HEADER OXIDOREDUCTASE 19-APR-12 4EQR TITLE CRYSTAL STRUCTURE OF THE Y361F MUTANT OF STAPHYLOCOCCUS AUREUS COADR COMPND MOL_ID: 1; COMPND 2 MOLECULE: COENZYME A DISULFIDE REDUCTASE; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: COA-DISULFIDE REDUCTASE, COADR; COMPND 5 EC: 1.8.1.14; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STAPHYLOCOCCUS AUREUS SUBSP. AUREUS; SOURCE 3 ORGANISM_TAXID: 367830; SOURCE 4 STRAIN: USA300; SOURCE 5 GENE: CDR, SAUSA300_0873; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: T7, PXCDR KEYWDS OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR B.D.WALLACE,J.S.EDWARDS,J.R.WALLEN,A.CLAIBORNE,M.R.REDINBO REVDAT 1 17-OCT-12 4EQR 0 JRNL AUTH B.D.WALLACE,J.S.EDWARDS,J.R.WALLEN,W.J.MOOLMAN, JRNL AUTH 2 R.VAN DER WESTHUYZEN,E.STRAUSS,M.R.REDINBO,A.CLAIBORNE JRNL TITL TURNOVER-DEPENDENT COVALENT INACTIVATION OF STAPHYLOCOCCUS JRNL TITL 2 AUREUS COENZYME A-DISULFIDE REDUCTASE BY COENZYME JRNL TITL 3 A-MIMETICS: MECHANISTIC AND STRUCTURAL INSIGHTS. JRNL REF BIOCHEMISTRY V. 51 7699 2012 JRNL REFN ISSN 0006-2960 JRNL PMID 22954034 JRNL DOI 10.1021/BI301026C REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VICENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE- REMARK 3 : KUNSTLEVE,LI-WEI HUNG,ROBERT IMMORMINO, REMARK 3 : TOM IOERGER,AIRLIE MCCOY,ERIK MCKEE,NIGEL REMARK 3 : MORIARTY,REETAL PAI,RANDY READ,JANE REMARK 3 : RICHARDSON,DAVID RICHARDSON,TOD ROMO,JIM REMARK 3 : SACCHETTINI,NICHOLAS SAUTER,JACOB SMITH, REMARK 3 : LAURENT STORONI,TOM TERWILLIGER,PETER REMARK 3 : ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 22.26 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 0.660 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 3 NUMBER OF REFLECTIONS : 82317 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.187 REMARK 3 R VALUE (WORKING SET) : 0.185 REMARK 3 FREE R VALUE : 0.226 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.970 REMARK 3 FREE R VALUE TEST SET COUNT : 4081 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 22.2600 - 5.5647 0.95 4866 254 0.1855 0.2244 REMARK 3 2 5.5647 - 4.4283 0.98 5018 272 0.1366 0.1550 REMARK 3 3 4.4283 - 3.8718 0.99 5064 283 0.1378 0.1641 REMARK 3 4 3.8718 - 3.5193 0.99 5121 267 0.1381 0.1651 REMARK 3 5 3.5193 - 3.2679 1.00 5074 239 0.1411 0.1754 REMARK 3 6 3.2679 - 3.0758 1.00 5162 254 0.1688 0.2070 REMARK 3 7 3.0758 - 2.9221 0.99 5074 293 0.1906 0.2520 REMARK 3 8 2.9221 - 2.7952 0.99 5040 286 0.1906 0.2101 REMARK 3 9 2.7952 - 2.6877 0.99 5072 279 0.1944 0.2640 REMARK 3 10 2.6877 - 2.5951 1.00 5149 265 0.1928 0.2425 REMARK 3 11 2.5951 - 2.5141 1.00 5108 268 0.1898 0.2444 REMARK 3 12 2.5141 - 2.4423 1.00 5067 303 0.1880 0.2526 REMARK 3 13 2.4423 - 2.3781 1.00 5105 266 0.1874 0.2511 REMARK 3 14 2.3781 - 2.3201 1.00 5085 269 0.1808 0.2387 REMARK 3 15 2.3201 - 2.2675 1.00 5181 272 0.1832 0.2451 REMARK 3 16 2.2675 - 2.2192 1.00 5120 246 0.1814 0.2167 REMARK 3 17 2.2192 - 2.1749 1.00 5035 255 0.1890 0.2455 REMARK 3 18 2.1749 - 2.1339 0.99 5179 264 0.1918 0.2181 REMARK 3 19 2.1339 - 2.0958 1.00 5059 279 0.1953 0.2494 REMARK 3 20 2.0958 - 2.0603 1.00 5131 260 0.2040 0.2406 REMARK 3 21 2.0603 - 2.0271 1.00 5129 285 0.1980 0.2730 REMARK 3 22 2.0271 - 1.9959 0.99 5047 264 0.2053 0.2515 REMARK 3 23 1.9959 - 1.9666 0.99 5121 245 0.2132 0.2766 REMARK 3 24 1.9666 - 1.9389 0.99 5076 278 0.2122 0.2623 REMARK 3 25 1.9389 - 1.9127 0.99 5150 213 0.2199 0.2727 REMARK 3 26 1.9127 - 1.8879 1.00 5135 267 0.2220 0.2457 REMARK 3 27 1.8879 - 1.8643 0.99 5146 262 0.2364 0.2445 REMARK 3 28 1.8643 - 1.8418 0.99 5045 286 0.2471 0.3019 REMARK 3 29 1.8418 - 1.8204 1.00 5081 261 0.2562 0.3138 REMARK 3 30 1.8204 - 1.8000 0.99 5128 259 0.2529 0.3148 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 : 0.43 REMARK 3 B_SOL : 67.99 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.470 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 23.140 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 24.76 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.85720 REMARK 3 B22 (A**2) : 5.11210 REMARK 3 B33 (A**2) : -4.25500 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 1.88030 REMARK 3 B23 (A**2) : -0.00000 REMARK 3 REMARK 3 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.006 7389 REMARK 3 ANGLE : 1.047 10056 REMARK 3 CHIRALITY : 0.071 1088 REMARK 3 PLANARITY : 0.008 1276 REMARK 3 DIHEDRAL : 18.746 2865 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL 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 4EQR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 24-MAY-12. REMARK 100 THE RCSB ID CODE IS RCSB071955. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 02-DEC-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.2 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X25 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : MONOCHROMATOR: DOUBLE REMARK 200 SILICON(111) CRYSTAL REMARK 200 MONOCHROMATOR WITH CRYOGENICALLY- REMARK 200 COOLED FIRST CRYSTAL AND REMARK 200 SAGITTALLY-BENT SECOND CRYSTAL REMARK 200 HORIZONTALLY-FOCUSING AT 3.3:1 REMARK 200 DEMAGNIFICATION. MIRROR: REMARK 200 MERIDIONALLY-BENT FUSED SILICA REMARK 200 MIRROR WITH PALLADIUM AND REMARK 200 UNCOATED STRIPES VERTICALLY- REMARK 200 FOCUSING AT 6.6:1 DEMAGNIFICATION. REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DTREK REMARK 200 DATA SCALING SOFTWARE : DTREK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 160762 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 53.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 7.070 REMARK 200 R MERGE (I) : 0.10400 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.9000 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) : 1.86 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.85 REMARK 200 R MERGE FOR SHELL (I) : 0.45900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.700 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: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.32 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.29 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 400, MAGNESIUM CHLORIDE, HEPES, REMARK 280 NADP+, PH 7.2, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K, REMARK 280 VAPOR DIFFUSION, SITTING DROP REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 32.54500 REMARK 290 SMTRY3 2 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 11970 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 33250 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -110.0 KCAL/MOL 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 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 807 O HOH A 1103 2.17 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 VAL A 10 -126.95 -129.89 REMARK 500 ASP A 55 99.86 -68.55 REMARK 500 ARG A 131 -30.95 -140.22 REMARK 500 ASN A 184 64.97 36.91 REMARK 500 SER A 281 -140.68 -140.53 REMARK 500 PHE A 329 -121.05 50.41 REMARK 500 SER A 424 -155.05 -169.19 REMARK 500 VAL B 10 -129.01 -132.54 REMARK 500 ARG B 131 -32.96 -140.13 REMARK 500 ASN B 184 65.90 39.83 REMARK 500 SER B 281 -136.21 -139.45 REMARK 500 PHE B 329 -120.97 50.11 REMARK 500 SER B 424 -155.86 -171.14 REMARK 500 ALA B 437 -104.49 -60.74 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 = 5.54 ANGSTROMS REMARK 525 HOH A1046 DISTANCE = 5.40 ANGSTROMS REMARK 525 HOH A1092 DISTANCE = 5.03 ANGSTROMS REMARK 525 HOH A1218 DISTANCE = 5.05 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 MG B3002 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH B3214 O REMARK 620 2 HOH B3179 O 83.6 REMARK 620 N 1 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B3003 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A 781 O REMARK 620 2 HOH B3286 O 86.7 REMARK 620 3 HOH B3353 O 163.3 83.8 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 504 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE COA A 505 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FAD A 506 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 3001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 3002 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG B 3003 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 3004 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B 3005 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE COA B 3006 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FAD B 3007 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1YQZ RELATED DB: PDB REMARK 900 STRUCTURE OF COENZYME A-DISULFIDE REDUCTASE FROM REMARK 900 STAPHYLOCOCCUS AUREUS REFINED AT 1.54 ANGSTROM RESOLUTION REMARK 900 RELATED ID: 4EM3 RELATED DB: PDB REMARK 900 RELATED ID: 4EM4 RELATED DB: PDB REMARK 900 RELATED ID: 4EMW RELATED DB: PDB REMARK 900 RELATED ID: 4EQS RELATED DB: PDB REMARK 900 RELATED ID: 4EQW RELATED DB: PDB REMARK 900 RELATED ID: 4EQX RELATED DB: PDB DBREF 4EQR A 2 438 UNP Q2FIA5 CDR_STAA3 2 438 DBREF 4EQR B 2 438 UNP Q2FIA5 CDR_STAA3 2 438 SEQADV 4EQR PHE A 361 UNP Q2FIA5 TYR 361 ENGINEERED MUTATION SEQADV 4EQR PHE B 361 UNP Q2FIA5 TYR 361 ENGINEERED MUTATION SEQRES 1 A 437 PRO LYS ILE VAL VAL VAL GLY ALA VAL ALA GLY GLY ALA SEQRES 2 A 437 THR CYS ALA SER GLN ILE ARG ARG LEU ASP LYS GLU SER SEQRES 3 A 437 ASP ILE ILE ILE PHE GLU LYS ASP ARG ASP MET SER PHE SEQRES 4 A 437 ALA ASN CYS ALA LEU PRO TYR VAL ILE GLY GLU VAL VAL SEQRES 5 A 437 GLU ASP ARG ARG TYR ALA LEU ALA TYR THR PRO GLU LYS SEQRES 6 A 437 PHE TYR ASP ARG LYS GLN ILE THR VAL LYS THR TYR HIS SEQRES 7 A 437 GLU VAL ILE ALA ILE ASN ASP GLU ARG GLN THR VAL SER SEQRES 8 A 437 VAL LEU ASN ARG LYS THR ASN GLU GLN PHE GLU GLU SER SEQRES 9 A 437 TYR ASP LYS LEU ILE LEU SER PRO GLY ALA SER ALA ASN SEQRES 10 A 437 SER LEU GLY PHE GLU SER ASP ILE THR PHE THR LEU ARG SEQRES 11 A 437 ASN LEU GLU ASP THR ASP ALA ILE ASP GLN PHE ILE LYS SEQRES 12 A 437 ALA ASN GLN VAL ASP LYS VAL LEU VAL VAL GLY ALA GLY SEQRES 13 A 437 TYR VAL SER LEU GLU VAL LEU GLU ASN LEU TYR GLU ARG SEQRES 14 A 437 GLY LEU HIS PRO THR LEU ILE HIS ARG SER ASP LYS ILE SEQRES 15 A 437 ASN LYS LEU MET ASP ALA ASP MET ASN GLN PRO ILE LEU SEQRES 16 A 437 ASP GLU LEU ASP LYS ARG GLU ILE PRO TYR ARG LEU ASN SEQRES 17 A 437 GLU GLU ILE ASN ALA ILE ASN GLY ASN GLU ILE THR PHE SEQRES 18 A 437 LYS SER GLY LYS VAL GLU HIS TYR ASP MET ILE ILE GLU SEQRES 19 A 437 GLY VAL GLY THR HIS PRO ASN SER LYS PHE ILE GLU SER SEQRES 20 A 437 SER ASN ILE LYS LEU ASP ARG LYS GLY PHE ILE PRO VAL SEQRES 21 A 437 ASN ASP LYS PHE GLU THR ASN VAL PRO ASN ILE TYR ALA SEQRES 22 A 437 ILE GLY ASP ILE ALA THR SER HIS TYR ARG HIS VAL ASP SEQRES 23 A 437 LEU PRO ALA SER VAL PRO LEU ALA TRP GLY ALA HIS ARG SEQRES 24 A 437 ALA ALA SER ILE VAL ALA GLU GLN ILE ALA GLY ASN ASP SEQRES 25 A 437 THR ILE GLU PHE LYS GLY PHE LEU GLY ASN ASN ILE VAL SEQRES 26 A 437 LYS PHE PHE ASP TYR THR PHE ALA SER VAL GLY VAL LYS SEQRES 27 A 437 PRO ASN GLU LEU LYS GLN PHE ASP TYR LYS MET VAL GLU SEQRES 28 A 437 VAL THR GLN GLY ALA HIS ALA ASN PHE TYR PRO GLY ASN SEQRES 29 A 437 SER PRO LEU HIS LEU ARG VAL TYR TYR ASP THR SER ASN SEQRES 30 A 437 ARG GLN ILE LEU ARG ALA ALA ALA VAL GLY LYS GLU GLY SEQRES 31 A 437 ALA ASP LYS ARG ILE ASP VAL LEU SER MET ALA MET MET SEQRES 32 A 437 ASN GLN LEU THR VAL ASP GLU LEU THR GLU PHE GLU VAL SEQRES 33 A 437 ALA TYR ALA PRO PRO TYR SER HIS PRO LYS ASP LEU ILE SEQRES 34 A 437 ASN MET ILE GLY TYR LYS ALA LYS SEQRES 1 B 437 PRO LYS ILE VAL VAL VAL GLY ALA VAL ALA GLY GLY ALA SEQRES 2 B 437 THR CYS ALA SER GLN ILE ARG ARG LEU ASP LYS GLU SER SEQRES 3 B 437 ASP ILE ILE ILE PHE GLU LYS ASP ARG ASP MET SER PHE SEQRES 4 B 437 ALA ASN CYS ALA LEU PRO TYR VAL ILE GLY GLU VAL VAL SEQRES 5 B 437 GLU ASP ARG ARG TYR ALA LEU ALA TYR THR PRO GLU LYS SEQRES 6 B 437 PHE TYR ASP ARG LYS GLN ILE THR VAL LYS THR TYR HIS SEQRES 7 B 437 GLU VAL ILE ALA ILE ASN ASP GLU ARG GLN THR VAL SER SEQRES 8 B 437 VAL LEU ASN ARG LYS THR ASN GLU GLN PHE GLU GLU SER SEQRES 9 B 437 TYR ASP LYS LEU ILE LEU SER PRO GLY ALA SER ALA ASN SEQRES 10 B 437 SER LEU GLY PHE GLU SER ASP ILE THR PHE THR LEU ARG SEQRES 11 B 437 ASN LEU GLU ASP THR ASP ALA ILE ASP GLN PHE ILE LYS SEQRES 12 B 437 ALA ASN GLN VAL ASP LYS VAL LEU VAL VAL GLY ALA GLY SEQRES 13 B 437 TYR VAL SER LEU GLU VAL LEU GLU ASN LEU TYR GLU ARG SEQRES 14 B 437 GLY LEU HIS PRO THR LEU ILE HIS ARG SER ASP LYS ILE SEQRES 15 B 437 ASN LYS LEU MET ASP ALA ASP MET ASN GLN PRO ILE LEU SEQRES 16 B 437 ASP GLU LEU ASP LYS ARG GLU ILE PRO TYR ARG LEU ASN SEQRES 17 B 437 GLU GLU ILE ASN ALA ILE ASN GLY ASN GLU ILE THR PHE SEQRES 18 B 437 LYS SER GLY LYS VAL GLU HIS TYR ASP MET ILE ILE GLU SEQRES 19 B 437 GLY VAL GLY THR HIS PRO ASN SER LYS PHE ILE GLU SER SEQRES 20 B 437 SER ASN ILE LYS LEU ASP ARG LYS GLY PHE ILE PRO VAL SEQRES 21 B 437 ASN ASP LYS PHE GLU THR ASN VAL PRO ASN ILE TYR ALA SEQRES 22 B 437 ILE GLY ASP ILE ALA THR SER HIS TYR ARG HIS VAL ASP SEQRES 23 B 437 LEU PRO ALA SER VAL PRO LEU ALA TRP GLY ALA HIS ARG SEQRES 24 B 437 ALA ALA SER ILE VAL ALA GLU GLN ILE ALA GLY ASN ASP SEQRES 25 B 437 THR ILE GLU PHE LYS GLY PHE LEU GLY ASN ASN ILE VAL SEQRES 26 B 437 LYS PHE PHE ASP TYR THR PHE ALA SER VAL GLY VAL LYS SEQRES 27 B 437 PRO ASN GLU LEU LYS GLN PHE ASP TYR LYS MET VAL GLU SEQRES 28 B 437 VAL THR GLN GLY ALA HIS ALA ASN PHE TYR PRO GLY ASN SEQRES 29 B 437 SER PRO LEU HIS LEU ARG VAL TYR TYR ASP THR SER ASN SEQRES 30 B 437 ARG GLN ILE LEU ARG ALA ALA ALA VAL GLY LYS GLU GLY SEQRES 31 B 437 ALA ASP LYS ARG ILE ASP VAL LEU SER MET ALA MET MET SEQRES 32 B 437 ASN GLN LEU THR VAL ASP GLU LEU THR GLU PHE GLU VAL SEQRES 33 B 437 ALA TYR ALA PRO PRO TYR SER HIS PRO LYS ASP LEU ILE SEQRES 34 B 437 ASN MET ILE GLY TYR LYS ALA LYS HET MG A 501 1 HET CL A 502 1 HET CL A 503 1 HET CL A 504 1 HET COA A 505 48 HET FAD A 506 53 HET CL B3001 1 HET MG B3002 1 HET MG B3003 1 HET CL B3004 1 HET CL B3005 1 HET COA B3006 48 HET FAD B3007 53 HETNAM MG MAGNESIUM ION HETNAM CL CHLORIDE ION HETNAM COA COENZYME A HETNAM FAD FLAVIN-ADENINE DINUCLEOTIDE FORMUL 3 MG 3(MG 2+) FORMUL 4 CL 6(CL 1-) FORMUL 7 COA 2(C21 H36 N7 O16 P3 S) FORMUL 8 FAD 2(C27 H33 N9 O15 P2) FORMUL 16 HOH *1216(H2 O) HELIX 1 1 GLY A 12 ASP A 24 1 13 HELIX 2 2 ALA A 41 CYS A 43 5 3 HELIX 3 3 ALA A 44 GLY A 50 1 7 HELIX 4 4 ASP A 55 ALA A 59 5 5 HELIX 5 5 THR A 63 GLN A 72 1 10 HELIX 6 6 ASN A 132 GLN A 147 1 16 HELIX 7 7 GLY A 157 GLY A 171 1 15 HELIX 8 8 ASP A 188 MET A 191 5 4 HELIX 9 9 ASN A 192 ARG A 202 1 11 HELIX 10 10 SER A 243 GLU A 247 5 5 HELIX 11 11 LEU A 294 GLY A 311 1 18 HELIX 12 12 LYS A 339 PHE A 346 5 8 HELIX 13 13 GLY A 391 MET A 404 1 14 HELIX 14 14 THR A 408 PHE A 415 5 8 HELIX 15 15 ASP A 428 LYS A 436 1 9 HELIX 16 16 GLY B 12 ASP B 24 1 13 HELIX 17 17 ALA B 41 CYS B 43 5 3 HELIX 18 18 ALA B 44 GLY B 50 1 7 HELIX 19 19 ASP B 55 LEU B 60 1 6 HELIX 20 20 THR B 63 GLN B 72 1 10 HELIX 21 21 ASN B 132 ASN B 146 1 15 HELIX 22 22 GLY B 157 ARG B 170 1 14 HELIX 23 23 ASP B 188 MET B 191 5 4 HELIX 24 24 ASN B 192 ARG B 202 1 11 HELIX 25 25 SER B 243 GLU B 247 5 5 HELIX 26 26 LEU B 294 GLY B 311 1 18 HELIX 27 27 LYS B 339 PHE B 346 5 8 HELIX 28 28 GLY B 391 ASN B 405 1 15 HELIX 29 29 VAL B 409 PHE B 415 5 7 HELIX 30 30 ASP B 428 ALA B 437 1 10 SHEET 1 A 5 THR A 74 THR A 77 0 SHEET 2 A 5 ILE A 29 GLU A 33 1 N ILE A 31 O LYS A 76 SHEET 3 A 5 ILE A 4 VAL A 7 1 N ILE A 4 O ILE A 30 SHEET 4 A 5 LYS A 108 LEU A 111 1 O ILE A 110 N VAL A 5 SHEET 5 A 5 ILE A 272 ALA A 274 1 O TYR A 273 N LEU A 109 SHEET 1 B 3 HIS A 79 ASN A 85 0 SHEET 2 B 3 THR A 90 ASN A 95 -1 O LEU A 94 N GLU A 80 SHEET 3 B 3 GLU A 100 SER A 105 -1 O PHE A 102 N VAL A 93 SHEET 1 C 2 ALA A 115 ALA A 117 0 SHEET 2 C 2 THR A 239 PRO A 241 -1 O HIS A 240 N SER A 116 SHEET 1 D 5 THR A 127 PHE A 128 0 SHEET 2 D 5 MET A 232 GLU A 235 1 O ILE A 233 N PHE A 128 SHEET 3 D 5 LYS A 150 VAL A 154 1 N LEU A 152 O MET A 232 SHEET 4 D 5 HIS A 173 HIS A 178 1 O THR A 175 N VAL A 153 SHEET 5 D 5 TYR A 206 LEU A 208 1 O ARG A 207 N LEU A 176 SHEET 1 E 3 ILE A 212 ASN A 216 0 SHEET 2 E 3 GLU A 219 PHE A 222 -1 O THR A 221 N ASN A 213 SHEET 3 E 3 VAL A 227 HIS A 229 -1 O GLU A 228 N ILE A 220 SHEET 1 F 3 ILE A 259 PRO A 260 0 SHEET 2 F 3 ALA A 279 HIS A 282 1 O THR A 280 N ILE A 259 SHEET 3 F 3 PRO A 289 ALA A 290 -1 O ALA A 290 N SER A 281 SHEET 1 G 5 ASN A 324 PHE A 328 0 SHEET 2 G 5 TYR A 331 GLY A 337 -1 O TYR A 331 N PHE A 328 SHEET 3 G 5 ILE A 381 GLY A 388 -1 O ALA A 386 N ALA A 334 SHEET 4 G 5 PRO A 367 ASP A 375 -1 N TYR A 373 O ARG A 383 SHEET 5 G 5 TYR A 348 GLY A 356 -1 N VAL A 351 O VAL A 372 SHEET 1 H 5 THR B 74 LYS B 76 0 SHEET 2 H 5 ILE B 29 PHE B 32 1 N ILE B 31 O THR B 74 SHEET 3 H 5 ILE B 4 VAL B 7 1 N VAL B 6 O ILE B 30 SHEET 4 H 5 LYS B 108 LEU B 111 1 O ILE B 110 N VAL B 5 SHEET 5 H 5 ILE B 272 ALA B 274 1 O TYR B 273 N LEU B 109 SHEET 1 I 3 HIS B 79 ASN B 85 0 SHEET 2 I 3 THR B 90 ASN B 95 -1 O LEU B 94 N GLU B 80 SHEET 3 I 3 GLU B 100 SER B 105 -1 O PHE B 102 N VAL B 93 SHEET 1 J 2 ALA B 115 ALA B 117 0 SHEET 2 J 2 THR B 239 PRO B 241 -1 O HIS B 240 N SER B 116 SHEET 1 K 5 THR B 127 PHE B 128 0 SHEET 2 K 5 MET B 232 GLU B 235 1 O GLU B 235 N PHE B 128 SHEET 3 K 5 LYS B 150 VAL B 154 1 N VAL B 154 O ILE B 234 SHEET 4 K 5 HIS B 173 HIS B 178 1 O THR B 175 N VAL B 153 SHEET 5 K 5 TYR B 206 LEU B 208 1 O ARG B 207 N LEU B 176 SHEET 1 L 3 ILE B 212 ASN B 216 0 SHEET 2 L 3 GLU B 219 PHE B 222 -1 O THR B 221 N ASN B 213 SHEET 3 L 3 VAL B 227 HIS B 229 -1 O GLU B 228 N ILE B 220 SHEET 1 M 3 ILE B 259 PRO B 260 0 SHEET 2 M 3 ALA B 279 HIS B 282 1 O THR B 280 N ILE B 259 SHEET 3 M 3 PRO B 289 ALA B 290 -1 O ALA B 290 N SER B 281 SHEET 1 N 5 ASN B 324 PHE B 328 0 SHEET 2 N 5 TYR B 331 GLY B 337 -1 O PHE B 333 N VAL B 326 SHEET 3 N 5 ILE B 381 GLY B 388 -1 O ALA B 386 N ALA B 334 SHEET 4 N 5 PRO B 367 ASP B 375 -1 N TYR B 373 O LEU B 382 SHEET 5 N 5 TYR B 348 GLY B 356 -1 N GLN B 355 O LEU B 368 LINK MG MG B3002 O HOH B3214 1555 1555 2.33 LINK MG MG B3002 O HOH B3179 1555 1555 2.34 LINK MG MG B3003 O HOH A 781 1555 1555 2.39 LINK MG MG B3003 O HOH B3286 1555 1555 2.44 LINK MG MG B3003 O HOH B3353 1555 1555 2.55 LINK MG MG A 501 O HOH A 902 1555 1555 2.62 LINK SG CYS A 43 S1P COA A 505 1555 1555 2.30 LINK SG CYS B 43 S1P COA B3006 1555 1555 2.17 SITE 1 AC1 1 HOH A 902 SITE 1 AC2 5 ALA A 41 CYS A 43 COA A 505 PHE B 361 SITE 2 AC2 5 HOH B3571 SITE 1 AC3 2 HOH A 907 HOH A1241 SITE 1 AC4 4 ASN A 85 GLU A 87 ARG A 88 HOH A1240 SITE 1 AC5 32 ALA A 14 THR A 15 SER A 18 GLN A 19 SITE 2 AC5 32 ARG A 22 SER A 39 PHE A 40 ASN A 42 SITE 3 AC5 32 CYS A 43 TYR A 62 LYS A 71 ALA A 295 SITE 4 AC5 32 HIS A 299 CL A 502 FAD A 506 HOH A 729 SITE 5 AC5 32 HOH A 764 HOH A 849 HOH A 954 HOH A 983 SITE 6 AC5 32 HOH A1063 HOH A1085 HOH A1089 HOH A1096 SITE 7 AC5 32 HOH A1201 HOH A1213 TYR B 419 PRO B 426 SITE 8 AC5 32 LYS B 427 MET B 432 TYR B 435 MG B3003 SITE 1 AC6 41 VAL A 7 GLY A 8 VAL A 10 ALA A 11 SITE 2 AC6 41 GLY A 12 PHE A 32 GLU A 33 LYS A 34 SITE 3 AC6 41 ASP A 35 ASN A 42 CYS A 43 HIS A 79 SITE 4 AC6 41 GLU A 80 VAL A 81 SER A 112 PRO A 113 SITE 5 AC6 41 GLY A 114 LEU A 130 ARG A 131 TYR A 158 SITE 6 AC6 41 VAL A 159 PHE A 245 GLY A 276 ASP A 277 SITE 7 AC6 41 PRO A 293 LEU A 294 ALA A 295 ALA A 298 SITE 8 AC6 41 COA A 505 HOH A 601 HOH A 602 HOH A 604 SITE 9 AC6 41 HOH A 610 HOH A 612 HOH A 613 HOH A 630 SITE 10 AC6 41 HOH A 640 HOH A 651 TYR B 419 ALA B 420 SITE 11 AC6 41 PRO B 421 SITE 1 AC7 6 PHE A 361 HOH A1239 ALA B 41 ASN B 42 SITE 2 AC7 6 CYS B 43 COA B3006 SITE 1 AC8 6 HOH A 665 HOH A 683 HOH A 709 HOH A1240 SITE 2 AC8 6 HOH B3179 HOH B3214 SITE 1 AC9 4 COA A 505 HOH A 781 HOH B3286 HOH B3353 SITE 1 BC1 3 VAL B 353 THR B 354 HOH B3311 SITE 1 BC2 6 HOH A 709 HOH A1110 ASN B 85 ASP B 86 SITE 2 BC2 6 GLU B 87 ARG B 88 SITE 1 BC3 24 MET A 432 TYR A 435 ALA B 11 ALA B 14 SITE 2 BC3 24 THR B 15 SER B 18 GLN B 19 ARG B 22 SITE 3 BC3 24 SER B 39 PHE B 40 ASN B 42 CYS B 43 SITE 4 BC3 24 ALA B 61 TYR B 62 LYS B 71 ALA B 295 SITE 5 BC3 24 HIS B 299 CL B3001 FAD B3007 HOH B3257 SITE 6 BC3 24 HOH B3418 HOH B3497 HOH B3501 HOH B3614 SITE 1 BC4 41 TYR A 419 ALA A 420 PRO A 421 VAL B 7 SITE 2 BC4 41 GLY B 8 VAL B 10 ALA B 11 GLY B 12 SITE 3 BC4 41 PHE B 32 GLU B 33 LYS B 34 ASP B 35 SITE 4 BC4 41 ASN B 42 CYS B 43 HIS B 79 GLU B 80 SITE 5 BC4 41 VAL B 81 SER B 112 PRO B 113 GLY B 114 SITE 6 BC4 41 LEU B 130 ARG B 131 TYR B 158 ASN B 242 SITE 7 BC4 41 PHE B 245 GLY B 276 ASP B 277 PRO B 293 SITE 8 BC4 41 LEU B 294 ALA B 295 COA B3006 HOH B3111 SITE 9 BC4 41 HOH B3114 HOH B3115 HOH B3127 HOH B3129 SITE 10 BC4 41 HOH B3135 HOH B3138 HOH B3149 HOH B3156 SITE 11 BC4 41 HOH B3419 CRYST1 75.880 65.090 94.410 90.00 104.72 90.00 P 1 21 1 4 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 0.013179 0.000000 0.003462 0.00000 SCALE2 0.000000 0.015363 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010952 0.00000