HEADER OXIDOREDUCTASE 31-MAR-17 5VCC TITLE CRYSTAL STRUCTURE OF HUMAN CYP3A4 BOUND TO GLYCEROL COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYTOCHROME P450 3A4; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: 1,8-CINEOLE 2-EXO-MONOOXYGENASE,ALBENDAZOLE MONOOXYGENASE, COMPND 5 ALBENDAZOLE SULFOXIDASE,CYPIIIA3,CYPIIIA4,CHOLESTEROL 25-HYDROXYLASE, COMPND 6 CYTOCHROME P450 3A3,CYTOCHROME P450 HLP,CYTOCHROME P450 NF-25, COMPND 7 CYTOCHROME P450-PCN1,NIFEDIPINE OXIDASE,QUININE 3-MONOOXYGENASE, COMPND 8 TAUROCHENODEOXYCHOLATE 6-ALPHA-HYDROXYLASE; COMPND 9 EC: 1.14.13.-,1.14.13.157,1.14.13.32,1.14.14.1,1.14.13.67,1.14.13.97; COMPND 10 ENGINEERED: YES; COMPND 11 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: CYP3A4, CYP3A3; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS CYTOCHROME P450, CYP3A4, MONOOXYGENASE, GLYCEROL, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR I.SEVRIOUKOVA REVDAT 6 04-OCT-23 5VCC 1 REMARK REVDAT 5 18-DEC-19 5VCC 1 REMARK REVDAT 4 20-SEP-17 5VCC 1 REMARK REVDAT 3 28-JUN-17 5VCC 1 JRNL REVDAT 2 21-JUN-17 5VCC 1 JRNL REVDAT 1 31-MAY-17 5VCC 0 JRNL AUTH I.F.SEVRIOUKOVA JRNL TITL HIGH-LEVEL PRODUCTION AND PROPERTIES OF THE JRNL TITL 2 CYSTEINE-DEPLETED CYTOCHROME P450 3A4. JRNL REF BIOCHEMISTRY V. 56 3058 2017 JRNL REFN ISSN 1520-4995 JRNL PMID 28590129 JRNL DOI 10.1021/ACS.BIOCHEM.7B00334 REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.8.4_1496 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) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.62 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 3 NUMBER OF REFLECTIONS : 55431 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.168 REMARK 3 R VALUE (WORKING SET) : 0.166 REMARK 3 FREE R VALUE : 0.204 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.070 REMARK 3 FREE R VALUE TEST SET COUNT : 2811 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 40.6340 - 4.6124 0.87 2448 135 0.1734 0.1957 REMARK 3 2 4.6124 - 3.6618 0.99 2693 131 0.1362 0.1790 REMARK 3 3 3.6618 - 3.1991 1.00 2690 144 0.1577 0.2003 REMARK 3 4 3.1991 - 2.9067 1.00 2681 137 0.1666 0.2192 REMARK 3 5 2.9067 - 2.6984 1.00 2668 133 0.1726 0.2065 REMARK 3 6 2.6984 - 2.5393 1.00 2632 157 0.1671 0.2099 REMARK 3 7 2.5393 - 2.4122 1.00 2654 133 0.1716 0.2025 REMARK 3 8 2.4122 - 2.3072 1.00 2660 128 0.1603 0.1714 REMARK 3 9 2.3072 - 2.2184 1.00 2621 171 0.1630 0.2037 REMARK 3 10 2.2184 - 2.1418 1.00 2616 145 0.1647 0.1925 REMARK 3 11 2.1418 - 2.0749 1.00 2638 142 0.1660 0.1989 REMARK 3 12 2.0749 - 2.0156 1.00 2626 155 0.1707 0.2027 REMARK 3 13 2.0156 - 1.9625 1.00 2641 131 0.1756 0.2385 REMARK 3 14 1.9625 - 1.9146 1.00 2612 140 0.1934 0.2400 REMARK 3 15 1.9146 - 1.8711 1.00 2622 149 0.2089 0.2405 REMARK 3 16 1.8711 - 1.8313 1.00 2632 114 0.2244 0.2608 REMARK 3 17 1.8313 - 1.7946 1.00 2628 136 0.2316 0.2653 REMARK 3 18 1.7946 - 1.7608 1.00 2609 152 0.2486 0.3285 REMARK 3 19 1.7608 - 1.7293 1.00 2608 149 0.2666 0.3020 REMARK 3 20 1.7293 - 1.7000 1.00 2641 129 0.2903 0.2791 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : NULL 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) : 0.190 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.730 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 4030 REMARK 3 ANGLE : 1.114 5449 REMARK 3 CHIRALITY : 0.045 596 REMARK 3 PLANARITY : 0.006 683 REMARK 3 DIHEDRAL : 13.609 1559 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 1 REMARK 3 TLS GROUP : 1 REMARK 3 SELECTION: ALL REMARK 3 ORIGIN FOR THE GROUP (A): -19.1556 -26.1392 -14.7215 REMARK 3 T TENSOR REMARK 3 T11: 0.2320 T22: 0.2814 REMARK 3 T33: 0.2242 T12: -0.0020 REMARK 3 T13: -0.0438 T23: 0.0085 REMARK 3 L TENSOR REMARK 3 L11: 1.0511 L22: 2.5302 REMARK 3 L33: 1.0772 L12: -0.7480 REMARK 3 L13: 0.3566 L23: -0.5536 REMARK 3 S TENSOR REMARK 3 S11: -0.1167 S12: -0.1130 S13: 0.0496 REMARK 3 S21: 0.3135 S22: 0.0559 S23: 0.1033 REMARK 3 S31: -0.1991 S32: -0.1547 S33: 0.0665 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 5VCC COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 05-APR-17. REMARK 100 THE DEPOSITION ID IS D_1000227198. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 29-JUL-16 REMARK 200 TEMPERATURE (KELVIN) : 103 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL14-1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.127 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : IMOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 55451 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 44.820 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 200 DATA REDUNDANCY : 4.800 REMARK 200 R MERGE (I) : 0.05100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 12.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.79 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 4.70 REMARK 200 R MERGE FOR SHELL (I) : 0.95100 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 1.600 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: 1TQN REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.61 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.26 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG4000, MICROBATCH, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z REMARK 290 3555 -X,Y,-Z REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z+1/2 REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-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 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 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 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 38.15000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 49.45500 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 66.83000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 38.15000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 49.45500 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 66.83000 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 38.15000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 49.45500 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 66.83000 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 38.15000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 49.45500 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 66.83000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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 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 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 -98.91000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 28540 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 71200 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -20.0 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 -98.91000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 3 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 350 BIOMT1 4 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 4 0.000000 -1.000000 0.000000 -98.91000 REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 982 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1008 LIES ON A SPECIAL POSITION. 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 TYR A 23 REMARK 465 LEU A 24 REMARK 465 TYR A 25 REMARK 465 GLY A 26 REMARK 465 THR A 27 REMARK 465 HIS A 28 REMARK 465 THR A 264 REMARK 465 GLN A 265 REMARK 465 LYS A 266 REMARK 465 HIS A 267 REMARK 465 ARG A 268 REMARK 465 LYS A 282 REMARK 465 GLU A 283 REMARK 465 THR A 284 REMARK 465 GLU A 285 REMARK 465 SER A 286 REMARK 465 HIS A 287 REMARK 465 ASP A 497 REMARK 465 GLY A 498 REMARK 465 THR A 499 REMARK 465 VAL A 500 REMARK 465 SER A 501 REMARK 465 GLY A 502 REMARK 465 ALA A 503 REMARK 465 HIS A 504 REMARK 465 HIS A 505 REMARK 465 HIS A 506 REMARK 465 HIS A 507 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 HOH A 899 O HOH A 924 2.12 REMARK 500 NH1 ARG A 446 O HOH A 701 2.15 REMARK 500 O HOH A 731 O HOH A 968 2.18 REMARK 500 O THR A 166 N LYS A 168 2.19 REMARK 500 OD1 ASN A 237 O HOH A 702 2.19 REMARK 500 O ILE A 184 OG SER A 188 2.19 REMARK 500 O HOH A 764 O HOH A 863 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 1005 O HOH A 1010 3555 2.16 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 PHE A 46 -50.22 68.01 REMARK 500 PHE A 102 60.26 -115.30 REMARK 500 LYS A 115 -33.05 -39.07 REMARK 500 ASP A 123 -128.23 50.88 REMARK 500 THR A 166 75.01 -117.36 REMARK 500 PHE A 226 60.82 -115.83 REMARK 500 TYR A 307 -70.43 -69.70 REMARK 500 MET A 371 -56.87 75.72 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A1007 DISTANCE = 5.90 ANGSTROMS REMARK 525 HOH A1008 DISTANCE = 5.96 ANGSTROMS REMARK 525 HOH A1009 DISTANCE = 6.72 ANGSTROMS REMARK 525 HOH A1010 DISTANCE = 7.13 ANGSTROMS 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 601 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 442 SG REMARK 620 2 HEM A 601 NA 95.3 REMARK 620 3 HEM A 601 NB 91.9 88.6 REMARK 620 4 HEM A 601 NC 93.1 171.6 90.4 REMARK 620 5 HEM A 601 ND 95.9 89.1 172.0 90.8 REMARK 620 6 HOH A 798 O 169.5 88.1 78.3 83.5 94.0 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 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 603 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 604 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 605 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 606 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 607 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 608 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue GOL A 609 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 610 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 611 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 612 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 613 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 614 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 615 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 616 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 617 REMARK 800 REMARK 800 SITE_IDENTIFIER: AD9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 618 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 619 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 620 REMARK 800 REMARK 800 SITE_IDENTIFIER: AE3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue EDO A 621 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 5VC0 RELATED DB: PDB REMARK 900 RELATED ID: 5VCD RELATED DB: PDB REMARK 900 RELATED ID: 5VCE RELATED DB: PDB REMARK 900 RELATED ID: 5VCG RELATED DB: PDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 MA ARE THE FIRST TWO RESIDUES, FRAGMENT 3-22 DELETED DBREF 5VCC A 23 503 UNP P08684 CP3A4_HUMAN 23 503 SEQADV 5VCC MET A 1 UNP P08684 SEE REMARK 999 SEQADV 5VCC ALA A 2 UNP P08684 SEE REMARK 999 SEQADV 5VCC HIS A 504 UNP P08684 EXPRESSION TAG SEQADV 5VCC HIS A 505 UNP P08684 EXPRESSION TAG SEQADV 5VCC HIS A 506 UNP P08684 EXPRESSION TAG SEQADV 5VCC HIS A 507 UNP P08684 EXPRESSION TAG SEQRES 1 A 487 MET ALA TYR LEU TYR GLY THR HIS SER HIS GLY LEU PHE SEQRES 2 A 487 LYS LYS LEU GLY ILE PRO GLY PRO THR PRO LEU PRO PHE SEQRES 3 A 487 LEU GLY ASN ILE LEU SER TYR HIS LYS GLY PHE CYS MET SEQRES 4 A 487 PHE ASP MET GLU CYS HIS LYS LYS TYR GLY LYS VAL TRP SEQRES 5 A 487 GLY PHE TYR ASP GLY GLN GLN PRO VAL LEU ALA ILE THR SEQRES 6 A 487 ASP PRO ASP MET ILE LYS THR VAL LEU VAL LYS GLU CYS SEQRES 7 A 487 TYR SER VAL PHE THR ASN ARG ARG PRO PHE GLY PRO VAL SEQRES 8 A 487 GLY PHE MET LYS SER ALA ILE SER ILE ALA GLU ASP GLU SEQRES 9 A 487 GLU TRP LYS ARG LEU ARG SER LEU LEU SER PRO THR PHE SEQRES 10 A 487 THR SER GLY LYS LEU LYS GLU MET VAL PRO ILE ILE ALA SEQRES 11 A 487 GLN TYR GLY ASP VAL LEU VAL ARG ASN LEU ARG ARG GLU SEQRES 12 A 487 ALA GLU THR GLY LYS PRO VAL THR LEU LYS ASP VAL PHE SEQRES 13 A 487 GLY ALA TYR SER MET ASP VAL ILE THR SER THR SER PHE SEQRES 14 A 487 GLY VAL ASN ILE ASP SER LEU ASN ASN PRO GLN ASP PRO SEQRES 15 A 487 PHE VAL GLU ASN THR LYS LYS LEU LEU ARG PHE ASP PHE SEQRES 16 A 487 LEU ASP PRO PHE PHE LEU SER ILE THR VAL PHE PRO PHE SEQRES 17 A 487 LEU ILE PRO ILE LEU GLU VAL LEU ASN ILE CYS VAL PHE SEQRES 18 A 487 PRO ARG GLU VAL THR ASN PHE LEU ARG LYS SER VAL LYS SEQRES 19 A 487 ARG MET LYS GLU SER ARG LEU GLU ASP THR GLN LYS HIS SEQRES 20 A 487 ARG VAL ASP PHE LEU GLN LEU MET ILE ASP SER GLN ASN SEQRES 21 A 487 SER LYS GLU THR GLU SER HIS LYS ALA LEU SER ASP LEU SEQRES 22 A 487 GLU LEU VAL ALA GLN SER ILE ILE PHE ILE PHE ALA GLY SEQRES 23 A 487 TYR GLU THR THR SER SER VAL LEU SER PHE ILE MET TYR SEQRES 24 A 487 GLU LEU ALA THR HIS PRO ASP VAL GLN GLN LYS LEU GLN SEQRES 25 A 487 GLU GLU ILE ASP ALA VAL LEU PRO ASN LYS ALA PRO PRO SEQRES 26 A 487 THR TYR ASP THR VAL LEU GLN MET GLU TYR LEU ASP MET SEQRES 27 A 487 VAL VAL ASN GLU THR LEU ARG LEU PHE PRO ILE ALA MET SEQRES 28 A 487 ARG LEU GLU ARG VAL CYS LYS LYS ASP VAL GLU ILE ASN SEQRES 29 A 487 GLY MET PHE ILE PRO LYS GLY VAL VAL VAL MET ILE PRO SEQRES 30 A 487 SER TYR ALA LEU HIS ARG ASP PRO LYS TYR TRP THR GLU SEQRES 31 A 487 PRO GLU LYS PHE LEU PRO GLU ARG PHE SER LYS LYS ASN SEQRES 32 A 487 LYS ASP ASN ILE ASP PRO TYR ILE TYR THR PRO PHE GLY SEQRES 33 A 487 SER GLY PRO ARG ASN CYS ILE GLY MET ARG PHE ALA LEU SEQRES 34 A 487 MET ASN MET LYS LEU ALA LEU ILE ARG VAL LEU GLN ASN SEQRES 35 A 487 PHE SER PHE LYS PRO CYS LYS GLU THR GLN ILE PRO LEU SEQRES 36 A 487 LYS LEU SER LEU GLY GLY LEU LEU GLN PRO GLU LYS PRO SEQRES 37 A 487 VAL VAL LEU LYS VAL GLU SER ARG ASP GLY THR VAL SER SEQRES 38 A 487 GLY ALA HIS HIS HIS HIS HET HEM A 601 43 HET GOL A 602 6 HET GOL A 603 6 HET GOL A 604 6 HET GOL A 605 6 HET GOL A 606 6 HET GOL A 607 6 HET GOL A 608 6 HET GOL A 609 6 HET EDO A 610 4 HET EDO A 611 4 HET EDO A 612 4 HET EDO A 613 4 HET EDO A 614 4 HET EDO A 615 4 HET EDO A 616 4 HET EDO A 617 4 HET EDO A 618 4 HET EDO A 619 4 HET EDO A 620 4 HET EDO A 621 4 HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETNAM GOL GLYCEROL HETNAM EDO 1,2-ETHANEDIOL HETSYN HEM HEME HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 2 HEM C34 H32 FE N4 O4 FORMUL 3 GOL 8(C3 H8 O3) FORMUL 11 EDO 12(C2 H6 O2) FORMUL 23 HOH *310(H2 O) HELIX 1 AA1 GLY A 31 GLY A 37 1 7 HELIX 2 AA2 ASN A 49 LYS A 55 5 7 HELIX 3 AA3 GLY A 56 GLY A 69 1 14 HELIX 4 AA4 ASP A 86 VAL A 95 1 10 HELIX 5 AA5 VAL A 111 ALA A 117 5 7 HELIX 6 AA6 GLU A 122 SER A 134 1 13 HELIX 7 AA7 PRO A 135 PHE A 137 5 3 HELIX 8 AA8 THR A 138 GLU A 165 1 28 HELIX 9 AA9 LEU A 172 GLY A 190 1 19 HELIX 10 AB1 ASP A 201 LYS A 208 1 8 HELIX 11 AB2 ASP A 217 PHE A 226 1 10 HELIX 12 AB3 LEU A 229 LEU A 236 1 8 HELIX 13 AB4 PRO A 242 LEU A 261 1 20 HELIX 14 AB5 ASP A 270 GLN A 279 1 10 HELIX 15 AB6 SER A 291 HIS A 324 1 34 HELIX 16 AB7 HIS A 324 LEU A 339 1 16 HELIX 17 AB8 PRO A 340 ALA A 343 5 4 HELIX 18 AB9 THR A 346 GLN A 352 1 7 HELIX 19 AC1 MET A 353 PHE A 367 1 15 HELIX 20 AC2 PRO A 397 ARG A 403 1 7 HELIX 21 AC3 LEU A 415 SER A 420 5 6 HELIX 22 AC4 ASN A 423 ILE A 427 5 5 HELIX 23 AC5 GLY A 444 ASN A 462 1 19 SHEET 1 AA1 4 VAL A 71 ASP A 76 0 SHEET 2 AA1 4 GLN A 79 ILE A 84 -1 O ALA A 83 N TRP A 72 SHEET 3 AA1 4 VAL A 393 ILE A 396 1 O VAL A 393 N LEU A 82 SHEET 4 AA1 4 LEU A 373 VAL A 376 -1 N ARG A 375 O VAL A 394 SHEET 1 AA2 3 VAL A 170 THR A 171 0 SHEET 2 AA2 3 VAL A 490 SER A 495 -1 O LEU A 491 N VAL A 170 SHEET 3 AA2 3 PHE A 463 PRO A 467 -1 N LYS A 466 O LYS A 492 SHEET 1 AA3 2 VAL A 381 ILE A 383 0 SHEET 2 AA3 2 MET A 386 ILE A 388 -1 O ILE A 388 N VAL A 381 LINK SG CYS A 442 FE HEM A 601 1555 1555 2.38 LINK FE HEM A 601 O HOH A 798 1555 1555 2.53 CISPEP 1 GLY A 109 PRO A 110 0 -0.80 CISPEP 2 LEU A 261 GLU A 262 0 0.00 CISPEP 3 ILE A 473 PRO A 474 0 -1.99 SITE 1 AC1 24 ARG A 105 ILE A 118 SER A 119 TRP A 126 SITE 2 AC1 24 ARG A 130 PHE A 137 PHE A 302 ALA A 305 SITE 3 AC1 24 GLY A 306 ALA A 370 ARG A 375 PRO A 434 SITE 4 AC1 24 PHE A 435 GLY A 436 SER A 437 ARG A 440 SITE 5 AC1 24 ASN A 441 CYS A 442 ILE A 443 MET A 452 SITE 6 AC1 24 GOL A 602 EDO A 611 HOH A 788 HOH A 798 SITE 1 AC2 8 SER A 119 ARG A 212 PHE A 304 ALA A 305 SITE 2 AC2 8 HEM A 601 EDO A 612 HOH A 798 HOH A 813 SITE 1 AC3 6 PRO A 41 SER A 52 PHE A 60 GLU A 63 SITE 2 AC3 6 LYS A 67 TYR A 68 SITE 1 AC4 8 THR A 42 LEU A 44 ASN A 49 LEU A 51 SITE 2 AC4 8 SER A 52 EDO A 613 HOH A 747 HOH A 760 SITE 1 AC5 11 GLY A 56 PHE A 57 CYS A 58 MET A 371 SITE 2 AC5 11 SER A 478 GLY A 480 GLY A 481 LEU A 482 SITE 3 AC5 11 LEU A 483 GLN A 484 HOH A 706 SITE 1 AC6 8 ILE A 50 LEU A 51 TYR A 53 HIS A 54 SITE 2 AC6 8 LEU A 216 LEU A 221 HOH A 714 HOH A 830 SITE 1 AC7 6 LYS A 330 GLU A 354 MET A 358 GLU A 417 SITE 2 AC7 6 HOH A 705 HOH A 834 SITE 1 AC8 4 ASP A 380 GLU A 382 PHE A 387 HOH A 738 SITE 1 AC9 8 PRO A 39 PRO A 325 GLN A 328 GLN A 329 SITE 2 AC9 8 GLN A 332 SER A 464 HOH A 741 HOH A 870 SITE 1 AD1 4 GLY A 40 GLN A 329 HOH A 725 HOH A 757 SITE 1 AD2 3 ARG A 212 HEM A 601 HOH A 798 SITE 1 AD3 3 PHE A 108 SER A 119 GOL A 602 SITE 1 AD4 2 LEU A 51 GOL A 604 SITE 1 AD5 4 TRP A 408 THR A 409 ARG A 418 EDO A 618 SITE 1 AD6 3 LYS A 173 GLY A 177 SER A 311 SITE 1 AD7 1 GLN A 279 SITE 1 AD8 3 LEU A 351 ASP A 357 LYS A 453 SITE 1 AD9 4 TYR A 407 TRP A 408 ASP A 428 EDO A 614 SITE 1 AE1 6 ILE A 184 THR A 187 SER A 188 PHE A 271 SITE 2 AE1 6 PHE A 302 HOH A 799 SITE 1 AE2 7 ASP A 76 GLY A 77 GLN A 78 GLN A 79 SITE 2 AE2 7 THR A 224 PRO A 227 HOH A 740 SITE 1 AE3 2 PHE A 367 ARG A 403 CRYST1 76.300 98.910 133.660 90.00 90.00 90.00 I 2 2 2 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 0.013106 0.000000 0.000000 0.00000 SCALE2 0.000000 0.010110 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007482 0.00000