HEADER OXIDOREDUCTASE 16-JUN-16 5LBF TITLE HIF PROLYL HYDROXYLASE 2 (PHD2/EGLN1) K293K/G294E VARIANT IN COMPLEX TITLE 2 WITH MN(II) AND N-[(1-CHLORO-4-HYDROXYISOQUINOLIN-3-YL) TITLE 3 CARBONYL]GLYCINE (IOX3/FG2216) COMPND MOL_ID: 1; COMPND 2 MOLECULE: EGL NINE HOMOLOG 1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: CATALYTIC DOMAIN (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; COMPND 10 OTHER_DETAILS: FRAGMENT: CATALYTIC DOMAIN (181-426) 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(+); SOURCE 10 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 4 10-JAN-24 5LBF 1 LINK REVDAT 3 29-NOV-17 5LBF 1 REMARK REVDAT 2 07-SEP-16 5LBF 1 JRNL REVDAT 1 31-AUG-16 5LBF 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) : 47.53 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 21759 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.161 REMARK 3 R VALUE (WORKING SET) : 0.160 REMARK 3 FREE R VALUE : 0.185 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.720 REMARK 3 FREE R VALUE TEST SET COUNT : 1026 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 47.5449 - 3.6332 1.00 3039 161 0.1371 0.1505 REMARK 3 2 3.6332 - 2.8839 1.00 2995 133 0.1546 0.1921 REMARK 3 3 2.8839 - 2.5194 1.00 2927 184 0.1672 0.2065 REMARK 3 4 2.5194 - 2.2890 1.00 2929 142 0.1728 0.2182 REMARK 3 5 2.2890 - 2.1250 1.00 2962 143 0.1838 0.1889 REMARK 3 6 2.1250 - 1.9997 1.00 2953 122 0.2081 0.2827 REMARK 3 7 1.9997 - 1.8995 1.00 2928 141 0.2629 0.2744 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 : 60.20 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.210 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.940 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 35.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 51.00 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.11000 REMARK 3 B22 (A**2) : -0.11000 REMARK 3 B33 (A**2) : 0.22000 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 : 0.008 1880 REMARK 3 ANGLE : 0.947 2553 REMARK 3 CHIRALITY : 0.056 266 REMARK 3 PLANARITY : 0.006 336 REMARK 3 DIHEDRAL : 16.463 1127 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): 37.4339 2.3369 3.2714 REMARK 3 T TENSOR REMARK 3 T11: 0.4504 T22: 0.3258 REMARK 3 T33: 0.5459 T12: 0.0289 REMARK 3 T13: 0.0456 T23: 0.1579 REMARK 3 L TENSOR REMARK 3 L11: 0.3593 L22: 0.7481 REMARK 3 L33: 0.1102 L12: 0.4277 REMARK 3 L13: 0.1909 L23: 0.2394 REMARK 3 S TENSOR REMARK 3 S11: 0.3556 S12: -0.1322 S13: -0.6318 REMARK 3 S21: 0.2931 S22: -0.0346 S23: 0.3377 REMARK 3 S31: -0.0828 S32: -0.0058 S33: 0.0286 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: (CHAIN A AND RESID 205:215) REMARK 3 ORIGIN FOR THE GROUP (A): 31.5147 9.3685 2.1975 REMARK 3 T TENSOR REMARK 3 T11: 0.3947 T22: 0.3366 REMARK 3 T33: 0.3829 T12: -0.1374 REMARK 3 T13: 0.0412 T23: 0.0934 REMARK 3 L TENSOR REMARK 3 L11: 0.1227 L22: 0.2522 REMARK 3 L33: 0.5158 L12: -0.0329 REMARK 3 L13: -0.0348 L23: -0.3520 REMARK 3 S TENSOR REMARK 3 S11: 0.0866 S12: -0.1855 S13: -0.6867 REMARK 3 S21: 0.2809 S22: 0.0214 S23: -0.0078 REMARK 3 S31: 1.1197 S32: 0.1626 S33: 0.0277 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: (CHAIN A AND RESID 216:232) REMARK 3 ORIGIN FOR THE GROUP (A): 24.7020 23.9396 13.8472 REMARK 3 T TENSOR REMARK 3 T11: 0.4517 T22: 0.5530 REMARK 3 T33: 0.3790 T12: -0.0573 REMARK 3 T13: 0.2109 T23: 0.0205 REMARK 3 L TENSOR REMARK 3 L11: 1.4741 L22: 0.6204 REMARK 3 L33: 0.2001 L12: 0.9236 REMARK 3 L13: 0.4365 L23: 0.3007 REMARK 3 S TENSOR REMARK 3 S11: -0.1009 S12: -0.6284 S13: 0.5135 REMARK 3 S21: 0.2908 S22: -0.4538 S23: 1.1051 REMARK 3 S31: 0.2151 S32: -0.6063 S33: -0.2667 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: (CHAIN A AND RESID 233:266) REMARK 3 ORIGIN FOR THE GROUP (A): 33.8608 35.9406 4.0010 REMARK 3 T TENSOR REMARK 3 T11: 0.4443 T22: 0.4084 REMARK 3 T33: 0.4330 T12: -0.0084 REMARK 3 T13: -0.0140 T23: 0.0137 REMARK 3 L TENSOR REMARK 3 L11: 1.6841 L22: 1.7903 REMARK 3 L33: 1.5978 L12: 0.2919 REMARK 3 L13: -0.1163 L23: 1.6944 REMARK 3 S TENSOR REMARK 3 S11: -0.1973 S12: -0.1240 S13: 0.6733 REMARK 3 S21: -0.1284 S22: 0.0143 S23: 0.0619 REMARK 3 S31: -0.7533 S32: 0.1422 S33: 0.0004 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: (CHAIN A AND RESID 267:283) REMARK 3 ORIGIN FOR THE GROUP (A): 38.0938 13.4381 13.8738 REMARK 3 T TENSOR REMARK 3 T11: 0.4984 T22: 0.4466 REMARK 3 T33: 0.3535 T12: 0.0139 REMARK 3 T13: 0.0333 T23: 0.1540 REMARK 3 L TENSOR REMARK 3 L11: 0.6621 L22: 0.1237 REMARK 3 L33: 0.8322 L12: 0.1520 REMARK 3 L13: 0.7733 L23: 0.0875 REMARK 3 S TENSOR REMARK 3 S11: -0.1516 S12: -0.4724 S13: -0.4217 REMARK 3 S21: 0.9232 S22: -0.0663 S23: -0.0399 REMARK 3 S31: 0.5063 S32: -0.3955 S33: -0.0005 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: (CHAIN A AND RESID 284:293) REMARK 3 ORIGIN FOR THE GROUP (A): 50.1409 8.0043 5.0858 REMARK 3 T TENSOR REMARK 3 T11: 0.4005 T22: 0.4790 REMARK 3 T33: 0.5925 T12: 0.0156 REMARK 3 T13: -0.0237 T23: 0.0815 REMARK 3 L TENSOR REMARK 3 L11: 0.3154 L22: 0.1186 REMARK 3 L33: 0.0951 L12: 0.1054 REMARK 3 L13: 0.1605 L23: 0.0319 REMARK 3 S TENSOR REMARK 3 S11: -0.0422 S12: -0.3276 S13: -0.7218 REMARK 3 S21: -0.2489 S22: 0.4093 S23: -0.2920 REMARK 3 S31: 0.4117 S32: 0.6009 S33: 0.0001 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: (CHAIN A AND RESID 294:306) REMARK 3 ORIGIN FOR THE GROUP (A): 36.0807 26.3117 4.9097 REMARK 3 T TENSOR REMARK 3 T11: 0.3173 T22: 0.3485 REMARK 3 T33: 0.3499 T12: 0.0130 REMARK 3 T13: -0.0169 T23: 0.0528 REMARK 3 L TENSOR REMARK 3 L11: 0.1622 L22: 0.6974 REMARK 3 L33: 0.2404 L12: -0.1499 REMARK 3 L13: 0.0973 L23: 0.3896 REMARK 3 S TENSOR REMARK 3 S11: 0.0819 S12: -0.3232 S13: 0.4018 REMARK 3 S21: 0.1545 S22: -0.1452 S23: -0.0557 REMARK 3 S31: -0.0219 S32: -0.1742 S33: 0.0007 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: (CHAIN A AND RESID 307:320) REMARK 3 ORIGIN FOR THE GROUP (A): 41.5727 25.1939 -6.7949 REMARK 3 T TENSOR REMARK 3 T11: 0.3285 T22: 0.3661 REMARK 3 T33: 0.3661 T12: 0.0051 REMARK 3 T13: 0.0127 T23: 0.1055 REMARK 3 L TENSOR REMARK 3 L11: 0.6357 L22: 0.5859 REMARK 3 L33: 0.6181 L12: 0.1693 REMARK 3 L13: -0.2960 L23: -0.3079 REMARK 3 S TENSOR REMARK 3 S11: -0.0010 S12: 0.0594 S13: 0.7470 REMARK 3 S21: -0.3369 S22: -0.1141 S23: -0.5717 REMARK 3 S31: -0.1209 S32: 0.0199 S33: 0.0001 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: (CHAIN A AND RESID 321:335) REMARK 3 ORIGIN FOR THE GROUP (A): 31.2387 18.7086 2.4847 REMARK 3 T TENSOR REMARK 3 T11: 0.2574 T22: 0.3353 REMARK 3 T33: 0.3325 T12: -0.0226 REMARK 3 T13: 0.0323 T23: 0.1000 REMARK 3 L TENSOR REMARK 3 L11: 0.6521 L22: 2.0066 REMARK 3 L33: 1.2678 L12: -0.2248 REMARK 3 L13: 0.8313 L23: -0.0477 REMARK 3 S TENSOR REMARK 3 S11: 0.1511 S12: -0.1847 S13: -0.2296 REMARK 3 S21: 0.1004 S22: -0.0792 S23: 0.2371 REMARK 3 S31: 0.1496 S32: -0.2161 S33: -0.0000 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: (CHAIN A AND RESID 336:350) REMARK 3 ORIGIN FOR THE GROUP (A): 30.5672 18.1861 -10.7830 REMARK 3 T TENSOR REMARK 3 T11: 0.3258 T22: 0.4373 REMARK 3 T33: 0.3600 T12: 0.0133 REMARK 3 T13: -0.0045 T23: -0.0315 REMARK 3 L TENSOR REMARK 3 L11: 0.4305 L22: 0.8343 REMARK 3 L33: 0.3928 L12: 0.5694 REMARK 3 L13: 0.2698 L23: 0.5726 REMARK 3 S TENSOR REMARK 3 S11: -0.1303 S12: 0.9999 S13: -1.0206 REMARK 3 S21: -0.6222 S22: -0.1949 S23: 0.4421 REMARK 3 S31: 0.1887 S32: -0.4493 S33: -0.0020 REMARK 3 TLS GROUP : 11 REMARK 3 SELECTION: (CHAIN A AND RESID 351:361) REMARK 3 ORIGIN FOR THE GROUP (A): 28.0049 15.0776 -5.8276 REMARK 3 T TENSOR REMARK 3 T11: 0.3825 T22: 0.4681 REMARK 3 T33: 0.3756 T12: -0.0702 REMARK 3 T13: 0.0004 T23: 0.0003 REMARK 3 L TENSOR REMARK 3 L11: 0.4942 L22: 0.4360 REMARK 3 L33: 0.6987 L12: -0.1132 REMARK 3 L13: 0.2940 L23: 0.1362 REMARK 3 S TENSOR REMARK 3 S11: -0.2825 S12: 0.3151 S13: -0.4981 REMARK 3 S21: 0.1000 S22: -0.0454 S23: 0.4812 REMARK 3 S31: 0.6636 S32: -0.5322 S33: -0.0316 REMARK 3 TLS GROUP : 12 REMARK 3 SELECTION: (CHAIN A AND RESID 362:371) REMARK 3 ORIGIN FOR THE GROUP (A): 40.2308 14.2604 -3.1607 REMARK 3 T TENSOR REMARK 3 T11: 0.3137 T22: 0.3032 REMARK 3 T33: 0.3168 T12: -0.0058 REMARK 3 T13: 0.0311 T23: 0.0684 REMARK 3 L TENSOR REMARK 3 L11: 0.5193 L22: 0.8695 REMARK 3 L33: 0.5971 L12: -0.3454 REMARK 3 L13: 0.3211 L23: 0.3223 REMARK 3 S TENSOR REMARK 3 S11: -0.0299 S12: -0.1992 S13: 0.1391 REMARK 3 S21: -0.1340 S22: 0.0308 S23: -0.1223 REMARK 3 S31: 0.2906 S32: 0.2244 S33: 0.0001 REMARK 3 TLS GROUP : 13 REMARK 3 SELECTION: (CHAIN A AND RESID 372:381) REMARK 3 ORIGIN FOR THE GROUP (A): 30.8426 24.0840 -8.2877 REMARK 3 T TENSOR REMARK 3 T11: 0.3401 T22: 0.3632 REMARK 3 T33: 0.3346 T12: 0.0609 REMARK 3 T13: -0.0460 T23: 0.0640 REMARK 3 L TENSOR REMARK 3 L11: 0.3684 L22: 0.5892 REMARK 3 L33: 0.1782 L12: 0.4111 REMARK 3 L13: 0.1069 L23: 0.3114 REMARK 3 S TENSOR REMARK 3 S11: 0.1712 S12: 0.2815 S13: -0.3578 REMARK 3 S21: -0.6368 S22: -0.2010 S23: 0.3420 REMARK 3 S31: -0.1634 S32: 0.0238 S33: 0.0013 REMARK 3 TLS GROUP : 14 REMARK 3 SELECTION: (CHAIN A AND RESID 382:392) REMARK 3 ORIGIN FOR THE GROUP (A): 37.6453 21.2822 4.2088 REMARK 3 T TENSOR REMARK 3 T11: 0.2453 T22: 0.3039 REMARK 3 T33: 0.2946 T12: 0.0038 REMARK 3 T13: -0.0012 T23: 0.0681 REMARK 3 L TENSOR REMARK 3 L11: 0.3917 L22: 0.8969 REMARK 3 L33: 0.6605 L12: 0.5065 REMARK 3 L13: 0.5059 L23: 0.3009 REMARK 3 S TENSOR REMARK 3 S11: -0.0806 S12: -0.4445 S13: -0.4702 REMARK 3 S21: 0.0953 S22: 0.1470 S23: 0.1105 REMARK 3 S31: 0.0179 S32: -0.1125 S33: 0.0001 REMARK 3 TLS GROUP : 15 REMARK 3 SELECTION: (CHAIN A AND RESID 393:404) REMARK 3 ORIGIN FOR THE GROUP (A): 58.5138 21.1385 2.4591 REMARK 3 T TENSOR REMARK 3 T11: 0.2377 T22: 0.3802 REMARK 3 T33: 0.5007 T12: 0.0415 REMARK 3 T13: -0.0269 T23: 0.0313 REMARK 3 L TENSOR REMARK 3 L11: 0.0164 L22: 0.0305 REMARK 3 L33: 0.9972 L12: -0.0041 REMARK 3 L13: 0.0337 L23: -0.1714 REMARK 3 S TENSOR REMARK 3 S11: -0.1295 S12: 0.1172 S13: 0.1738 REMARK 3 S21: -0.1174 S22: 0.3405 S23: 0.1850 REMARK 3 S31: 0.2879 S32: 0.1816 S33: 0.0008 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 5LBF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 16-JUN-16. REMARK 100 THE DEPOSITION ID IS D_1200000471. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 11-JUL-15 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 : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 706E REMARK 200 DATA SCALING SOFTWARE : HKL-2000 706E REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 21775 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.900 REMARK 200 RESOLUTION RANGE LOW (A) : 47.530 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 14.70 REMARK 200 R MERGE (I) : 0.08300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 30.8000 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) : 1.97 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 14.90 REMARK 200 R MERGE FOR SHELL (I) : 1.00000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.500 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 (%): 54.86 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.72 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M MES PH 6.5, 1.8 M AMMONIUM REMARK 280 SULPHATE, 2% V/V DIOXANE, 0.002 M MNCL2, VAPOR DIFFUSION, REMARK 280 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 19.77250 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 19.77250 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 19.77250 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 1160 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 11780 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -37.0 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 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 LEU A 188 CG CD1 CD2 REMARK 470 LYS A 216 CD CE NZ REMARK 470 SER A 242 OG 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 400 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 GLU A 407 CG CD OE1 OE2 REMARK 470 LYS A 408 CG CD CE NZ REMARK 470 ARG A 411 CG CD NE CZ NH1 NH2 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 -55.74 -121.53 REMARK 500 PHE A 346 73.58 -118.15 REMARK 500 TYR A 403 33.54 -91.71 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 89.8 REMARK 620 3 HIS A 374 NE2 86.2 88.0 REMARK 620 4 UN9 A 502 O13 100.1 166.8 84.0 REMARK 620 5 UN9 A 502 N8 88.1 120.7 150.7 68.7 REMARK 620 6 HOH A 617 O 169.2 83.8 102.2 87.7 87.7 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 SO4 A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue BCT A 505 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 REMARK 900 RELATED ID: 5LB6 RELATED DB: PDB REMARK 900 RELATED ID: 5LBB RELATED DB: PDB REMARK 900 RELATED ID: 5LBC RELATED DB: PDB REMARK 900 RELATED ID: 5LBE RELATED DB: PDB DBREF 5LBF A 181 426 UNP Q9GZT9 EGLN1_HUMAN 181 426 SEQADV 5LBF GLY A 175 UNP Q9GZT9 EXPRESSION TAG SEQADV 5LBF SER A 176 UNP Q9GZT9 EXPRESSION TAG SEQADV 5LBF HIS A 177 UNP Q9GZT9 EXPRESSION TAG SEQADV 5LBF MET A 178 UNP Q9GZT9 EXPRESSION TAG SEQADV 5LBF ALA A 179 UNP Q9GZT9 EXPRESSION TAG SEQADV 5LBF SER A 180 UNP Q9GZT9 EXPRESSION TAG SEQADV 5LBF LYS A 293 UNP Q9GZT9 ASN 293 ENGINEERED MUTATION SEQADV 5LBF GLU A 294 UNP Q9GZT9 GLY 294 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 LYS GLU 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 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 SO4 A 503 5 HET SO4 A 504 5 HET BCT A 505 5 HETNAM MN MANGANESE (II) ION HETNAM UN9 N-[(1-CHLORO-4-HYDROXYISOQUINOLIN-3-YL)CARBONYL]GLYCINE HETNAM SO4 SULFATE ION HETNAM BCT BICARBONATE ION FORMUL 2 MN MN 2+ FORMUL 3 UN9 C12 H9 CL N2 O4 FORMUL 4 SO4 2(O4 S 2-) FORMUL 6 BCT C H O3 1- FORMUL 7 HOH *132(H2 O) HELIX 1 AA1 PRO A 189 TYR A 197 1 9 HELIX 2 AA2 TYR A 197 HIS A 205 1 9 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 ILE A 386 N TYR A 328 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 ILE A 386 N TYR A 328 SHEET 5 AA2 5 ILE A 292 ARG A 295 -1 N GLU 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 2.05 LINK NE2 HIS A 313 MN MN A 501 1555 1555 2.28 LINK OD1 ASP A 315 MN MN A 501 1555 1555 2.19 LINK NE2 HIS A 374 MN MN A 501 1555 1555 2.10 LINK MN MN A 501 O13 UN9 A 502 1555 1555 2.20 LINK MN MN A 501 N8 UN9 A 502 1555 1555 2.31 LINK MN MN A 501 O HOH A 617 1555 1555 2.22 SITE 1 AC1 5 HIS A 313 ASP A 315 HIS A 374 UN9 A 502 SITE 2 AC1 5 HOH A 617 SITE 1 AC2 16 ASP A 254 MET A 299 TYR A 303 TYR A 310 SITE 2 AC2 16 HIS A 313 ASP A 315 TYR A 329 LEU A 343 SITE 3 AC2 16 HIS A 374 VAL A 376 ARG A 383 ARG A 398 SITE 4 AC2 16 MN A 501 HOH A 617 HOH A 640 HOH A 673 SITE 1 AC3 3 GLU A 357 LYS A 359 ARG A 362 SITE 1 AC4 3 GLY A 215 LYS A 216 GLU A 217 SITE 1 AC5 4 LYS A 262 ARG A 312 PRO A 373 HOH A 602 CRYST1 109.766 109.766 39.545 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 0.009110 0.005260 0.000000 0.00000 SCALE2 0.000000 0.010520 0.000000 0.00000 SCALE3 0.000000 0.000000 0.025288 0.00000