L12: 2.3966 REMARK 3 L13: -0.5357 L23: -0.1667 REMARK 3 S TENSOR REMARK 3 S11: -0.1094 S12: 0.4718 S13: -0.2693 REMARK 3 S21: -0.4460 S22: 0.0554 S23: 0.0421 REMARK 3 S31: 0.1457 S32: -0.1161 S33: 0.0347 REMARK 3 TLS GROUP : 14 REMARK 3 SELECTION: (CHAIN A AND RESID 382:392) REMARK 3 ORIGIN FOR THE GROUP (A): 56.3115 140.2366 3.8972 REMARK 3 T TENSOR REMARK 3 T11: 0.1374 T22: 0.1465 REMARK 3 T33: 0.1472 T12: -0.0266 REMARK 3 T13: -0.0429 T23: 0.0220 REMARK 3 L TENSOR REMARK 3 L11: 1.3542 L22: 1.2880 REMARK 3 L33: 0.6153 L12: 0.7431 REMARK 3 L13: 0.1912 L23: 0.1101 REMARK 3 S TENSOR REMARK 3 S11: 0.1831 S12: -0.1827 S13: -0.0991 REMARK 3 S21: 0.1410 S22: -0.1706 S23: -0.1164 REMARK 3 S31: 0.0778 S32: -0.0132 S33: -0.0259 REMARK 3 TLS GROUP : 15 REMARK 3 SELECTION: (CHAIN A AND RESID 393:404) REMARK 3 ORIGIN FOR THE GROUP (A): 66.6657 158.3818 1.9016 REMARK 3 T TENSOR REMARK 3 T11: 0.1656 T22: 0.1932 REMARK 3 T33: 0.2782 T12: -0.0078 REMARK 3 T13: -0.0145 T23: 0.0125 REMARK 3 L TENSOR REMARK 3 L11: 4.1112 L22: 5.1749 REMARK 3 L33: 3.6594 L12: -1.0823 REMARK 3 L13: -0.8451 L23: 1.0147 REMARK 3 S TENSOR REMARK 3 S11: 0.0633 S12: 0.1238 S13: 0.1175 REMARK 3 S21: -0.0608 S22: 0.0189 S23: 0.6059 REMARK 3 S31: -0.3102 S32: -0.2878 S33: -0.1208 REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5LB6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 15-JUN-16. REMARK 100 THE DEPOSITION ID IS D_1200000462. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-NOV-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I04 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795 REMARK 200 MONOCHROMATOR : SI 111 REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 31671 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 37.240 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 10.50 REMARK 200 R MERGE (I) : 0.08600 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 16.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.79 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 10.70 REMARK 200 R MERGE FOR SHELL (I) : 0.49800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 4.400 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 4BQX REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.68 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.90 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M MES-NA PH 6.5, 30% POLYETHYLENE REMARK 280 GLYCOL MONOMETHYL ETHER 5000, 0.2 M AMMONIUM SULPHATE, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 63 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z REMARK 290 3555 -X+Y,-X,Z REMARK 290 4555 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+1/2 REMARK 290 6555 X-Y,X,Z+1/2 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 20.19000 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 20.19000 REMARK 290 SMTRY1 6 0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 20.19000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 SEE REMARK 350 FOR THE AUTHOR PROVIDED AND/OR PROGRAM REMARK 300 GENERATED ASSEMBLY INFORMATION FOR THE STRUCTURE IN REMARK 300 THIS ENTRY. THE REMARK MAY ALSO PROVIDE INFORMATION ON REMARK 300 BURIED SURFACE AREA. REMARK 350 REMARK 350 COORDINATES FOR A COMPLETE MULTIMER REPRESENTING THE KNOWN REMARK 350 BIOLOGICALLY SIGNIFICANT OLIGOMERIZATION STATE OF THE REMARK 350 MOLECULE CAN BE GENERATED BY APPLYING BIOMT TRANSFORMATIONS REMARK 350 GIVEN BELOW. BOTH NON-CRYSTALLOGRAPHIC AND REMARK 350 CRYSTALLOGRAPHIC OPERATIONS ARE GIVEN. REMARK 350 REMARK 350 BIOMOLECULE: 1 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1030 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11510 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -23.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 465 IDENTIFIER; SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 REMARK 465 M RES C SSSEQI REMARK 465 GLY A 175 REMARK 465 SER A 176 REMARK 465 HIS A 177 REMARK 465 MET A 178 REMARK 465 ALA A 179 REMARK 465 SER A 180 REMARK 465 PRO A 181 REMARK 465 ASN A 182 REMARK 465 GLY A 183 REMARK 465 GLN A 184 REMARK 465 THR A 185 REMARK 465 LYS A 186 REMARK 465 PRO A 187 REMARK 465 THR A 405 REMARK 465 GLY A 406 REMARK 465 GLU A 407 REMARK 465 VAL A 412 REMARK 465 GLU A 413 REMARK 465 LEU A 414 REMARK 465 ASN A 415 REMARK 465 LYS A 416 REMARK 465 PRO A 417 REMARK 465 SER A 418 REMARK 465 ASP A 419 REMARK 465 SER A 420 REMARK 465 VAL A 421 REMARK 465 GLY A 422 REMARK 465 LYS A 423 REMARK 465 ASP A 424 REMARK 465 VAL A 425 REMARK 465 PHE A 426 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LYS A 216 CD CE NZ REMARK 470 LYS A 249 CG CD CE NZ REMARK 470 LYS A 332 CE NZ REMARK 470 LYS A 337 CE NZ REMARK 470 GLU A 348 CG CD OE1 OE2 REMARK 470 LYS A 350 CE NZ REMARK 470 LYS A 400 CD CE NZ REMARK 470 LYS A 402 CG CD CE NZ REMARK 470 TYR A 403 CG CD1 CD2 CE1 CE2 CZ OH REMARK 470 LYS A 408 CG CD CE NZ REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 CYS A 323 CB CYS A 323 SG -0.176 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 TYR A 197 -60.77 -130.72 REMARK 500 LEU A 330 37.73 -140.60 REMARK 500 GLN A 352 164.63 174.44 REMARK 500 TYR A 403 70.73 -116.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MN A 501 MN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 313 NE2 REMARK 620 2 ASP A 315 OD1 90.9 REMARK 620 3 HIS A 374 NE2 87.0 89.0 REMARK 620 4 UN9 A 502 O13 101.0 165.6 83.7 REMARK 620 5 UN9 A 502 N8 87.8 117.5 153.1 71.5 REMARK 620 6 HOH A 623 O 171.4 84.3 100.0 84.8 88.1 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MN A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue UN9 A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SO4 A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 504 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3HQR RELATED DB: PDB REMARK 900 RELATED ID: 4BQX RELATED DB: PDB REMARK 900 RELATED ID: 5L9B RELATED DB: PDB REMARK 900 RELATED ID: 5L9V RELATED DB: PDB REMARK 900 RELATED ID: 5L9R RELATED DB: PDB REMARK 900 RELATED ID: 5LA9 RELATED DB: PDB REMARK 900 RELATED ID: 5LAS RELATED DB: PDB REMARK 900 RELATED ID: 5LAT RELATED DB: PDB DBREF 5LB6 A 181 426 UNP Q9GZT9 EGLN1_HUMAN 181 426 SEQADV 5LB6 GLY A 175 UNP Q9GZT9 EXPRESSION TAG SEQADV 5LB6 SER A 176 UNP Q9GZT9 EXPRESSION TAG SEQADV 5LB6 HIS A 177 UNP Q9GZT9 EXPRESSION TAG SEQADV 5LB6 MET A 178 UNP Q9GZT9 EXPRESSION TAG SEQADV 5LB6 ALA A 179 UNP Q9GZT9 EXPRESSION TAG SEQADV 5LB6 SER A 180 UNP Q9GZT9 EXPRESSION TAG SEQADV 5LB6 HIS A 371 UNP Q9GZT9 ARG 371 ENGINEERED MUTATION SEQRES 1 A 252 GLY SER HIS MET ALA SER PRO ASN GLY GLN THR LYS PRO SEQRES 2 A 252 LEU PRO ALA LEU LYS LEU ALA LEU GLU TYR ILE VAL PRO SEQRES 3 A 252 CYS MET ASN LYS HIS GLY ILE CYS VAL VAL ASP ASP PHE SEQRES 4 A 252 LEU GLY LYS GLU THR GLY GLN GLN ILE GLY ASP GLU VAL SEQRES 5 A 252 ARG ALA LEU HIS ASP THR GLY LYS PHE THR ASP GLY GLN SEQRES 6 A 252 LEU VAL SER GLN LYS SER ASP SER SER LYS ASP ILE ARG SEQRES 7 A 252 GLY ASP LYS ILE THR TRP ILE GLU GLY LYS GLU PRO GLY SEQRES 8 A 252 CYS GLU THR ILE GLY LEU LEU MET SER SER MET ASP ASP SEQRES 9 A 252 LEU ILE ARG HIS CYS ASN GLY LYS LEU GLY SER TYR LYS SEQRES 10 A 252 ILE ASN GLY ARG THR LYS ALA MET VAL ALA CYS TYR PRO SEQRES 11 A 252 GLY ASN GLY THR GLY TYR VAL ARG HIS VAL ASP ASN PRO SEQRES 12 A 252 ASN GLY ASP GLY ARG CYS VAL THR CYS ILE TYR TYR LEU SEQRES 13 A 252 ASN LYS ASP TRP ASP ALA LYS VAL SER GLY GLY ILE LEU SEQRES 14 A 252 ARG ILE PHE PRO GLU GLY LYS ALA GLN PHE ALA ASP ILE SEQRES 15 A 252 GLU PRO LYS PHE ASP ARG LEU LEU PHE PHE TRP SER ASP SEQRES 16 A 252 ARG HIS ASN PRO HIS GLU VAL GLN PRO ALA TYR ALA THR SEQRES 17 A 252 ARG TYR ALA ILE THR VAL TRP TYR PHE ASP ALA ASP GLU SEQRES 18 A 252 ARG ALA ARG ALA LYS VAL LYS TYR LEU THR GLY GLU LYS SEQRES 19 A 252 GLY VAL ARG VAL GLU LEU ASN LYS PRO SER ASP SER VAL SEQRES 20 A 252 GLY LYS ASP VAL PHE HET MN A 501 1 HET UN9 A 502 27 HET SO4 A 503 5 HET GOL A 504 6 HETNAM MN MANGANESE (II) ION HETNAM UN9 N-[(1-CHLORO-4-HYDROXYISOQUINOLIN-3-YL)CARBONYL]GLYCINE HETNAM SO4 SULFATE ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 MN MN 2+ FORMUL 3 UN9 C12 H9 CL N2 O4 FORMUL 4 SO4 O4 S 2- FORMUL 5 GOL C3 H8 O3 FORMUL 6 HOH *173(H2 O) HELIX 1 AA1 PRO A 189 TYR A 197 1 9 HELIX 2 AA2 TYR A 197 GLY A 206 1 10 HELIX 3 AA3 GLY A 215 THR A 232 1 18 HELIX 4 AA4 ASP A 246 ASP A 250 5 5 HELIX 5 AA5 CYS A 266 CYS A 283 1 18 HELIX 6 AA6 ASP A 335 GLY A 340 1 6 HELIX 7 AA7 ALA A 393 TYR A 403 1 11 SHEET 1 AA1 6 ILE A 207 VAL A 210 0 SHEET 2 AA1 6 ARG A 362 TRP A 367 -1 O LEU A 363 N VAL A 210 SHEET 3 AA1 6 ARG A 322 TYR A 329 -1 N THR A 325 O PHE A 366 SHEET 4 AA1 6 ARG A 383 ASP A 392 -1 O TYR A 390 N CYS A 323 SHEET 5 AA1 6 ALA A 298 TYR A 303 -1 N MET A 299 O THR A 387 SHEET 6 AA1 6 LYS A 255 ILE A 259 -1 N LYS A 255 O CYS A 302 SHEET 1 AA2 5 ILE A 207 VAL A 210 0 SHEET 2 AA2 5 ARG A 362 TRP A 367 -1 O LEU A 363 N VAL A 210 SHEET 3 AA2 5 ARG A 322 TYR A 329 -1 N THR A 325 O PHE A 366 SHEET 4 AA2 5 ARG A 383 ASP A 392 -1 O TYR A 390 N CYS A 323 SHEET 5 AA2 5 ILE A 292 ARG A 295 -1 N GLY A 294 O PHE A 391 SHEET 1 AA3 2 LEU A 240 SER A 242 0 SHEET 2 AA3 2 ILE A 251 ARG A 252 -1 O ILE A 251 N VAL A 241 SHEET 1 AA4 4 TYR A 310 HIS A 313 0 SHEET 2 AA4 4 HIS A 374 VAL A 376 -1 O HIS A 374 N HIS A 313 SHEET 3 AA4 4 LEU A 343 ILE A 345 -1 N ARG A 344 O GLU A 375 SHEET 4 AA4 4 ALA A 354 ILE A 356 -1 O ILE A 356 N LEU A 343 SSBOND 1 CYS A 201 CYS A 208 1555 1555 2.08 LINK NE2 HIS A 313 MN MN A 501 1555 1555 2.21 LINK OD1 ASP A 315 MN MN A 501 1555 1555 2.18 LINK NE2 HIS A 374 MN MN A 501 1555 1555 2.23 LINK MN MN A 501 O13 UN9 A 502 1555 1555 2.17 LINK MN MN A 501 N8 UN9 A 502 1555 1555 2.33 LINK MN MN A 501 O HOH A 623 1555 1555 2.18 SITE 1 AC1 5 HIS A 313 ASP A 315 HIS A 374 UN9 A 502 SITE 2 AC1 5 HOH A 623 SITE 1 AC2 14 ASP A 254 MET A 299 TYR A 303 TYR A 310 SITE 2 AC2 14 HIS A 313 ASP A 315 TYR A 329 LEU A 343 SITE 3 AC2 14 HIS A 374 VAL A 376 ARG A 383 MN A 501 SITE 4 AC2 14 HOH A 623 HOH A 636 SITE 1 AC3 1 ARG A 396 SITE 1 AC4 3 LYS A 262 ARG A 312 PRO A 373 CRYST1 111.159 111.159 40.380 90.00 90.00 120.00 P 63 6 ORIGX1 1.000000 0.000000 0.000000 0.00000 ORIGX2 0.000000 1.000000 0.000000 0.00000 ORIGX3 0.000000 0.000000 1.000000 0.00000 SCALE1 0.008996 0.005194 0.000000 0.00000 SCALE2 0.000000 0.010388 0.000000 0.00000 SCALE3 0.000000 0.000000 0.024765 0.00000