HEADER OXIDOREDUCTASE/OXIDOREDUCTASE INHIBITOR 18-NOV-15 5ETW TITLE CRYSTAL STRUCTURE OF THE INDOLEAMINE 2,3-DIOXYGENAGSE 1 (IDO1) TITLE 2 COMPLEXED WITH NLG919 ANALOGUE COMPND MOL_ID: 1; COMPND 2 MOLECULE: INDOLEAMINE 2,3-DIOXYGENASE 1; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: IDO-1,INDOLEAMINE-PYRROLE 2,3-DIOXYGENASE; COMPND 5 EC: 1.13.11.52; COMPND 6 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: IDO1, IDO, INDO; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) KEYWDS IDO1, OXIDOREDUCTASE-OXIDOREDUCTASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR S.Y.WU,Y.H.PENG,J.S.WU REVDAT 3 08-NOV-23 5ETW 1 LINK REVDAT 2 06-SEP-17 5ETW 1 JRNL REMARK REVDAT 1 10-FEB-16 5ETW 0 JRNL AUTH Y.H.PENG,S.H.UENG,C.T.TSENG,M.S.HUNG,J.S.SONG,J.S.WU, JRNL AUTH 2 F.Y.LIAO,Y.S.FAN,M.H.WU,W.C.HSIAO,C.C.HSUEH,S.Y.LIN, JRNL AUTH 3 C.Y.CHENG,C.H.TU,L.C.LEE,M.F.CHENG,K.S.SHIA,C.SHIH,S.Y.WU JRNL TITL IMPORTANT HYDROGEN BOND NETWORKS IN INDOLEAMINE JRNL TITL 2 2,3-DIOXYGENASE 1 (IDO1) INHIBITOR DESIGN REVEALED BY JRNL TITL 3 CRYSTAL STRUCTURES OF IMIDAZOLEISOINDOLE DERIVATIVES WITH JRNL TITL 4 IDO1. JRNL REF J.MED.CHEM. V. 59 282 2016 JRNL REFN ISSN 0022-2623 JRNL PMID 26642377 JRNL DOI 10.1021/ACS.JMEDCHEM.5B01390 REMARK 2 REMARK 2 RESOLUTION. 2.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.10_2152 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) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.74 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.330 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.5 REMARK 3 NUMBER OF REFLECTIONS : 27716 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.190 REMARK 3 R VALUE (WORKING SET) : 0.189 REMARK 3 FREE R VALUE : 0.216 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.060 REMARK 3 FREE R VALUE TEST SET COUNT : 1403 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 28.7412 - 5.7968 0.93 2642 157 0.1756 0.2001 REMARK 3 2 5.7968 - 4.6072 0.96 2654 123 0.1694 0.1899 REMARK 3 3 4.6072 - 4.0266 0.97 2609 151 0.1585 0.1929 REMARK 3 4 4.0266 - 3.6593 0.98 2627 147 0.1718 0.1966 REMARK 3 5 3.6593 - 3.3974 0.98 2664 123 0.2010 0.2266 REMARK 3 6 3.3974 - 3.1974 0.98 2631 130 0.2159 0.2556 REMARK 3 7 3.1974 - 3.0375 0.99 2636 140 0.2384 0.2598 REMARK 3 8 3.0375 - 2.9054 0.99 2626 139 0.2400 0.2753 REMARK 3 9 2.9054 - 2.7936 0.99 2632 147 0.2500 0.2831 REMARK 3 10 2.7936 - 2.6973 0.98 2592 146 0.2764 0.3102 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) : 0.280 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 23.210 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 66.05 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 76.56 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 6143 REMARK 3 ANGLE : 0.687 8343 REMARK 3 CHIRALITY : 0.041 902 REMARK 3 PLANARITY : 0.004 1052 REMARK 3 DIHEDRAL : 13.022 2251 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 10 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 11 THROUGH 159 ) REMARK 3 ORIGIN FOR THE GROUP (A): 42.1970 -1.0272 -15.5577 REMARK 3 T TENSOR REMARK 3 T11: 0.7018 T22: 0.9899 REMARK 3 T33: 0.7478 T12: -0.1472 REMARK 3 T13: -0.0046 T23: 0.0624 REMARK 3 L TENSOR REMARK 3 L11: 4.4879 L22: 3.3393 REMARK 3 L33: 3.3413 L12: 1.5832 REMARK 3 L13: -2.0491 L23: -1.3786 REMARK 3 S TENSOR REMARK 3 S11: 0.1396 S12: -0.6276 S13: -0.2257 REMARK 3 S21: 0.1520 S22: -0.4359 S23: -0.6769 REMARK 3 S31: -0.2589 S32: 1.1693 S33: -0.0012 REMARK 3 TLS GROUP : 2 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 160 THROUGH 240 ) REMARK 3 ORIGIN FOR THE GROUP (A): 21.4057 3.6479 -8.4811 REMARK 3 T TENSOR REMARK 3 T11: 0.8003 T22: 0.6678 REMARK 3 T33: 0.7017 T12: -0.1540 REMARK 3 T13: 0.1234 T23: -0.0706 REMARK 3 L TENSOR REMARK 3 L11: 4.9415 L22: 0.1262 REMARK 3 L33: 1.8154 L12: 0.2336 REMARK 3 L13: -1.7135 L23: 0.1944 REMARK 3 S TENSOR REMARK 3 S11: 0.1669 S12: 0.1315 S13: 0.6301 REMARK 3 S21: -0.0162 S22: 0.0541 S23: 0.2160 REMARK 3 S31: -0.4266 S32: -0.0830 S33: 0.0000 REMARK 3 TLS GROUP : 3 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 241 THROUGH 298 ) REMARK 3 ORIGIN FOR THE GROUP (A): 25.4807 -7.5522 -22.8091 REMARK 3 T TENSOR REMARK 3 T11: 0.8609 T22: 0.8193 REMARK 3 T33: 0.8613 T12: -0.0413 REMARK 3 T13: 0.1074 T23: -0.0701 REMARK 3 L TENSOR REMARK 3 L11: 0.9845 L22: 1.3745 REMARK 3 L33: 2.2297 L12: 0.8756 REMARK 3 L13: -0.5820 L23: -1.7349 REMARK 3 S TENSOR REMARK 3 S11: 0.1487 S12: 0.7923 S13: -0.3458 REMARK 3 S21: -0.3514 S22: -0.1442 S23: 0.1534 REMARK 3 S31: 0.1326 S32: -0.2223 S33: 0.0000 REMARK 3 TLS GROUP : 4 REMARK 3 SELECTION: CHAIN 'A' AND (RESID 299 THROUGH 400 ) REMARK 3 ORIGIN FOR THE GROUP (A): 12.6724 0.8013 -13.9265 REMARK 3 T TENSOR REMARK 3 T11: 0.7898 T22: 0.7743 REMARK 3 T33: 0.7330 T12: 0.0258 REMARK 3 T13: 0.2353 T23: 0.1346 REMARK 3 L TENSOR REMARK 3 L11: 2.1342 L22: 1.4070 REMARK 3 L33: 1.6162 L12: 0.8076 REMARK 3 L13: 0.5360 L23: -0.3290 REMARK 3 S TENSOR REMARK 3 S11: 0.2020 S12: 0.7147 S13: 0.4688 REMARK 3 S21: -0.1977 S22: -0.1702 S23: 0.1651 REMARK 3 S31: -0.2496 S32: -0.3654 S33: -0.0012 REMARK 3 TLS GROUP : 5 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 12 THROUGH 72 ) REMARK 3 ORIGIN FOR THE GROUP (A): -6.9885 -24.9096 -23.0456 REMARK 3 T TENSOR REMARK 3 T11: 0.5884 T22: 0.8964 REMARK 3 T33: 0.7630 T12: 0.0854 REMARK 3 T13: 0.0074 T23: -0.0691 REMARK 3 L TENSOR REMARK 3 L11: 2.7270 L22: 2.3535 REMARK 3 L33: 1.6698 L12: -0.3211 REMARK 3 L13: -0.8218 L23: 0.7792 REMARK 3 S TENSOR REMARK 3 S11: -0.0759 S12: -0.6863 S13: -0.3210 REMARK 3 S21: 0.2196 S22: 0.0365 S23: 0.7123 REMARK 3 S31: -0.1791 S32: -1.3683 S33: 0.0000 REMARK 3 TLS GROUP : 6 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 73 THROUGH 159 ) REMARK 3 ORIGIN FOR THE GROUP (A): -1.5627 -25.9453 -26.9120 REMARK 3 T TENSOR REMARK 3 T11: 0.5393 T22: 0.5575 REMARK 3 T33: 0.5038 T12: 0.0618 REMARK 3 T13: -0.0410 T23: -0.0787 REMARK 3 L TENSOR REMARK 3 L11: 4.8751 L22: 2.7591 REMARK 3 L33: 3.4509 L12: -0.5481 REMARK 3 L13: 0.7915 L23: -0.3288 REMARK 3 S TENSOR REMARK 3 S11: -0.0064 S12: -0.1592 S13: -0.0708 REMARK 3 S21: -0.1039 S22: -0.1559 S23: 0.2087 REMARK 3 S31: -0.1057 S32: -0.8879 S33: -0.0000 REMARK 3 TLS GROUP : 7 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 160 THROUGH 240 ) REMARK 3 ORIGIN FOR THE GROUP (A): 15.9746 -35.8211 -22.7170 REMARK 3 T TENSOR REMARK 3 T11: 0.6670 T22: 0.4688 REMARK 3 T33: 0.5450 T12: 0.0306 REMARK 3 T13: 0.0082 T23: -0.0379 REMARK 3 L TENSOR REMARK 3 L11: 4.8531 L22: 1.3031 REMARK 3 L33: 1.1087 L12: -0.9441 REMARK 3 L13: 2.0936 L23: -0.4284 REMARK 3 S TENSOR REMARK 3 S11: 0.1760 S12: -0.0170 S13: -0.4872 REMARK 3 S21: -0.1167 S22: -0.0408 S23: 0.0441 REMARK 3 S31: 0.3164 S32: -0.0095 S33: -0.0000 REMARK 3 TLS GROUP : 8 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 241 THROUGH 276 ) REMARK 3 ORIGIN FOR THE GROUP (A): 9.0323 -16.5548 -28.9251 REMARK 3 T TENSOR REMARK 3 T11: 0.7916 T22: 0.5422 REMARK 3 T33: 0.7992 T12: 0.1081 REMARK 3 T13: -0.0039 T23: 0.0457 REMARK 3 L TENSOR REMARK 3 L11: 1.5822 L22: 0.4512 REMARK 3 L33: 1.8576 L12: 0.7305 REMARK 3 L13: 1.2415 L23: 0.9985 REMARK 3 S TENSOR REMARK 3 S11: 0.1411 S12: 0.4225 S13: 0.4836 REMARK 3 S21: -0.5221 S22: -0.3936 S23: 0.0569 REMARK 3 S31: -0.3475 S32: 0.1345 S33: 0.0000 REMARK 3 TLS GROUP : 9 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 277 THROUGH 298 ) REMARK 3 ORIGIN FOR THE GROUP (A): 21.9354 -20.2888 -25.6733 REMARK 3 T TENSOR REMARK 3 T11: 0.7344 T22: 0.7445 REMARK 3 T33: 0.9003 T12: 0.0685 REMARK 3 T13: -0.0082 T23: 0.0964 REMARK 3 L TENSOR REMARK 3 L11: 0.1647 L22: 0.2063 REMARK 3 L33: 0.1637 L12: -0.2191 REMARK 3 L13: 0.1779 L23: -0.1962 REMARK 3 S TENSOR REMARK 3 S11: 0.4660 S12: 0.8758 S13: 1.5638 REMARK 3 S21: -0.4728 S22: -0.3216 S23: -1.1651 REMARK 3 S31: -0.5163 S32: 0.7273 S33: 0.0084 REMARK 3 TLS GROUP : 10 REMARK 3 SELECTION: CHAIN 'B' AND (RESID 299 THROUGH 401 ) REMARK 3 ORIGIN FOR THE GROUP (A): 25.8728 -31.4490 -24.7879 REMARK 3 T TENSOR REMARK 3 T11: 0.5969 T22: 0.6275 REMARK 3 T33: 0.5525 T12: 0.0978 REMARK 3 T13: -0.0231 T23: -0.0017 REMARK 3 L TENSOR REMARK 3 L11: 3.2269 L22: 2.3130 REMARK 3 L33: 1.9073 L12: -0.4479 REMARK 3 L13: 0.6404 L23: -0.5551 REMARK 3 S TENSOR REMARK 3 S11: 0.0960 S12: 0.6332 S13: 0.1389 REMARK 3 S21: -0.1955 S22: -0.1510 S23: -0.2765 REMARK 3 S31: 0.0769 S32: 0.3971 S33: -0.0000 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 5ETW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 18-NOV-15. REMARK 100 THE DEPOSITION ID IS D_1000215355. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-DEC-14 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5~7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL44XU REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 300 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 27758 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 97.6 REMARK 200 DATA REDUNDANCY : 6.000 REMARK 200 R MERGE (I) : 0.06600 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 14.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.80 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.2 REMARK 200 DATA REDUNDANCY IN SHELL : 6.20 REMARK 200 R MERGE FOR SHELL (I) : 0.60900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 2D0T REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.59 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.77 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG, AMMONIUM FLUORIDE, PH 6.5, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 REMARK 290 4555 X+1/2,-Y+1/2,-Z 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 -1.000000 0.000000 0.000000 42.83700 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 64.18650 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 45.71600 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 64.18650 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 42.83700 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 45.71600 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 MET A 1 REMARK 465 ALA A 2 REMARK 465 HIS A 3 REMARK 465 ALA A 4 REMARK 465 MET A 5 REMARK 465 GLU A 6 REMARK 465 ASN A 7 REMARK 465 SER A 8 REMARK 465 TRP A 9 REMARK 465 THR A 10 REMARK 465 GLN A 361 REMARK 465 PRO A 362 REMARK 465 LYS A 363 REMARK 465 GLU A 364 REMARK 465 ASN A 365 REMARK 465 LYS A 366 REMARK 465 THR A 367 REMARK 465 SER A 368 REMARK 465 GLU A 369 REMARK 465 ASP A 370 REMARK 465 PRO A 371 REMARK 465 SER A 372 REMARK 465 LYS A 373 REMARK 465 LEU A 374 REMARK 465 GLU A 375 REMARK 465 ALA A 376 REMARK 465 LYS A 377 REMARK 465 GLY A 378 REMARK 465 THR A 379 REMARK 465 LYS A 401 REMARK 465 GLU A 402 REMARK 465 GLY A 403 REMARK 465 MET B 1 REMARK 465 ALA B 2 REMARK 465 HIS B 3 REMARK 465 ALA B 4 REMARK 465 MET B 5 REMARK 465 GLU B 6 REMARK 465 ASN B 7 REMARK 465 SER B 8 REMARK 465 TRP B 9 REMARK 465 THR B 10 REMARK 465 ILE B 11 REMARK 465 SER B 359 REMARK 465 GLN B 360 REMARK 465 GLN B 361 REMARK 465 PRO B 362 REMARK 465 LYS B 363 REMARK 465 GLU B 364 REMARK 465 ASN B 365 REMARK 465 LYS B 366 REMARK 465 THR B 367 REMARK 465 SER B 368 REMARK 465 GLU B 369 REMARK 465 ASP B 370 REMARK 465 PRO B 371 REMARK 465 SER B 372 REMARK 465 LYS B 373 REMARK 465 LEU B 374 REMARK 465 GLU B 375 REMARK 465 ALA B 376 REMARK 465 LYS B 377 REMARK 465 GLY B 378 REMARK 465 THR B 379 REMARK 465 GLY B 380 REMARK 465 GLU B 402 REMARK 465 GLY B 403 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 13 CG CD CE NZ REMARK 470 LYS A 224 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 O ALA A 260 O HOH A 601 2.03 REMARK 500 OG SER B 167 O HOH B 601 2.16 REMARK 500 REMARK 500 REMARK: NULL 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 PRO A 121 C PRO A 122 N 0.129 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 LYS A 13 -143.33 -72.87 REMARK 500 TYR A 15 -35.28 73.01 REMARK 500 ASN A 27 74.30 55.06 REMARK 500 ASN A 133 58.79 -117.87 REMARK 500 PHE A 154 -61.59 -95.29 REMARK 500 VAL A 229 -69.28 -122.79 REMARK 500 ILE A 354 -47.61 -130.24 REMARK 500 ASN B 27 76.96 47.21 REMARK 500 VAL B 130 -60.25 -126.10 REMARK 500 ASN B 133 53.80 -110.89 REMARK 500 VAL B 229 -72.54 -126.03 REMARK 500 GLN B 280 72.46 -68.00 REMARK 500 ILE B 354 -53.99 -133.59 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 HEM A 501 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 346 NE2 REMARK 620 2 HEM A 501 NA 74.2 REMARK 620 3 HEM A 501 NB 91.0 87.9 REMARK 620 4 HEM A 501 NC 107.9 174.7 87.2 REMARK 620 5 HEM A 501 ND 90.4 93.2 178.5 91.7 REMARK 620 6 XNL A 502 NAO 168.7 99.8 79.1 77.3 99.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEM B 501 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 346 NE2 REMARK 620 2 HEM B 501 NA 78.8 REMARK 620 3 HEM B 501 NB 90.6 87.6 REMARK 620 4 HEM B 501 NC 99.8 177.9 90.8 REMARK 620 5 HEM B 501 ND 88.9 89.5 177.1 92.1 REMARK 620 6 XNL B 502 NAO 171.8 102.0 81.3 79.2 99.2 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 HEM A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue XNL A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue HEM B 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue XNL B 502 DBREF 5ETW A 1 403 UNP P14902 I23O1_HUMAN 1 403 DBREF 5ETW B 1 403 UNP P14902 I23O1_HUMAN 1 403 SEQRES 1 A 403 MET ALA HIS ALA MET GLU ASN SER TRP THR ILE SER LYS SEQRES 2 A 403 GLU TYR HIS ILE ASP GLU GLU VAL GLY PHE ALA LEU PRO SEQRES 3 A 403 ASN PRO GLN GLU ASN LEU PRO ASP PHE TYR ASN ASP TRP SEQRES 4 A 403 MET PHE ILE ALA LYS HIS LEU PRO ASP LEU ILE GLU SER SEQRES 5 A 403 GLY GLN LEU ARG GLU ARG VAL GLU LYS LEU ASN MET LEU SEQRES 6 A 403 SER ILE ASP HIS LEU THR ASP HIS LYS SER GLN ARG LEU SEQRES 7 A 403 ALA ARG LEU VAL LEU GLY CYS ILE THR MET ALA TYR VAL SEQRES 8 A 403 TRP GLY LYS GLY HIS GLY ASP VAL ARG LYS VAL LEU PRO SEQRES 9 A 403 ARG ASN ILE ALA VAL PRO TYR CYS GLN LEU SER LYS LYS SEQRES 10 A 403 LEU GLU LEU PRO PRO ILE LEU VAL TYR ALA ASP CYS VAL SEQRES 11 A 403 LEU ALA ASN TRP LYS LYS LYS ASP PRO ASN LYS PRO LEU SEQRES 12 A 403 THR TYR GLU ASN MET ASP VAL LEU PHE SER PHE ARG ASP SEQRES 13 A 403 GLY ASP CYS SER LYS GLY PHE PHE LEU VAL SER LEU LEU SEQRES 14 A 403 VAL GLU ILE ALA ALA ALA SER ALA ILE LYS VAL ILE PRO SEQRES 15 A 403 THR VAL PHE LYS ALA MET GLN MET GLN GLU ARG ASP THR SEQRES 16 A 403 LEU LEU LYS ALA LEU LEU GLU ILE ALA SER CYS LEU GLU SEQRES 17 A 403 LYS ALA LEU GLN VAL PHE HIS GLN ILE HIS ASP HIS VAL SEQRES 18 A 403 ASN PRO LYS ALA PHE PHE SER VAL LEU ARG ILE TYR LEU SEQRES 19 A 403 SER GLY TRP LYS GLY ASN PRO GLN LEU SER ASP GLY LEU SEQRES 20 A 403 VAL TYR GLU GLY PHE TRP GLU ASP PRO LYS GLU PHE ALA SEQRES 21 A 403 GLY GLY SER ALA GLY GLN SER SER VAL PHE GLN CYS PHE SEQRES 22 A 403 ASP VAL LEU LEU GLY ILE GLN GLN THR ALA GLY GLY GLY SEQRES 23 A 403 HIS ALA ALA GLN PHE LEU GLN ASP MET ARG ARG TYR MET SEQRES 24 A 403 PRO PRO ALA HIS ARG ASN PHE LEU CYS SER LEU GLU SER SEQRES 25 A 403 ASN PRO SER VAL ARG GLU PHE VAL LEU SER LYS GLY ASP SEQRES 26 A 403 ALA GLY LEU ARG GLU ALA TYR ASP ALA CYS VAL LYS ALA SEQRES 27 A 403 LEU VAL SER LEU ARG SER TYR HIS LEU GLN ILE VAL THR SEQRES 28 A 403 LYS TYR ILE LEU ILE PRO ALA SER GLN GLN PRO LYS GLU SEQRES 29 A 403 ASN LYS THR SER GLU ASP PRO SER LYS LEU GLU ALA LYS SEQRES 30 A 403 GLY THR GLY GLY THR ASP LEU MET ASN PHE LEU LYS THR SEQRES 31 A 403 VAL ARG SER THR THR GLU LYS SER LEU LEU LYS GLU GLY SEQRES 1 B 403 MET ALA HIS ALA MET GLU ASN SER TRP THR ILE SER LYS SEQRES 2 B 403 GLU TYR HIS ILE ASP GLU GLU VAL GLY PHE ALA LEU PRO SEQRES 3 B 403 ASN PRO GLN GLU ASN LEU PRO ASP PHE TYR ASN ASP TRP SEQRES 4 B 403 MET PHE ILE ALA LYS HIS LEU PRO ASP LEU ILE GLU SER SEQRES 5 B 403 GLY GLN LEU ARG GLU ARG VAL GLU LYS LEU ASN MET LEU SEQRES 6 B 403 SER ILE ASP HIS LEU THR ASP HIS LYS SER GLN ARG LEU SEQRES 7 B 403 ALA ARG LEU VAL LEU GLY CYS ILE THR MET ALA TYR VAL SEQRES 8 B 403 TRP GLY LYS GLY HIS GLY ASP VAL ARG LYS VAL LEU PRO SEQRES 9 B 403 ARG ASN ILE ALA VAL PRO TYR CYS GLN LEU SER LYS LYS SEQRES 10 B 403 LEU GLU LEU PRO PRO ILE LEU VAL TYR ALA ASP CYS VAL SEQRES 11 B 403 LEU ALA ASN TRP LYS LYS LYS ASP PRO ASN LYS PRO LEU SEQRES 12 B 403 THR TYR GLU ASN MET ASP VAL LEU PHE SER PHE ARG ASP SEQRES 13 B 403 GLY ASP CYS SER LYS GLY PHE PHE LEU VAL SER LEU LEU SEQRES 14 B 403 VAL GLU ILE ALA ALA ALA SER ALA ILE LYS VAL ILE PRO SEQRES 15 B 403 THR VAL PHE LYS ALA MET GLN MET GLN GLU ARG ASP THR SEQRES 16 B 403 LEU LEU LYS ALA LEU LEU GLU ILE ALA SER CYS LEU GLU SEQRES 17 B 403 LYS ALA LEU GLN VAL PHE HIS GLN ILE HIS ASP HIS VAL SEQRES 18 B 403 ASN PRO LYS ALA PHE PHE SER VAL LEU ARG ILE TYR LEU SEQRES 19 B 403 SER GLY TRP LYS GLY ASN PRO GLN LEU SER ASP GLY LEU SEQRES 20 B 403 VAL TYR GLU GLY PHE TRP GLU ASP PRO LYS GLU PHE ALA SEQRES 21 B 403 GLY GLY SER ALA GLY GLN SER SER VAL PHE GLN CYS PHE SEQRES 22 B 403 ASP VAL LEU LEU GLY ILE GLN GLN THR ALA GLY GLY GLY SEQRES 23 B 403 HIS ALA ALA GLN PHE LEU GLN ASP MET ARG ARG TYR MET SEQRES 24 B 403 PRO PRO ALA HIS ARG ASN PHE LEU CYS SER LEU GLU SER SEQRES 25 B 403 ASN PRO SER VAL ARG GLU PHE VAL LEU SER LYS GLY ASP SEQRES 26 B 403 ALA GLY LEU ARG GLU ALA TYR ASP ALA CYS VAL LYS ALA SEQRES 27 B 403 LEU VAL SER LEU ARG SER TYR HIS LEU GLN ILE VAL THR SEQRES 28 B 403 LYS TYR ILE LEU ILE PRO ALA SER GLN GLN PRO LYS GLU SEQRES 29 B 403 ASN LYS THR SER GLU ASP PRO SER LYS LEU GLU ALA LYS SEQRES 30 B 403 GLY THR GLY GLY THR ASP LEU MET ASN PHE LEU LYS THR SEQRES 31 B 403 VAL ARG SER THR THR GLU LYS SER LEU LEU LYS GLU GLY HET HEM A 501 43 HET XNL A 502 22 HET HEM B 501 43 HET XNL B 502 22 HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETNAM XNL (1~{R})-1-CYCLOHEXYL-2-PYRIDO[3,4-B]INDOL-9-YL-ETHANOL HETSYN HEM HEME FORMUL 3 HEM 2(C34 H32 FE N4 O4) FORMUL 4 XNL 2(C19 H22 N2 O) FORMUL 7 HOH *106(H2 O) HELIX 1 AA1 PRO A 33 PHE A 35 5 3 HELIX 2 AA2 TYR A 36 HIS A 45 1 10 HELIX 3 AA3 HIS A 45 SER A 52 1 8 HELIX 4 AA4 GLN A 54 LYS A 61 1 8 HELIX 5 AA5 ASP A 72 GLY A 93 1 22 HELIX 6 AA6 PRO A 104 LEU A 118 1 15 HELIX 7 AA7 VAL A 125 VAL A 130 1 6 HELIX 8 AA8 THR A 144 GLU A 146 5 3 HELIX 9 AA9 CYS A 159 LYS A 179 1 21 HELIX 10 AB1 VAL A 180 MET A 190 1 11 HELIX 11 AB2 GLU A 192 HIS A 215 1 24 HELIX 12 AB3 GLN A 216 VAL A 221 1 6 HELIX 13 AB4 ASN A 222 VAL A 229 1 8 HELIX 14 AB5 VAL A 229 SER A 235 1 7 HELIX 15 AB6 ASN A 240 SER A 244 5 5 HELIX 16 AB7 SER A 267 LEU A 277 1 11 HELIX 17 AB8 GLY A 286 MET A 295 1 10 HELIX 18 AB9 ARG A 296 MET A 299 5 4 HELIX 19 AC1 PRO A 300 ASN A 313 1 14 HELIX 20 AC2 SER A 315 GLY A 324 1 10 HELIX 21 AC3 ASP A 325 ILE A 354 1 30 HELIX 22 AC4 ILE A 354 SER A 359 1 6 HELIX 23 AC5 THR A 382 LYS A 397 1 16 HELIX 24 AC6 PRO B 33 PHE B 35 5 3 HELIX 25 AC7 TYR B 36 HIS B 45 1 10 HELIX 26 AC8 HIS B 45 SER B 52 1 8 HELIX 27 AC9 GLN B 54 LYS B 61 1 8 HELIX 28 AD1 SER B 66 LEU B 70 5 5 HELIX 29 AD2 ASP B 72 GLY B 93 1 22 HELIX 30 AD3 PRO B 104 GLU B 119 1 16 HELIX 31 AD4 VAL B 125 VAL B 130 1 6 HELIX 32 AD5 THR B 144 GLU B 146 5 3 HELIX 33 AD6 CYS B 159 LYS B 179 1 21 HELIX 34 AD7 VAL B 180 GLN B 191 1 12 HELIX 35 AD8 GLU B 192 HIS B 215 1 24 HELIX 36 AD9 GLN B 216 VAL B 221 1 6 HELIX 37 AE1 ASN B 222 VAL B 229 1 8 HELIX 38 AE2 VAL B 229 SER B 235 1 7 HELIX 39 AE3 ASN B 240 SER B 244 5 5 HELIX 40 AE4 SER B 267 LEU B 277 1 11 HELIX 41 AE5 GLY B 286 MET B 295 1 10 HELIX 42 AE6 ARG B 296 MET B 299 5 4 HELIX 43 AE7 PRO B 300 ASN B 313 1 14 HELIX 44 AE8 SER B 315 LYS B 323 1 9 HELIX 45 AE9 ASP B 325 ILE B 354 1 30 HELIX 46 AF1 THR B 382 LYS B 397 1 16 SHEET 1 AA1 2 VAL A 102 LEU A 103 0 SHEET 2 AA1 2 VAL A 248 TYR A 249 1 O VAL A 248 N LEU A 103 SHEET 1 AA2 2 LYS A 135 LYS A 136 0 SHEET 2 AA2 2 MET A 148 ASP A 149 -1 O ASP A 149 N LYS A 135 SHEET 1 AA3 2 VAL B 102 LEU B 103 0 SHEET 2 AA3 2 VAL B 248 TYR B 249 1 O VAL B 248 N LEU B 103 SHEET 1 AA4 2 LYS B 135 LYS B 136 0 SHEET 2 AA4 2 MET B 148 ASP B 149 -1 O ASP B 149 N LYS B 135 LINK NE2 HIS A 346 FE HEM A 501 1555 1555 2.67 LINK FE HEM A 501 NAO XNL A 502 1555 1555 2.42 LINK NE2 HIS B 346 FE HEM B 501 1555 1555 2.56 LINK FE HEM B 501 NAO XNL B 502 1555 1555 2.47 CISPEP 1 GLU A 14 TYR A 15 0 -4.23 SITE 1 AC1 15 SER A 167 VAL A 170 PHE A 214 ILE A 217 SITE 2 AC1 15 PHE A 226 SER A 263 ALA A 264 GLY A 265 SITE 3 AC1 15 PHE A 270 ARG A 343 HIS A 346 VAL A 350 SITE 4 AC1 15 LEU A 388 VAL A 391 XNL A 502 SITE 1 AC2 10 TYR A 126 CYS A 129 PHE A 163 SER A 167 SITE 2 AC2 10 PHE A 226 ARG A 231 GLY A 262 SER A 263 SITE 3 AC2 10 ALA A 264 HEM A 501 SITE 1 AC3 18 PHE B 163 SER B 167 VAL B 170 PHE B 214 SITE 2 AC3 18 ILE B 217 PHE B 226 SER B 263 ALA B 264 SITE 3 AC3 18 GLY B 265 PHE B 270 ARG B 343 HIS B 346 SITE 4 AC3 18 ILE B 349 TYR B 353 LEU B 384 VAL B 391 SITE 5 AC3 18 XNL B 502 HOH B 637 SITE 1 AC4 8 PHE B 163 SER B 167 PHE B 226 ARG B 231 SITE 2 AC4 8 GLY B 262 SER B 263 ALA B 264 HEM B 501 CRYST1 85.674 91.432 128.373 90.00 90.00 90.00 P 21 21 21 8 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 0.011672 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010937 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007790 0.00000