HEADER OXIDOREDUCTASE 22-APR-19 6ONS TITLE CRYSTAL STRUCTURE OF DESULFOVIBRIO VULGARIS CARBON MONOXIDE TITLE 2 DEHYDROGENASE WITH THE D-CLUSTER LIGATING CYSTEINES MUTATED TO TITLE 3 ALANINES, COEXPRESSED WITH COOC, AS-ISOLATED COMPND MOL_ID: 1; COMPND 2 MOLECULE: CARBON MONOXIDE DEHYDROGENASE; COMPND 3 CHAIN: A; COMPND 4 EC: 1.2.7.4; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DESULFOVIBRIO VULGARIS; SOURCE 3 ORGANISM_TAXID: 881; SOURCE 4 GENE: DEVAL_1949; SOURCE 5 EXPRESSION_SYSTEM: DESULFOVIBRIO FRUCTOSIVORANS; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 878 KEYWDS NICKEL-IRON-SULFUR (NI-FE-S) CLUSTER, IRON-SULFUR (FE-S) CLUSTER, KEYWDS 2 METALLOENZYME, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR S.E.COHEN,E.C.WITTENBORN,C.L.DRENNAN REVDAT 4 11-OCT-23 6ONS 1 REMARK REVDAT 3 01-JAN-20 6ONS 1 REMARK REVDAT 2 11-SEP-19 6ONS 1 JRNL REVDAT 1 24-JUL-19 6ONS 0 JRNL AUTH E.C.WITTENBORN,S.E.COHEN,M.MERROUCH,C.LEGER,V.FOURMOND, JRNL AUTH 2 S.DEMENTIN,C.L.DRENNAN JRNL TITL STRUCTURAL INSIGHT INTO METALLOCOFACTOR MATURATION IN CARBON JRNL TITL 2 MONOXIDE DEHYDROGENASE. JRNL REF J.BIOL.CHEM. V. 294 13017 2019 JRNL REFN ESSN 1083-351X JRNL PMID 31296570 JRNL DOI 10.1074/JBC.RA119.009610 REMARK 2 REMARK 2 RESOLUTION. 2.49 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.14_3260 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) : 2.49 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.42 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.380 REMARK 3 COMPLETENESS FOR RANGE (%) : 93.0 REMARK 3 NUMBER OF REFLECTIONS : 37976 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.209 REMARK 3 R VALUE (WORKING SET) : 0.207 REMARK 3 FREE R VALUE : 0.248 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.990 REMARK 3 FREE R VALUE TEST SET COUNT : 1895 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 45.4233 - 5.9840 0.97 2672 152 0.1776 0.2249 REMARK 3 2 5.9840 - 4.7513 0.94 2616 129 0.1825 0.2007 REMARK 3 3 4.7513 - 4.1512 0.97 2679 140 0.1549 0.1905 REMARK 3 4 4.1512 - 3.7718 0.97 2710 140 0.1707 0.2402 REMARK 3 5 3.7718 - 3.5016 0.95 2635 148 0.2013 0.2077 REMARK 3 6 3.5016 - 3.2952 0.93 2559 124 0.2233 0.3205 REMARK 3 7 3.2952 - 3.1302 0.94 2619 141 0.2344 0.3004 REMARK 3 8 3.1302 - 2.9940 0.95 2604 132 0.2518 0.3156 REMARK 3 9 2.9940 - 2.8787 0.94 2597 147 0.2563 0.2681 REMARK 3 10 2.8787 - 2.7794 0.91 2528 129 0.2613 0.2805 REMARK 3 11 2.7794 - 2.6925 0.90 2500 129 0.2672 0.3178 REMARK 3 12 2.6925 - 2.6156 0.91 2512 130 0.2758 0.3130 REMARK 3 13 2.6156 - 2.5467 0.89 2473 133 0.2896 0.3083 REMARK 3 14 2.5467 - 2.4846 0.85 2377 121 0.3032 0.3159 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) : 0.350 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 27.120 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 41.51 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 : NULL NULL REMARK 3 ANGLE : NULL NULL REMARK 3 CHIRALITY : NULL NULL REMARK 3 PLANARITY : NULL NULL REMARK 3 DIHEDRAL : NULL NULL 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 6ONS COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 23-APR-19. REMARK 100 THE DEPOSITION ID IS D_1000241035. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 31-OCT-18 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 24-ID-C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.7379 REMARK 200 MONOCHROMATOR : CRYO-COOLED DOUBLE CRYSTAL REMARK 200 SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M-F REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 38000 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.480 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 93.4 REMARK 200 DATA REDUNDANCY : 3.000 REMARK 200 R MERGE (I) : 0.18300 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 6.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.48 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.57 REMARK 200 COMPLETENESS FOR SHELL (%) : 88.6 REMARK 200 DATA REDUNDANCY IN SHELL : 2.00 REMARK 200 R MERGE FOR SHELL (I) : 0.59800 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: PHASER 2.8.2 REMARK 200 STARTING MODEL: PDB ENTRY 6B6V REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.72 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.27 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 200-275 MM MAGNESIUM CHLORIDE, 14-20% REMARK 280 V/V PEG3350, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 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+1/2,Y+1/2,Z 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 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 55.27200 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 50.30450 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 55.27200 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 50.30450 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 8660 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 35160 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -125.0 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 0.00000 REMARK 350 BIOMT3 2 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 -7 REMARK 465 TRP A -6 REMARK 465 SER A -5 REMARK 465 HIS A -4 REMARK 465 PRO A -3 REMARK 465 ALA A -2 REMARK 465 VAL A -1 REMARK 465 ARG A 0 REMARK 465 LYS A 1 REMARK 465 SER A 2 REMARK 465 SER A 3 REMARK 465 ALA A 41 REMARK 465 ALA A 42 REMARK 465 LYS A 43 REMARK 465 PHE A 44 REMARK 465 SER A 629 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 SER A 4 OG REMARK 470 LYS A 5 CG CD CE NZ REMARK 470 ARG A 8 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 24 CD CE NZ REMARK 470 GLU A 46 CG CD OE1 OE2 REMARK 470 LEU A 47 CG CD1 CD2 REMARK 470 ARG A 52 NE CZ NH1 NH2 REMARK 470 ARG A 60 CG CD NE CZ NH1 NH2 REMARK 470 ASN A 63 CG OD1 ND2 REMARK 470 ARG A 64 CD NE CZ NH1 NH2 REMARK 470 LYS A 65 CG CD CE NZ REMARK 470 ASP A 66 CG OD1 OD2 REMARK 470 LYS A 68 CG CD CE NZ REMARK 470 ARG A 70 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 106 CG CD OE1 OE2 REMARK 470 LYS A 115 CD CE NZ REMARK 470 ARG A 243 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 256 CG CD CE NZ REMARK 470 ARG A 284 NE CZ NH1 NH2 REMARK 470 ASP A 289 CG OD1 OD2 REMARK 470 GLU A 380 CG CD OE1 OE2 REMARK 470 GLU A 384 CD OE1 OE2 REMARK 470 GLN A 406 CG CD OE1 NE2 REMARK 470 GLU A 421 CD OE1 OE2 REMARK 470 LYS A 428 CG CD CE NZ REMARK 470 LYS A 496 CD CE NZ REMARK 470 GLU A 499 CG CD OE1 OE2 REMARK 470 GLU A 583 CG CD OE1 OE2 REMARK 470 LYS A 609 CG CD CE NZ REMARK 470 ARG A 624 NE CZ NH1 NH2 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: TORSION ANGLES REMARK 500 REMARK 500 TORSION ANGLES OUTSIDE THE EXPECTED RAMACHANDRAN REGIONS: REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT:(10X,I3,1X,A3,1X,A1,I4,A1,4X,F7.2,3X,F7.2) REMARK 500 REMARK 500 EXPECTED VALUES: GJ KLEYWEGT AND TA JONES (1996). PHI/PSI- REMARK 500 CHOLOGY: RAMACHANDRAN REVISITED. STRUCTURE 4, 1395 - 1400 REMARK 500 REMARK 500 M RES CSSEQI PSI PHI REMARK 500 LYS A 5 -150.93 -162.32 REMARK 500 ASN A 63 46.83 -105.62 REMARK 500 CYS A 205 -98.89 -112.72 REMARK 500 SER A 247 -153.23 -156.88 REMARK 500 ASN A 250 169.56 73.94 REMARK 500 HIS A 266 -41.76 -137.06 REMARK 500 CYS A 301 -139.15 63.01 REMARK 500 ASN A 318 -151.76 -111.63 REMARK 500 ASP A 337 -75.20 -110.47 REMARK 500 GLN A 339 123.08 74.79 REMARK 500 TYR A 352 -151.22 -117.78 REMARK 500 SER A 405 178.05 61.33 REMARK 500 PHE A 414 72.08 -101.86 REMARK 500 CYS A 448 -167.33 -109.36 REMARK 500 TYR A 553 -32.50 -139.05 REMARK 500 REMARK 500 REMARK: NULL REMARK 610 REMARK 610 MISSING HETEROATOM REMARK 610 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 610 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 610 I=INSERTION CODE): REMARK 610 M RES C SSEQI REMARK 610 XCC A 702 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 SF4 A 701 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 51 SG REMARK 620 2 SF4 A 701 S2 120.3 REMARK 620 3 SF4 A 701 S3 110.4 104.2 REMARK 620 4 SF4 A 701 S4 111.8 104.1 104.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 701 FE4 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 54 SG REMARK 620 2 SF4 A 701 S1 105.4 REMARK 620 3 SF4 A 701 S2 117.0 104.5 REMARK 620 4 SF4 A 701 S3 120.2 104.0 104.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 701 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 59 SG REMARK 620 2 SF4 A 701 S1 115.1 REMARK 620 3 SF4 A 701 S3 115.1 104.0 REMARK 620 4 SF4 A 701 S4 112.9 104.0 104.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 701 FE3 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 74 SG REMARK 620 2 SF4 A 701 S1 110.4 REMARK 620 3 SF4 A 701 S2 116.0 104.5 REMARK 620 4 SF4 A 701 S4 116.5 104.1 103.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 XCC A 702 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 266 NE2 REMARK 620 2 XCC A 702 S3 103.4 REMARK 620 3 CYS A 302 SG 98.4 111.9 REMARK 620 4 HOH A 814 O 83.9 130.3 115.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 XCC A 702 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 340 SG REMARK 620 2 XCC A 702 S2 115.0 REMARK 620 3 XCC A 702 S4 102.8 105.5 REMARK 620 4 XCC A 702 S3 111.5 93.7 128.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 XCC A 702 FE3 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 448 SG REMARK 620 2 XCC A 702 S1 111.2 REMARK 620 3 XCC A 702 S2 109.3 105.9 REMARK 620 4 XCC A 702 S4 109.6 113.5 107.2 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 XCC A 702 FE4 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 478 SG REMARK 620 2 XCC A 702 S1 109.3 REMARK 620 3 XCC A 702 S2 110.6 105.2 REMARK 620 4 XCC A 702 S3 112.7 121.6 96.0 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SF4 A 701 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue XCC A 702 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6OND RELATED DB: PDB REMARK 900 WILD-TYPE PROTEIN COEXPRESSED WITHOUT COOC, REDUCED REMARK 900 RELATED ID: 6ONC RELATED DB: PDB REMARK 900 WILD-TYPE PROTEIN COEXPRESSED WITHOUT COOC, AS-ISOLATED DBREF1 6ONS A 2 629 UNP A0A0E0T3I2_DESVR DBREF2 6ONS A A0A0E0T3I2 2 629 SEQADV 6ONS MET A -7 UNP A0A0E0T3I EXPRESSION TAG SEQADV 6ONS TRP A -6 UNP A0A0E0T3I EXPRESSION TAG SEQADV 6ONS SER A -5 UNP A0A0E0T3I EXPRESSION TAG SEQADV 6ONS HIS A -4 UNP A0A0E0T3I EXPRESSION TAG SEQADV 6ONS PRO A -3 UNP A0A0E0T3I EXPRESSION TAG SEQADV 6ONS ALA A -2 UNP A0A0E0T3I EXPRESSION TAG SEQADV 6ONS VAL A -1 UNP A0A0E0T3I EXPRESSION TAG SEQADV 6ONS ARG A 0 UNP A0A0E0T3I EXPRESSION TAG SEQADV 6ONS LYS A 1 UNP A0A0E0T3I EXPRESSION TAG SEQADV 6ONS ALA A 42 UNP A0A0E0T3I CYS 42 ENGINEERED MUTATION SEQADV 6ONS ALA A 45 UNP A0A0E0T3I CYS 45 ENGINEERED MUTATION SEQRES 1 A 637 MET TRP SER HIS PRO ALA VAL ARG LYS SER SER SER LYS SEQRES 2 A 637 THR ILE ARG SER ARG SER ILE TRP ASP ASP ALA HIS ALA SEQRES 3 A 637 MET LEU GLU LYS ALA LYS ALA GLU GLY ILE SER THR VAL SEQRES 4 A 637 TRP ASP ARG ALA ALA GLU GLN THR PRO ALA ALA LYS PHE SEQRES 5 A 637 ALA GLU LEU GLY THR THR CYS ARG ASN CYS ILE MET GLY SEQRES 6 A 637 PRO CYS ARG ILE ALA ASN ARG LYS ASP GLY LYS MET ARG SEQRES 7 A 637 LEU GLY VAL CYS GLY ALA ASP ALA ASP VAL ILE VAL ALA SEQRES 8 A 637 ARG ASN PHE GLY ARG PHE ILE ALA GLY GLY ALA ALA GLY SEQRES 9 A 637 HIS SER ASP HIS GLY ARG ASP LEU ILE GLU THR LEU GLU SEQRES 10 A 637 ALA VAL ALA GLU GLY LYS ALA PRO GLY TYR THR ILE ARG SEQRES 11 A 637 ASP VAL ALA LYS LEU ARG ARG ILE ALA ALA GLU LEU GLY SEQRES 12 A 637 VAL ALA ASP ALA ALA THR ARG PRO ALA HIS ASP VAL ALA SEQRES 13 A 637 ALA ASP LEU VAL THR ILE CYS TYR ASN ASP PHE GLY SER SEQRES 14 A 637 ARG ARG ASN ALA LEU ALA PHE LEU ALA ARG ALA PRO GLN SEQRES 15 A 637 VAL ARG ARG ASP LEU TRP GLN ARG LEU GLY MET THR PRO SEQRES 16 A 637 ARG GLY VAL ASP ARG GLU ILE ALA GLU MET MET HIS ARG SEQRES 17 A 637 THR HIS MET GLY CYS ASP ASN ASP HIS THR SER LEU LEU SEQRES 18 A 637 VAL HIS ALA ALA ARG THR ALA LEU ALA ASP GLY TRP GLY SEQRES 19 A 637 GLY SER MET ILE GLY THR GLU LEU SER ASP ILE LEU PHE SEQRES 20 A 637 GLY THR PRO ARG PRO ARG GLN SER THR VAL ASN LEU GLY SEQRES 21 A 637 VAL LEU ARG LYS ASP ALA VAL ASN ILE LEU VAL HIS GLY SEQRES 22 A 637 HIS ASN PRO VAL VAL SER GLU MET ILE LEU ALA ALA THR SEQRES 23 A 637 ARG GLU PRO ALA VAL ARG GLN ALA ALA GLN ASP ALA GLY SEQRES 24 A 637 ALA ALA ASP ILE ASN VAL ALA GLY LEU CYS CYS THR GLY SEQRES 25 A 637 ASN GLU LEU LEU MET ARG GLN GLY ILE PRO MET ALA GLY SEQRES 26 A 637 ASN HIS LEU MET THR GLU LEU ALA ILE VAL THR GLY ALA SEQRES 27 A 637 ALA ASP ALA ILE VAL ALA ASP TYR GLN CYS ILE MET PRO SEQRES 28 A 637 SER LEU VAL GLN ILE ALA ALA CYS TYR HIS THR ARG PHE SEQRES 29 A 637 VAL THR THR SER PRO LYS GLY ARG PHE THR GLY ALA THR SEQRES 30 A 637 HIS VAL GLU VAL HIS PRO HIS ASN ALA GLN GLU ARG CYS SEQRES 31 A 637 ARG GLU ILE VAL MET LEU ALA ILE ASP ALA TYR THR ARG SEQRES 32 A 637 ARG ASP PRO ALA ARG VAL ASP ILE PRO SER GLN PRO VAL SEQRES 33 A 637 SER ILE MET SER GLY PHE SER ASN GLU ALA ILE LEU GLU SEQRES 34 A 637 ALA LEU GLY GLY THR PRO LYS PRO LEU ILE ASP ALA VAL SEQRES 35 A 637 VAL ALA GLY GLN ILE ARG GLY PHE VAL GLY ILE VAL GLY SEQRES 36 A 637 CYS ASN ASN PRO LYS ILE ARG GLN ASP SER ALA ASN VAL SEQRES 37 A 637 THR LEU THR ARG GLU LEU ILE ARG ARG ASP ILE MET VAL SEQRES 38 A 637 LEU ALA THR GLY CYS VAL THR THR ALA ALA GLY LYS ALA SEQRES 39 A 637 GLY LEU LEU VAL PRO GLU ALA ALA SER LYS ALA GLY GLU SEQRES 40 A 637 GLY LEU ALA ALA VAL CYS ARG SER LEU GLY VAL PRO PRO SEQRES 41 A 637 VAL LEU HIS MET GLY SER CYS VAL ASP ASN SER ARG ILE SEQRES 42 A 637 LEU GLN LEU CYS ALA LEU LEU ALA THR THR LEU GLY VAL SEQRES 43 A 637 ASP ILE SER ASP LEU PRO VAL GLY ALA SER SER PRO GLU SEQRES 44 A 637 TRP TYR SER GLU LYS ALA ALA ALA ILE ALA MET TYR ALA SEQRES 45 A 637 VAL ALA SER GLY ILE PRO THR HIS LEU GLY LEU PRO PRO SEQRES 46 A 637 ASN ILE LEU GLY SER GLU ASN VAL THR ALA MET ALA LEU SEQRES 47 A 637 HIS GLY LEU GLN ASP VAL VAL GLY ALA ALA PHE MET VAL SEQRES 48 A 637 GLU PRO ASP PRO VAL LYS ALA ALA ASP MET LEU GLU ALA SEQRES 49 A 637 HIS ILE VAL ALA ARG ARG ALA ARG LEU GLY LEU THR SER HET SF4 A 701 8 HET XCC A 702 8 HETNAM SF4 IRON/SULFUR CLUSTER HETNAM XCC FE(4)-NI(1)-S(4) CLUSTER HETSYN XCC C CLUSTER FORMUL 2 SF4 FE4 S4 FORMUL 3 XCC FE4 NI S4 FORMUL 4 HOH *25(H2 O) HELIX 1 AA1 LYS A 5 ARG A 10 5 6 HELIX 2 AA2 TRP A 13 GLU A 26 1 14 HELIX 3 AA3 THR A 30 GLN A 38 1 9 HELIX 4 AA4 ASP A 77 GLU A 113 1 37 HELIX 5 AA5 ASP A 123 GLY A 135 1 13 HELIX 6 AA6 PRO A 143 PHE A 159 1 17 HELIX 7 AA7 LEU A 166 ALA A 172 5 7 HELIX 8 AA8 PRO A 173 LEU A 183 1 11 HELIX 9 AA9 GLY A 189 THR A 201 1 13 HELIX 10 AB1 ASP A 208 TRP A 225 1 18 HELIX 11 AB2 GLY A 226 GLY A 240 1 15 HELIX 12 AB3 ASN A 250 LEU A 254 5 5 HELIX 13 AB4 ASN A 267 ARG A 279 1 13 HELIX 14 AB5 GLU A 280 ALA A 290 1 11 HELIX 15 AB6 CYS A 301 GLY A 312 1 12 HELIX 16 AB7 ASN A 318 LEU A 320 5 3 HELIX 17 AB8 MET A 321 THR A 328 1 8 HELIX 18 AB9 PRO A 343 CYS A 351 1 9 HELIX 19 AC1 ASN A 377 ARG A 395 1 19 HELIX 20 AC2 ASP A 397 VAL A 401 5 5 HELIX 21 AC3 SER A 415 LEU A 423 1 9 HELIX 22 AC4 PRO A 427 GLY A 437 1 11 HELIX 23 AC5 ASP A 456 ARG A 469 1 14 HELIX 24 AC6 CYS A 478 ALA A 486 1 9 HELIX 25 AC7 VAL A 490 ALA A 497 5 8 HELIX 26 AC8 GLY A 498 GLY A 509 1 12 HELIX 27 AC9 ASP A 521 GLY A 537 1 17 HELIX 28 AD1 ASP A 539 LEU A 543 5 5 HELIX 29 AD2 SER A 554 SER A 567 1 14 HELIX 30 AD3 SER A 582 HIS A 591 1 10 HELIX 31 AD4 HIS A 591 VAL A 597 1 7 HELIX 32 AD5 ASP A 606 LEU A 625 1 20 SHEET 1 AA1 2 THR A 50 CYS A 51 0 SHEET 2 AA1 2 CYS A 59 ARG A 60 -1 O CYS A 59 N CYS A 51 SHEET 1 AA2 2 ARG A 245 VAL A 249 0 SHEET 2 AA2 2 VAL A 408 SER A 412 -1 O SER A 412 N ARG A 245 SHEET 1 AA3 6 MET A 315 GLY A 317 0 SHEET 2 AA3 6 ILE A 295 LEU A 300 1 N GLY A 299 O ALA A 316 SHEET 3 AA3 6 VAL A 259 HIS A 264 1 N VAL A 259 O ASN A 296 SHEET 4 AA3 6 ALA A 333 ALA A 336 1 O VAL A 335 N HIS A 264 SHEET 5 AA3 6 ARG A 355 THR A 358 1 O VAL A 357 N ILE A 334 SHEET 6 AA3 6 THR A 369 HIS A 370 1 O THR A 369 N PHE A 356 SHEET 1 AA4 6 VAL A 513 GLY A 517 0 SHEET 2 AA4 6 ILE A 471 THR A 476 1 N ALA A 475 O MET A 516 SHEET 3 AA4 6 GLY A 441 ILE A 445 1 N VAL A 443 O MET A 472 SHEET 4 AA4 6 VAL A 545 SER A 549 1 O GLY A 546 N GLY A 444 SHEET 5 AA4 6 THR A 571 LEU A 573 1 O HIS A 572 N ALA A 547 SHEET 6 AA4 6 PHE A 601 VAL A 603 1 O MET A 602 N LEU A 573 LINK SG CYS A 51 FE1 SF4 A 701 1555 1555 2.27 LINK SG CYS A 54 FE4 SF4 A 701 1555 1555 2.28 LINK SG CYS A 59 FE2 SF4 A 701 1555 1555 2.28 LINK SG CYS A 74 FE3 SF4 A 701 1555 1555 2.28 LINK NE2 HIS A 266 FE2 XCC A 702 1555 1555 2.26 LINK SG CYS A 302 FE2 XCC A 702 1555 1555 2.44 LINK SG CYS A 340 FE1 XCC A 702 1555 1555 2.47 LINK SG CYS A 448 FE3 XCC A 702 1555 1555 2.47 LINK SG CYS A 478 FE4 XCC A 702 1555 1555 2.48 LINK FE2 XCC A 702 O HOH A 814 1555 1555 1.99 CISPEP 1 GLY A 57 PRO A 58 0 2.39 SITE 1 AC1 8 CYS A 51 CYS A 54 MET A 56 CYS A 59 SITE 2 AC1 8 VAL A 73 CYS A 74 ARG A 84 MET A 203 SITE 1 AC2 12 HIS A 266 CYS A 301 CYS A 302 CYS A 340 SITE 2 AC2 12 GLY A 447 CYS A 448 CYS A 478 CYS A 519 SITE 3 AC2 12 TYR A 553 SER A 554 LYS A 556 HOH A 814 CRYST1 110.544 100.609 65.343 90.00 124.75 90.00 C 1 2 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 0.009046 0.000000 0.006275 0.00000 SCALE2 0.000000 0.009939 0.000000 0.00000 SCALE3 0.000000 0.000000 0.018625 0.00000