HEADER OXIDOREDUCTASE, METAL BINDING PROTEIN 07-APR-22 7UMP TITLE CRYSTAL STRUCTURE OF PHD2 CATALYTIC DOMAIN (CID 7465) IN COMPLEX WITH TITLE 2 AKB-6548 AT 1.8 A RESOLUTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: EGL NINE HOMOLOG 1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: HYPOXIA-INDUCIBLE FACTOR PROLYL HYDROXYLASE 2,HIF-PH2,HIF- COMPND 5 PROLYL HYDROXYLASE 2,HPH-2,PROLYL HYDROXYLASE DOMAIN-CONTAINING COMPND 6 PROTEIN 2,PHD2,SM-20; COMPND 7 EC: 1.14.11.29; COMPND 8 ENGINEERED: 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; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS EGLN1, PHD2, METAL BINDING PROTEIN, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR D.R.DAVIE,J.ABENDROTH,J.BOYD REVDAT 5 25-OCT-23 7UMP 1 REMARK REVDAT 4 21-DEC-22 7UMP 1 JRNL REVDAT 3 24-AUG-22 7UMP 1 JRNL REVDAT 2 01-JUN-22 7UMP 1 TITLE JRNL REVDAT 1 18-MAY-22 7UMP 0 JRNL AUTH A.ZUK,Z.SI,S.LOI,S.BOMMEGOWDA,D.HOIVIK,S.DANTHI,G.MOLNAR, JRNL AUTH 2 V.CSIZMADIA,M.RABINOWITZ JRNL TITL PRECLINICAL CHARACTERIZATION OF VADADUSTAT (AKB-6548), AN JRNL TITL 2 ORAL SMALL MOLECULE HYPOXIA-INDUCIBLE FACTOR JRNL TITL 3 PROLYL-4-HYDROXYLASE INHIBITOR, FOR THE POTENTIAL TREATMENT JRNL TITL 4 OF RENAL ANEMIA. JRNL REF J.PHARMACOL.EXP.THER. V. 383 11 2022 JRNL REFN ESSN 1521-0103 JRNL PMID 35926869 JRNL DOI 10.1124/JPET.122.001126 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.12_2829) 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 : NULL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 32.71 REMARK 3 MIN(FOBS/SIGMA_FOBS) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 26856 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.169 REMARK 3 FREE R VALUE : 0.202 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.640 REMARK 3 FREE R VALUE TEST SET COUNT : 2051 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 10.0000 - 4.4360 1.00 1715 150 0.1736 0.1960 REMARK 3 2 4.4360 - 3.5224 1.00 1711 118 0.1541 0.1790 REMARK 3 3 3.5224 - 3.0775 1.00 1685 123 0.1649 0.2218 REMARK 3 4 3.0775 - 2.7963 1.00 1655 136 0.1670 0.2068 REMARK 3 5 2.7963 - 2.5959 1.00 1658 139 0.1697 0.1863 REMARK 3 6 2.5959 - 2.4429 1.00 1624 166 0.1731 0.1967 REMARK 3 7 2.4429 - 2.3206 1.00 1629 131 0.1603 0.1996 REMARK 3 8 2.3206 - 2.2196 1.00 1658 125 0.1690 0.2025 REMARK 3 9 2.2196 - 2.1342 1.00 1653 125 0.1701 0.2037 REMARK 3 10 2.1342 - 2.0606 1.00 1681 122 0.1673 0.2250 REMARK 3 11 2.0606 - 1.9962 1.00 1623 146 0.1621 0.1871 REMARK 3 12 1.9962 - 1.9391 1.00 1620 141 0.1731 0.2127 REMARK 3 13 1.9391 - 1.8881 1.00 1631 149 0.1860 0.2045 REMARK 3 14 1.8881 - 1.8420 1.00 1618 153 0.2053 0.2549 REMARK 3 15 1.8420 - 1.8001 1.00 1644 127 0.2512 0.2895 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.200 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 17.650 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL 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 : 0.007 1751 REMARK 3 ANGLE : 0.906 2379 REMARK 3 CHIRALITY : 0.061 250 REMARK 3 PLANARITY : 0.006 314 REMARK 3 DIHEDRAL : 12.834 1014 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 9 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 188 THROUGH 215 ) REMARK 3 ORIGIN FOR THE GROUP (A): 22.5315 -28.4775 -9.2098 REMARK 3 T TENSOR REMARK 3 T11: 0.1877 T22: 0.2723 REMARK 3 T33: 0.4579 T12: -0.0181 REMARK 3 T13: 0.0645 T23: 0.1046 REMARK 3 L TENSOR REMARK 3 L11: 2.8448 L22: 2.8736 REMARK 3 L33: 1.7252 L12: 0.1061 REMARK 3 L13: -0.9819 L23: -0.0010 REMARK 3 S TENSOR REMARK 3 S11: 0.0506 S12: -0.1722 S13: -0.2825 REMARK 3 S21: 0.0802 S22: 0.1853 S23: 1.0727 REMARK 3 S31: 0.2265 S32: -0.4222 S33: -0.0812 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 216 THROUGH 231 ) REMARK 3 ORIGIN FOR THE GROUP (A): 33.4971 -9.7266 1.0915 REMARK 3 T TENSOR REMARK 3 T11: 0.4786 T22: 0.2738 REMARK 3 T33: 0.2921 T12: 0.0826 REMARK 3 T13: 0.1184 T23: -0.0417 REMARK 3 L TENSOR REMARK 3 L11: 5.0969 L22: 4.1889 REMARK 3 L33: 2.7976 L12: 4.2467 REMARK 3 L13: -1.0380 L23: -1.1066 REMARK 3 S TENSOR REMARK 3 S11: 0.1646 S12: -0.6253 S13: 1.3301 REMARK 3 S21: 0.8130 S22: -0.0182 S23: 0.6481 REMARK 3 S31: -0.3042 S32: -0.2559 S33: -0.2708 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 232 THROUGH 246 ) REMARK 3 ORIGIN FOR THE GROUP (A): 51.8129 -9.2916 -12.2712 REMARK 3 T TENSOR REMARK 3 T11: 0.3136 T22: 0.4372 REMARK 3 T33: 0.3669 T12: -0.0713 REMARK 3 T13: -0.0156 T23: 0.0808 REMARK 3 L TENSOR REMARK 3 L11: 5.4434 L22: 5.1026 REMARK 3 L33: 5.3626 L12: 0.9640 REMARK 3 L13: -2.5938 L23: -0.9678 REMARK 3 S TENSOR REMARK 3 S11: -0.1728 S12: 0.7777 S13: 0.8865 REMARK 3 S21: -0.2530 S22: 0.2263 S23: -0.7840 REMARK 3 S31: -0.4032 S32: 0.5031 S33: 0.3151 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 247 THROUGH 266 ) REMARK 3 ORIGIN FOR THE GROUP (A): 46.2681 -13.8263 -5.0310 REMARK 3 T TENSOR REMARK 3 T11: 0.3102 T22: 0.1610 REMARK 3 T33: 0.2390 T12: -0.0005 REMARK 3 T13: -0.0781 T23: 0.0253 REMARK 3 L TENSOR REMARK 3 L11: 5.5675 L22: 3.1227 REMARK 3 L33: 2.2574 L12: -0.1355 REMARK 3 L13: 1.0525 L23: 0.8102 REMARK 3 S TENSOR REMARK 3 S11: -0.0711 S12: 0.1207 S13: 0.3875 REMARK 3 S21: 0.3778 S22: -0.1638 S23: -0.4439 REMARK 3 S31: -0.0532 S32: 0.2572 S33: 0.1769 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 267 THROUGH 303 ) REMARK 3 ORIGIN FOR THE GROUP (A): 33.9276 -28.4495 -3.0914 REMARK 3 T TENSOR REMARK 3 T11: 0.2564 T22: 0.2398 REMARK 3 T33: 0.2144 T12: -0.0151 REMARK 3 T13: 0.0668 T23: 0.0590 REMARK 3 L TENSOR REMARK 3 L11: 1.9272 L22: 2.5721 REMARK 3 L33: 1.7434 L12: -1.0443 REMARK 3 L13: 0.2740 L23: -0.3876 REMARK 3 S TENSOR REMARK 3 S11: 0.0184 S12: -0.1666 S13: -0.3154 REMARK 3 S21: 0.5248 S22: 0.0615 S23: 0.3717 REMARK 3 S31: 0.0803 S32: -0.2726 S33: 0.0079 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 304 THROUGH 342 ) REMARK 3 ORIGIN FOR THE GROUP (A): 36.9080 -17.9891 -14.9608 REMARK 3 T TENSOR REMARK 3 T11: 0.1602 T22: 0.1521 REMARK 3 T33: 0.1216 T12: -0.0004 REMARK 3 T13: -0.0127 T23: 0.0259 REMARK 3 L TENSOR REMARK 3 L11: 2.5927 L22: 5.1885 REMARK 3 L33: 2.0562 L12: 1.0108 REMARK 3 L13: -0.4530 L23: -1.0486 REMARK 3 S TENSOR REMARK 3 S11: -0.0734 S12: 0.2083 S13: 0.1159 REMARK 3 S21: -0.1672 S22: 0.0323 S23: 0.1943 REMARK 3 S31: -0.1014 S32: -0.1607 S33: 0.0349 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 343 THROUGH 356 ) REMARK 3 ORIGIN FOR THE GROUP (A): 31.2123 -22.2485 -24.5769 REMARK 3 T TENSOR REMARK 3 T11: 0.5390 T22: 0.3953 REMARK 3 T33: 0.2600 T12: -0.0221 REMARK 3 T13: -0.1196 T23: -0.0114 REMARK 3 L TENSOR REMARK 3 L11: 2.2261 L22: 4.3522 REMARK 3 L33: 6.6614 L12: -2.2012 REMARK 3 L13: -2.6325 L23: 5.3270 REMARK 3 S TENSOR REMARK 3 S11: 0.2087 S12: 1.0413 S13: -0.2131 REMARK 3 S21: -1.3583 S22: -0.3350 S23: 0.8055 REMARK 3 S31: 0.5311 S32: -0.3807 S33: 0.2135 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 357 THROUGH 382 ) REMARK 3 ORIGIN FOR THE GROUP (A): 33.3368 -20.0924 -16.0710 REMARK 3 T TENSOR REMARK 3 T11: 0.1758 T22: 0.1779 REMARK 3 T33: 0.1171 T12: -0.0104 REMARK 3 T13: -0.0400 T23: 0.0364 REMARK 3 L TENSOR REMARK 3 L11: 3.0978 L22: 6.2345 REMARK 3 L33: 2.1017 L12: -0.1370 REMARK 3 L13: -0.4803 L23: -0.1234 REMARK 3 S TENSOR REMARK 3 S11: -0.0959 S12: 0.2360 S13: -0.0479 REMARK 3 S21: -0.3646 S22: 0.0826 S23: 0.4986 REMARK 3 S31: -0.0285 S32: -0.2190 S33: 0.0455 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 383 THROUGH 402 ) REMARK 3 ORIGIN FOR THE GROUP (A): 41.8268 -30.8172 -8.4360 REMARK 3 T TENSOR REMARK 3 T11: 0.2233 T22: 0.1746 REMARK 3 T33: 0.2133 T12: -0.0118 REMARK 3 T13: 0.0196 T23: 0.0187 REMARK 3 L TENSOR REMARK 3 L11: 2.1903 L22: 5.7854 REMARK 3 L33: 0.4825 L12: -3.5598 REMARK 3 L13: 0.6992 L23: -0.9140 REMARK 3 S TENSOR REMARK 3 S11: 0.0998 S12: 0.1065 S13: -0.1361 REMARK 3 S21: -0.0954 S22: -0.1232 S23: -0.0426 REMARK 3 S31: 0.0744 S32: 0.0489 S33: -0.0263 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 7UMP COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-APR-22. REMARK 100 THE DEPOSITION ID IS D_1000264258. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 20-JUL-17 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 5.50 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 21-ID-G REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97856 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 26873 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 7.290 REMARK 200 R MERGE (I) : 0.05500 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 20.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.85 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.50300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.470 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: 3OUH REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 58.61 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.97 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100 MM SODIUM ACETATE PH 5.5, 21% REMARK 280 PEG1500, 15% MPD, 300 MM MGSO4, 4 MM AKB-6548, PH 5.50, VAPOR REMARK 280 DIFFUSION, TEMPERATURE 299K 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 20.21000 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 20.21000 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 20.21000 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 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 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 204 CG CD CE NZ REMARK 470 LYS A 216 CG CD CE NZ REMARK 470 LYS A 244 CG CD CE NZ REMARK 470 SER A 248 OG REMARK 470 LYS A 249 CG CD CE NZ REMARK 470 LYS A 332 CG CD CE NZ REMARK 470 LYS A 337 CG CD CE NZ REMARK 470 GLU A 348 CG CD OE1 OE2 REMARK 470 LYS A 350 CG CD CE NZ REMARK 470 LYS A 400 CG 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 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 -59.61 -139.31 REMARK 500 LYS A 244 128.09 58.58 REMARK 500 GLU A 348 18.17 52.65 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 FE2 A1001 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 313 NE2 REMARK 620 2 ASP A 315 OD2 90.0 REMARK 620 3 HIS A 374 NE2 87.7 93.0 REMARK 620 4 A1Z A1002 O10 97.5 172.2 89.4 REMARK 620 5 A1Z A1002 O10 94.1 172.7 93.2 5.2 REMARK 620 6 A1Z A1002 N11 87.2 98.5 167.4 79.9 75.8 REMARK 620 7 A1Z A1002 N11 85.9 98.3 167.0 80.2 76.0 1.3 REMARK 620 8 HOH A1108 O 177.8 87.8 92.8 84.6 88.0 92.7 94.0 REMARK 620 N 1 2 3 4 5 6 7 DBREF 7UMP A 188 403 UNP Q9GZT9 EGLN1_HUMAN 188 403 SEQADV 7UMP MET A 239 UNP Q9GZT9 GLN 239 CONFLICT SEQADV 7UMP ALA A 242 UNP Q9GZT9 SER 242 CONFLICT SEQRES 1 A 216 LEU PRO ALA LEU LYS LEU ALA LEU GLU TYR ILE VAL PRO SEQRES 2 A 216 CYS MET ASN LYS HIS GLY ILE CYS VAL VAL ASP ASP PHE SEQRES 3 A 216 LEU GLY LYS GLU THR GLY GLN GLN ILE GLY ASP GLU VAL SEQRES 4 A 216 ARG ALA LEU HIS ASP THR GLY LYS PHE THR ASP GLY MET SEQRES 5 A 216 LEU VAL ALA GLN LYS SER ASP SER SER LYS ASP ILE ARG SEQRES 6 A 216 GLY ASP LYS ILE THR TRP ILE GLU GLY LYS GLU PRO GLY SEQRES 7 A 216 CYS GLU THR ILE GLY LEU LEU MET SER SER MET ASP ASP SEQRES 8 A 216 LEU ILE ARG HIS CYS ASN GLY LYS LEU GLY SER TYR LYS SEQRES 9 A 216 ILE ASN GLY ARG THR LYS ALA MET VAL ALA CYS TYR PRO SEQRES 10 A 216 GLY ASN GLY THR GLY TYR VAL ARG HIS VAL ASP ASN PRO SEQRES 11 A 216 ASN GLY ASP GLY ARG CYS VAL THR CYS ILE TYR TYR LEU SEQRES 12 A 216 ASN LYS ASP TRP ASP ALA LYS VAL SER GLY GLY ILE LEU SEQRES 13 A 216 ARG ILE PHE PRO GLU GLY LYS ALA GLN PHE ALA ASP ILE SEQRES 14 A 216 GLU PRO LYS PHE ASP ARG LEU LEU PHE PHE TRP SER ASP SEQRES 15 A 216 ARG ARG ASN PRO HIS GLU VAL GLN PRO ALA TYR ALA THR SEQRES 16 A 216 ARG TYR ALA ILE THR VAL TRP TYR PHE ASP ALA ASP GLU SEQRES 17 A 216 ARG ALA ARG ALA LYS VAL LYS TYR MODRES 7UMP FE2 A 1001 FE (II) ION HET FE2 A1001 1 HET A1Z A1002 42 HET EDO A1003 4 HETNAM FE2 FE (II) ION HETNAM A1Z VADADUSTAT HETNAM EDO 1,2-ETHANEDIOL HETSYN A1Z GSK128863 HETSYN EDO ETHYLENE GLYCOL FORMUL 2 FE2 FE 2+ FORMUL 3 A1Z C14 H11 CL N2 O4 FORMUL 4 EDO C2 H6 O2 FORMUL 5 HOH *129(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 PRO A 347 LYS A 350 5 4 HELIX 8 AA8 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 ALA 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 LINK NE2 HIS A 313 FE FE2 A1001 1555 1555 2.20 LINK OD2 ASP A 315 FE FE2 A1001 1555 1555 2.18 LINK NE2 HIS A 374 FE FE2 A1001 1555 1555 2.19 LINK FE FE2 A1001 O10AA1Z A1002 1555 1555 2.15 LINK FE FE2 A1001 O10BA1Z A1002 1555 1555 2.28 LINK FE FE2 A1001 N11AA1Z A1002 1555 1555 2.21 LINK FE FE2 A1001 N11BA1Z A1002 1555 1555 2.30 LINK FE FE2 A1001 O HOH A1108 1555 1555 2.23 CRYST1 111.400 111.400 40.420 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 0.008977 0.005183 0.000000 0.00000 SCALE2 0.000000 0.010365 0.000000 0.00000 SCALE3 0.000000 0.000000 0.024740 0.00000