PDB Short entry for 5LAT HEADER OXIDOREDUCTASE 15-JUN-16 5LAT TITLE HIF PROLYL HYDROXYLASE 2 (PHD2/EGLN1) P317R 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_VECTOR: 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 4 10-JAN-24 5LAT 1 REMARK REVDAT 3 29-NOV-17 5LAT 1 REMARK REVDAT 2 07-SEP-16 5LAT 1 JRNL REVDAT 1 31-AUG-16 5LAT 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. 1.90 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) : 1.90 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 27.80 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 22455 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.151 REMARK 3 R VALUE (WORKING SET) : 0.150 REMARK 3 FREE R VALUE : 0.166 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.120 REMARK 3 FREE R VALUE TEST SET COUNT : 1149 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 27.7985 - 3.7974 0.99 2749 135 0.1551 0.1399 REMARK 3 2 3.7974 - 3.0153 0.99 2659 133 0.1372 0.1405 REMARK 3 3 3.0153 - 2.6345 1.00 2660 139 0.1382 0.1742 REMARK 3 4 2.6345 - 2.3938 1.00 2685 153 0.1416 0.1855 REMARK 3 5 2.3938 - 2.2223 1.00 2622 146 0.1474 0.1640 REMARK 3 6 2.2223 - 2.0913 1.00 2670 144 0.1501 0.1859 REMARK 3 7 2.0913 - 1.9866 1.00 2613 152 0.1718 0.2122 REMARK 3 8 1.9866 - 1.9001 1.00 2648 147 0.2030 0.2436 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 : 0.42 REMARK 3 B_SOL : 68.80 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.160 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 16.090 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 21.36 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 33.00 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.87000 REMARK 3 B22 (A**2) : -2.87000 REMARK 3 B33 (A**2) : 5.75000 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 : 0.006 1838 REMARK 3 ANGLE : 0.852 2491 REMARK 3 CHIRALITY : 0.052 261 REMARK 3 PLANARITY : 0.005 328 REMARK 3 DIHEDRAL : 14.477 1096 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 16 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: (CHAIN A AND RESID 188:204) REMARK 3 ORIGIN FOR THE GROUP (A): 21.0757 -31.7969 2.0936 REMARK 3 T TENSOR REMARK 3 T11: 0.1940 T22: 0.2217 REMARK 3 T33: 0.3657 T12: -0.0417 REMARK 3 T13: 0.0709 T23: 0.0549 REMARK 3 L TENSOR REMARK 3 L11: 0.1770 L22: 0.3915 REMARK 3 L33: 0.1513 L12: -0.1492 REMARK 3 L13: -0.0965 L23: 0.2453 REMARK 3 S TENSOR REMARK 3 S11: 0.0232 S12: 0.0135 S13: -0.1767 REMARK 3 S21: -0.0376 S22: -0.0415 S23: 0.4236 REMARK 3 S31: -0.2139 S32: -0.0463 S33: 0.0101 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN A AND RESID 205:215) REMARK 3 ORIGIN FOR THE GROUP (A): 24.4638 -23.3744 0.5152 REMARK 3 T TENSOR REMARK 3 T11: 0.1044 T22: 0.1904 REMARK 3 T33: 0.3004 T12: -0.0267 REMARK 3 T13: 0.0980 T23: 0.0269 REMARK 3 L TENSOR REMARK 3 L11: 0.6159 L22: 0.7273 REMARK 3 L33: 1.4786 L12: -0.6461 REMARK 3 L13: 0.5305 L23: -0.3743 REMARK 3 S TENSOR REMARK 3 S11: 0.2336 S12: 0.0797 S13: 0.0170 REMARK 3 S21: -0.0142 S22: 0.1046 S23: 0.3007 REMARK 3 S31: 0.0230 S32: -0.1541 S33: 0.3006 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN A AND RESID 216:232) REMARK 3 ORIGIN FOR THE GROUP (A): 33.9237 -9.5908 12.1127 REMARK 3 T TENSOR REMARK 3 T11: 0.3496 T22: 0.1888 REMARK 3 T33: 0.2430 T12: 0.0372 REMARK 3 T13: 0.1512 T23: -0.0805 REMARK 3 L TENSOR REMARK 3 L11: 0.1736 L22: 0.1572 REMARK 3 L33: 0.4189 L12: -0.0327 REMARK 3 L13: 0.1820 L23: -0.1450 REMARK 3 S TENSOR REMARK 3 S11: -0.0802 S12: -0.2442 S13: 0.2262 REMARK 3 S21: 0.2251 S22: 0.0582 S23: 0.1300 REMARK 3 S31: -0.3482 S32: -0.1791 S33: 0.0017 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN A AND RESID 233:266) REMARK 3 ORIGIN FOR THE GROUP (A): 48.6256 -11.7166 2.5278 REMARK 3 T TENSOR REMARK 3 T11: 0.1879 T22: 0.1406 REMARK 3 T33: 0.1709 T12: -0.0109 REMARK 3 T13: -0.0041 T23: 0.0094 REMARK 3 L TENSOR REMARK 3 L11: 1.1962 L22: 0.6887 REMARK 3 L33: 0.4980 L12: -0.4386 REMARK 3 L13: 0.2513 L23: 0.1301 REMARK 3 S TENSOR REMARK 3 S11: -0.0136 S12: 0.0933 S13: 0.3533 REMARK 3 S21: 0.3328 S22: -0.0962 S23: -0.2960 REMARK 3 S31: -0.0405 S32: 0.1384 S33: -0.1480 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN A AND RESID 267:283) REMARK 3 ORIGIN FOR THE GROUP (A): 31.0215 -26.6415 11.9490 REMARK 3 T TENSOR REMARK 3 T11: 0.2734 T22: 0.1638 REMARK 3 T33: 0.1214 T12: -0.0677 REMARK 3 T13: 0.2751 T23: 0.1155 REMARK 3 L TENSOR REMARK 3 L11: 0.5531 L22: 0.2320 REMARK 3 L33: 0.2077 L12: -0.3275 REMARK 3 L13: 0.1905 L23: -0.0380 REMARK 3 S TENSOR REMARK 3 S11: 0.0542 S12: -0.2716 S13: -0.1187 REMARK 3 S21: 0.3904 S22: 0.0560 S23: 0.2744 REMARK 3 S31: -0.1615 S32: -0.1032 S33: 0.3353 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: (CHAIN A AND RESID 284:293) REMARK 3 ORIGIN FOR THE GROUP (A): 31.8010 -39.7742 3.2169 REMARK 3 T TENSOR REMARK 3 T11: 0.1869 T22: 0.1681 REMARK 3 T33: 0.3280 T12: 0.0083 REMARK 3 T13: 0.0204 T23: 0.0378 REMARK 3 L TENSOR REMARK 3 L11: 0.0162 L22: 0.0013 REMARK 3 L33: 0.0771 L12: -0.0049 REMARK 3 L13: 0.0345 L23: -0.0097 REMARK 3 S TENSOR REMARK 3 S11: 0.1062 S12: 0.1008 S13: -0.1721 REMARK 3 S21: 0.0551 S22: -0.0326 S23: 0.2710 REMARK 3 S31: 0.1716 S32: 0.1321 S33: 0.0004 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: (CHAIN A AND RESID 294:306) REMARK 3 ORIGIN FOR THE GROUP (A): 41.2258 -17.4495 3.1982 REMARK 3 T TENSOR REMARK 3 T11: 0.1883 T22: 0.0985 REMARK 3 T33: 0.1095 T12: -0.0129 REMARK 3 T13: 0.0176 T23: 0.0356 REMARK 3 L TENSOR REMARK 3 L11: 0.2976 L22: 0.0030 REMARK 3 L33: 0.0017 L12: 0.0242 REMARK 3 L13: -0.0019 L23: 0.0015 REMARK 3 S TENSOR REMARK 3 S11: 0.0795 S12: -0.0668 S13: 0.1970 REMARK 3 S21: 0.0787 S22: -0.0887 S23: -0.0279 REMARK 3 S31: -0.0439 S32: 0.0040 S33: -0.0005 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: (CHAIN A AND RESID 307:320) REMARK 3 ORIGIN FOR THE GROUP (A): 43.5606 -24.6864 -8.5815 REMARK 3 T TENSOR REMARK 3 T11: 0.1764 T22: 0.1314 REMARK 3 T33: 0.1376 T12: 0.0135 REMARK 3 T13: 0.0676 T23: 0.0154 REMARK 3 L TENSOR REMARK 3 L11: 0.1515 L22: 0.1075 REMARK 3 L33: 0.0713 L12: 0.0728 REMARK 3 L13: 0.0086 L23: 0.0105 REMARK 3 S TENSOR REMARK 3 S11: -0.0211 S12: 0.1219 S13: -0.0776 REMARK 3 S21: -0.2668 S22: -0.0960 S23: -0.2437 REMARK 3 S31: 0.0658 S32: 0.0688 S33: -0.0287 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: (CHAIN A AND RESID 321:335) REMARK 3 ORIGIN FOR THE GROUP (A): 32.2107 -17.7543 0.9072 REMARK 3 T TENSOR REMARK 3 T11: 0.1052 T22: 0.1092 REMARK 3 T33: 0.2134 T12: 0.0323 REMARK 3 T13: 0.0803 T23: 0.0466 REMARK 3 L TENSOR REMARK 3 L11: 0.2941 L22: 0.0128 REMARK 3 L33: 0.3943 L12: -0.0019 REMARK 3 L13: 0.0153 L23: 0.0553 REMARK 3 S TENSOR REMARK 3 S11: 0.0553 S12: 0.0712 S13: 0.1646 REMARK 3 S21: 0.0341 S22: -0.0009 S23: 0.2383 REMARK 3 S31: 0.0120 S32: -0.1757 S33: 0.1057 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: (CHAIN A AND RESID 336:350) REMARK 3 ORIGIN FOR THE GROUP (A): 31.9449 -18.1386 -12.0988 REMARK 3 T TENSOR REMARK 3 T11: 0.2367 T22: 0.2036 REMARK 3 T33: 0.1874 T12: 0.0361 REMARK 3 T13: -0.0592 T23: 0.0211 REMARK 3 L TENSOR REMARK 3 L11: 0.2865 L22: 0.1808 REMARK 3 L33: 0.0424 L12: 0.2230 REMARK 3 L13: -0.1001 L23: -0.0870 REMARK 3 S TENSOR REMARK 3 S11: 0.0874 S12: 0.3896 S13: 0.1369 REMARK 3 S21: -0.1444 S22: 0.0021 S23: 0.3296 REMARK 3 S31: 0.1636 S32: -0.1032 S33: 0.0265 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: (CHAIN A AND RESID 351:361) REMARK 3 ORIGIN FOR THE GROUP (A): 27.6227 -17.1936 -7.3494 REMARK 3 T TENSOR REMARK 3 T11: 0.2153 T22: 0.2841 REMARK 3 T33: 0.2381 T12: 0.0605 REMARK 3 T13: -0.0109 T23: 0.0226 REMARK 3 L TENSOR REMARK 3 L11: 0.0580 L22: 0.1392 REMARK 3 L33: 0.1264 L12: 0.0823 REMARK 3 L13: -0.0870 L23: -0.1048 REMARK 3 S TENSOR REMARK 3 S11: 0.0990 S12: 0.2905 S13: 0.1996 REMARK 3 S21: -0.1698 S22: -0.0540 S23: 0.4145 REMARK 3 S31: 0.0128 S32: -0.2516 S33: 0.0133 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: (CHAIN A AND RESID 362:371) REMARK 3 ORIGIN FOR THE GROUP (A): 32.6984 -28.0094 -4.2146 REMARK 3 T TENSOR REMARK 3 T11: 0.1738 T22: 0.1499 REMARK 3 T33: 0.1675 T12: 0.0010 REMARK 3 T13: 0.0195 T23: -0.0008 REMARK 3 L TENSOR REMARK 3 L11: 0.0120 L22: 0.0310 REMARK 3 L33: 0.0096 L12: 0.0080 REMARK 3 L13: 0.0049 L23: -0.0117 REMARK 3 S TENSOR REMARK 3 S11: 0.0849 S12: 0.0942 S13: -0.0853 REMARK 3 S21: 0.0322 S22: -0.0164 S23: 0.0697 REMARK 3 S31: 0.1828 S32: -0.1483 S33: 0.0005 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: (CHAIN A AND RESID 372:381) REMARK 3 ORIGIN FOR THE GROUP (A): 36.8976 -15.1536 -9.7289 REMARK 3 T TENSOR REMARK 3 T11: 0.1812 T22: 0.1432 REMARK 3 T33: 0.1257 T12: 0.0013 REMARK 3 T13: 0.0060 T23: 0.0406 REMARK 3 L TENSOR REMARK 3 L11: 0.1250 L22: 0.0070 REMARK 3 L33: 0.0178 L12: -0.0106 REMARK 3 L13: 0.0124 L23: 0.0082 REMARK 3 S TENSOR REMARK 3 S11: -0.0024 S12: 0.2287 S13: 0.1233 REMARK 3 S21: -0.2228 S22: 0.0379 S23: 0.1044 REMARK 3 S31: -0.1527 S32: -0.1053 S33: 0.0005 REMARK 3 TLS GROUP : 14 REMARK 3 SELECTION: (CHAIN A AND RESID 382:392) REMARK 3 ORIGIN FOR THE GROUP (A): 37.7264 -22.5503 3.0130 REMARK 3 T TENSOR REMARK 3 T11: 0.1202 T22: 0.0726 REMARK 3 T33: 0.1335 T12: 0.0063 REMARK 3 T13: 0.0505 T23: 0.0176 REMARK 3 L TENSOR REMARK 3 L11: 0.0666 L22: 0.3667 REMARK 3 L33: 0.1334 L12: -0.0875 REMARK 3 L13: 0.0755 L23: -0.0573 REMARK 3 S TENSOR REMARK 3 S11: -0.0571 S12: -0.0350 S13: -0.0817 REMARK 3 S21: 0.1452 S22: 0.1230 S23: 0.1634 REMARK 3 S31: -0.0602 S32: -0.1152 S33: 0.0016 REMARK 3 TLS GROUP : 15 REMARK 3 SELECTION: (CHAIN A AND RESID 393:404) REMARK 3 ORIGIN FOR THE GROUP (A): 48.6650 -40.4287 0.3450 REMARK 3 T TENSOR REMARK 3 T11: 0.1820 T22: 0.1374 REMARK 3 T33: 0.1980 T12: -0.0159 REMARK 3 T13: 0.0036 T23: 0.0086 REMARK 3 L TENSOR REMARK 3 L11: 0.0094 L22: 0.0075 REMARK 3 L33: 0.0129 L12: 0.0030 REMARK 3 L13: -0.0059 L23: -0.0095 REMARK 3 S TENSOR REMARK 3 S11: 0.0565 S12: -0.0167 S13: 0.0830 REMARK 3 S21: -0.0479 S22: -0.0018 S23: -0.0279 REMARK 3 S31: 0.0136 S32: 0.1557 S33: -0.0001 REMARK 3 TLS GROUP : 16 REMARK 3 SELECTION: (CHAIN A AND RESID 408:411) REMARK 3 ORIGIN FOR THE GROUP (A): 62.6601 -44.0361 11.0366 REMARK 3 T TENSOR REMARK 3 T11: 0.6900 T22: 0.8677 REMARK 3 T33: 0.6002 T12: 0.0628 REMARK 3 T13: -0.1329 T23: -0.0777 REMARK 3 L TENSOR REMARK 3 L11: 0.0351 L22: 0.0219 REMARK 3 L33: 0.0027 L12: -0.0227 REMARK 3 L13: 0.0093 L23: -0.0072 REMARK 3 S TENSOR REMARK 3 S11: 0.0035 S12: -0.0450 S13: 0.0174 REMARK 3 S21: 0.0359 S22: -0.0462 S23: 0.0318 REMARK 3 S31: 0.0026 S32: 0.0080 S33: 0.0001 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 5LAT 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_1200000446. 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 : 5.6 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 : 22463 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 27.800 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 REMARK 200 DATA REDUNDANCY : 2.800 REMARK 200 R MERGE (I) : 0.08800 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 9.1000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.90 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.8 REMARK 200 DATA REDUNDANCY IN SHELL : 2.90 REMARK 200 R MERGE FOR SHELL (I) : 0.35400 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.900 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 (%): 57.19 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.87 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M TRI-SODIUM CITRATE PH 5.6, 20% REMARK 280 PEG 4000, 20% 2-PROPANOL, VAPOR DIFFUSION, SITTING DROP, REMARK 280 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 20.01400 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 20.01400 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 20.01400 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: 1060 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11450 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -14.0 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 244 CG CD CE NZ REMARK 470 SER A 245 OG REMARK 470 SER A 248 OG REMARK 470 LYS A 249 CG CD CE NZ REMARK 470 LYS A 337 CG CD CE NZ REMARK 470 LYS A 350 CD CE NZ REMARK 470 ARG A 370 CZ NH1 NH2 REMARK 470 LYS A 400 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: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 H SER A 289 HO1 GOL A 503 1.16 REMARK 500 O HOH A 710 O HOH A 754 2.05 REMARK 500 O HOH A 714 O HOH A 757 2.12 REMARK 500 O HOH A 693 O HOH A 735 2.19 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 -57.84 -133.32 REMARK 500 LEU A 330 39.48 -140.48 REMARK 500 PHE A 346 76.31 -116.81 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 90.6 REMARK 620 3 HIS A 374 NE2 87.3 89.6 REMARK 620 4 UN9 A 502 O13 99.9 166.9 83.2 REMARK 620 5 UN9 A 502 N8 87.0 118.3 151.6 70.4 REMARK 620 6 HOH A 623 O 169.6 85.6 102.3 85.2 86.2 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 GOL A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BCT 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 DBREF 5LAT A 181 426 UNP Q9GZT9 EGLN1_HUMAN 181 426 SEQADV 5LAT GLY A 175 UNP Q9GZT9 EXPRESSION TAG SEQADV 5LAT SER A 176 UNP Q9GZT9 EXPRESSION TAG SEQADV 5LAT HIS A 177 UNP Q9GZT9 EXPRESSION TAG SEQADV 5LAT MET A 178 UNP Q9GZT9 EXPRESSION TAG SEQADV 5LAT ALA A 179 UNP Q9GZT9 EXPRESSION TAG SEQADV 5LAT SER A 180 UNP Q9GZT9 EXPRESSION TAG SEQADV 5LAT ARG A 317 UNP Q9GZT9 PRO 317 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 ARG 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 ARG 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 GOL A 503 14 HET BCT A 504 5 HETNAM MN MANGANESE (II) ION HETNAM UN9 N-[(1-CHLORO-4-HYDROXYISOQUINOLIN-3-YL)CARBONYL]GLYCINE HETNAM GOL GLYCEROL HETNAM BCT BICARBONATE ION HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 MN MN 2+ FORMUL 3 UN9 C12 H9 CL N2 O4 FORMUL 4 GOL C3 H8 O3 FORMUL 5 BCT C H O3 1- FORMUL 6 HOH *186(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 ASN A 284 1 19 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 VAL A 324 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 ILE A 259 O ALA A 298 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 VAL A 324 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 VAL A 376 N TYR A 310 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 2.05 LINK NE2 HIS A 313 MN MN A 501 1555 1555 2.21 LINK OD1 ASP A 315 MN MN A 501 1555 1555 2.15 LINK NE2 HIS A 374 MN MN A 501 1555 1555 2.17 LINK MN MN A 501 O13 UN9 A 502 1555 1555 2.15 LINK MN MN A 501 N8 UN9 A 502 1555 1555 2.32 LINK MN MN A 501 O HOH A 623 1555 1555 2.20 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 15 ASP A 254 MET A 299 TYR A 303 TYR A 310 SITE 2 AC2 15 HIS A 313 ASP A 315 TYR A 329 LEU A 343 SITE 3 AC2 15 HIS A 374 VAL A 376 ARG A 383 ARG A 398 SITE 4 AC2 15 MN A 501 HOH A 620 HOH A 623 SITE 1 AC3 7 GLN A 243 ASP A 250 GLY A 288 SER A 289 SITE 2 AC3 7 TYR A 290 TRP A 367 ARG A 371 SITE 1 AC4 5 ARG A 312 PRO A 373 HOH A 604 HOH A 605 SITE 2 AC4 5 HOH A 612 CRYST1 111.182 111.182 40.028 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 0.008994 0.005193 0.000000 0.00000 SCALE2 0.000000 0.010386 0.000000 0.00000 SCALE3 0.000000 0.000000 0.024983 0.00000