HEADER OXIDOREDUCTASE 18-APR-17 5VJ7 TITLE FERREDOXIN NADP OXIDOREDUCTASE (XFN) COMPND MOL_ID: 1; COMPND 2 MOLECULE: OXIDOREDUCTASE; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: FERREDOXIN-NADP(+) REDUCTASE SUBUNIT ALPHA; COMPND 7 CHAIN: B; COMPND 8 EC: 1.18.1.2; COMPND 9 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PYROCOCCUS FURIOSUS COM1; SOURCE 3 ORGANISM_TAXID: 1185654; SOURCE 4 GENE: PFC_09035; SOURCE 5 EXPRESSION_SYSTEM: PYROCOCCUS FURIOSUS; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 2261; SOURCE 7 MOL_ID: 2; SOURCE 8 ORGANISM_SCIENTIFIC: PYROCOCCUS FURIOSUS COM1; SOURCE 9 ORGANISM_TAXID: 1185654; SOURCE 10 GENE: PFC_09030; SOURCE 11 EXPRESSION_SYSTEM: PYROCOCCUS FURIOSUS; SOURCE 12 EXPRESSION_SYSTEM_TAXID: 2261 KEYWDS ARCHAEA; HYPERTHERMOPHILE; ELECTRON BIFURCATION; NFNII; METABOLISM; KEYWDS 2 SULFUR, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR O.A.ZADVORNYY,D.M.N.NGUYEN,G.J.SCHUT,G.L.LIPSCOMB,M.TOKMINA- AUTHOR 2 LUKASZEWSKA,M.W.W.ADAMS,J.W.PETERS REVDAT 6 04-OCT-23 5VJ7 1 REMARK REVDAT 5 04-DEC-19 5VJ7 1 REMARK REVDAT 4 20-SEP-17 5VJ7 1 JRNL REVDAT 3 13-SEP-17 5VJ7 1 REMARK REVDAT 2 26-JUL-17 5VJ7 1 JRNL REVDAT 1 19-JUL-17 5VJ7 0 JRNL AUTH D.M.N.NGUYEN,G.J.SCHUT,O.A.ZADVORNYY,M.TOKMINA-LUKASZEWSKA, JRNL AUTH 2 S.POUDEL,G.L.LIPSCOMB,L.A.ADAMS,J.T.DINSMORE,W.J.NIXON, JRNL AUTH 3 E.S.BOYD,B.BOTHNER,J.W.PETERS,M.W.W.ADAMS JRNL TITL TWO FUNCTIONALLY DISTINCT NADP(+)-DEPENDENT FERREDOXIN JRNL TITL 2 OXIDOREDUCTASES MAINTAIN THE PRIMARY REDOX BALANCE OF JRNL TITL 3 PYROCOCCUS FURIOSUS. JRNL REF J. BIOL. CHEM. V. 292 14603 2017 JRNL REFN ESSN 1083-351X JRNL PMID 28705933 JRNL DOI 10.1074/JBC.M117.794172 REMARK 2 REMARK 2 RESOLUTION. 2.55 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : BUSTER 2.10.3 REMARK 3 AUTHORS : BRICOGNE,BLANC,BRANDL,FLENSBURG,KELLER, REMARK 3 : PACIOREK,ROVERSI,SHARFF,SMART,VONRHEIN, REMARK 3 : WOMACK,MATTHEWS,TEN EYCK,TRONRUD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.55 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.6 REMARK 3 NUMBER OF REFLECTIONS : 25850 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.186 REMARK 3 R VALUE (WORKING SET) : 0.183 REMARK 3 FREE R VALUE : 0.251 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.740 REMARK 3 FREE R VALUE TEST SET COUNT : 1226 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 13 REMARK 3 BIN RESOLUTION RANGE HIGH (ANGSTROMS) : 2.55 REMARK 3 BIN RESOLUTION RANGE LOW (ANGSTROMS) : 2.65 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.01 REMARK 3 REFLECTIONS IN BIN (WORKING + TEST SET) : 2915 REMARK 3 BIN R VALUE (WORKING + TEST SET) : 0.2098 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2764 REMARK 3 BIN R VALUE (WORKING SET) : 0.2032 REMARK 3 BIN FREE R VALUE : 0.3266 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.18 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 151 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 5822 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 127 REMARK 3 SOLVENT ATOMS : 185 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 46.19 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 44.63 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 22.23760 REMARK 3 B22 (A**2) : 6.90720 REMARK 3 B33 (A**2) : -29.14490 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -10.24180 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.330 REMARK 3 DPI (BLOW EQ-10) BASED ON R VALUE (A) : 1.063 REMARK 3 DPI (BLOW EQ-9) BASED ON FREE R VALUE (A) : 0.308 REMARK 3 DPI (CRUICKSHANK) BASED ON R VALUE (A) : 1.354 REMARK 3 DPI (CRUICKSHANK) BASED ON FREE R VALUE (A) : 0.314 REMARK 3 REMARK 3 REFERENCES: BLOW, D. (2002) ACTA CRYST D58, 792-797 REMARK 3 CRUICKSHANK, D.W.J. (1999) ACTA CRYST D55, 583-601 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.868 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.814 REMARK 3 REMARK 3 NUMBER OF GEOMETRIC FUNCTION TERMS DEFINED : 15 REMARK 3 TERM COUNT WEIGHT FUNCTION. REMARK 3 BOND LENGTHS : 6225 ; 2.000 ; HARMONIC REMARK 3 BOND ANGLES : 8503 ; 2.000 ; HARMONIC REMARK 3 TORSION ANGLES : 2196 ; 2.000 ; SINUSOIDAL REMARK 3 TRIGONAL CARBON PLANES : 149 ; 2.000 ; HARMONIC REMARK 3 GENERAL PLANES : 958 ; 5.000 ; HARMONIC REMARK 3 ISOTROPIC THERMAL FACTORS : 6225 ; 20.000 ; HARMONIC REMARK 3 BAD NON-BONDED CONTACTS : 0 ; 5.000 ; SEMIHARMONIC REMARK 3 IMPROPER TORSIONS : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES : NULL ; NULL ; NULL REMARK 3 CHIRAL IMPROPER TORSION : 794 ; 5.000 ; SEMIHARMONIC REMARK 3 SUM OF OCCUPANCIES : NULL ; NULL ; NULL REMARK 3 UTILITY DISTANCES : NULL ; NULL ; NULL REMARK 3 UTILITY ANGLES : NULL ; NULL ; NULL REMARK 3 UTILITY TORSION : NULL ; NULL ; NULL REMARK 3 IDEAL-DIST CONTACT TERM : 7223 ; 4.000 ; SEMIHARMONIC REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : 1.19 REMARK 3 PEPTIDE OMEGA TORSION ANGLES (DEGREES) : 3.08 REMARK 3 OTHER TORSION ANGLES (DEGREES) : 19.72 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 5VJ7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 25-APR-17. REMARK 100 THE DEPOSITION ID IS D_1000227521. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 30-JUN-16 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 : SSRL REMARK 200 BEAMLINE : BL12-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.95 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : DECTRIS PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.28 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 25850 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.550 REMARK 200 RESOLUTION RANGE LOW (A) : 39.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 200 DATA REDUNDANCY : 4.200 REMARK 200 R MERGE (I) : 0.10000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 7.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.55 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.66 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.1 REMARK 200 DATA REDUNDANCY IN SHELL : 4.20 REMARK 200 R MERGE FOR SHELL (I) : 0.36200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX REMARK 200 STARTING MODEL: 5JFC REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.69 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.31 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.22 MAGNESIUM SULFATE, 27% W/V REMARK 280 POLYETHYLENE GLYCOL 3,350, 0.4% V/V ETHYL ACETATE 1 MM SODIUM REMARK 280 DITHIONITE, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 295K 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 36.57000 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: 7810 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 30720 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -105.0 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 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 PRO A 2 REMARK 465 ARG A 3 REMARK 465 LEU A 4 REMARK 465 LEU A 375 REMARK 465 GLU A 376 REMARK 465 GLU A 377 REMARK 465 ARG A 378 REMARK 465 ASP A 379 REMARK 465 SER A 380 REMARK 465 ARG A 381 REMARK 465 LYS A 474 REMARK 465 GLY A 475 REMARK 465 ASN A 476 REMARK 465 MET B 169 REMARK 465 LYS B 284 REMARK 465 ALA B 285 REMARK 465 LYS B 286 REMARK 465 GLY B 287 REMARK 465 VAL B 288 REMARK 465 ILE B 289 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 OE1 GLU A 184 HO2A FAD A 503 1.18 REMARK 500 OE1 GLU A 184 O2B FAD A 503 1.64 REMARK 500 SG CYS B 230 FE2 FES B 302 1.69 REMARK 500 NH2 ARG B 151 O HOH B 401 1.92 REMARK 500 OD1 ASP B 225 SG CYS B 230 1.92 REMARK 500 O3B FAD B 301 O HOH B 402 2.17 REMARK 500 CE LYS B 170 O HOH B 451 2.19 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES 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,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) 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 ATM2 ATM3 REMARK 500 HIS B 152 CB - CA - C ANGL. DEV. = 16.1 DEGREES 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 6 43.79 -91.14 REMARK 500 GLN A 106 -117.38 -132.22 REMARK 500 LYS A 229 -65.77 -127.46 REMARK 500 ALA A 249 56.70 -150.35 REMARK 500 ALA A 301 25.49 -148.64 REMARK 500 ARG A 325 -151.39 -118.56 REMARK 500 GLU A 355 147.24 -175.96 REMARK 500 LYS A 385 -166.12 70.81 REMARK 500 ILE A 386 -167.29 -123.55 REMARK 500 ASN A 409 93.44 -63.22 REMARK 500 ALA A 451 -131.37 -136.09 REMARK 500 ALA B 11 -176.21 -173.10 REMARK 500 ALA B 21 73.23 -150.58 REMARK 500 THR B 65 98.01 -69.15 REMARK 500 GLU B 79 103.93 -57.95 REMARK 500 TYR B 108 -136.49 56.00 REMARK 500 LEU B 145 1.32 -60.11 REMARK 500 LYS B 147 43.81 -107.80 REMARK 500 THR B 150 135.35 -176.52 REMARK 500 GLN B 163 -155.97 -77.87 REMARK 500 PHE B 165 -89.79 -129.06 REMARK 500 GLU B 185 -13.42 83.29 REMARK 500 HIS B 220 58.40 -113.22 REMARK 500 VAL B 224 -74.61 -115.78 REMARK 500 CYS B 230 -25.70 -146.18 REMARK 500 GLU B 281 29.97 -72.31 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 A 703 DISTANCE = 6.29 ANGSTROMS REMARK 525 HOH A 704 DISTANCE = 7.85 ANGSTROMS REMARK 525 HOH B 481 DISTANCE = 6.71 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 SF4 A 502 FE3 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 42 SG REMARK 620 2 SF4 A 502 S1 130.4 REMARK 620 3 SF4 A 502 S2 132.5 90.0 REMARK 620 4 SF4 A 502 S4 110.5 90.0 90.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 502 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 45 SG REMARK 620 2 SF4 A 502 S2 120.8 REMARK 620 3 SF4 A 502 S3 134.2 90.0 REMARK 620 4 SF4 A 502 S4 120.1 90.0 90.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 502 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 52 SG REMARK 620 2 SF4 A 502 S1 138.2 REMARK 620 3 SF4 A 502 S3 116.5 90.0 REMARK 620 4 SF4 A 502 S4 119.7 90.0 90.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 501 FE4 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 56 SG REMARK 620 2 SF4 A 501 S1 119.8 REMARK 620 3 SF4 A 501 S2 123.6 90.0 REMARK 620 4 SF4 A 501 S3 132.0 90.0 90.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 501 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 101 SG REMARK 620 2 SF4 A 501 S1 158.8 REMARK 620 3 SF4 A 501 S3 109.3 90.0 REMARK 620 4 SF4 A 501 S4 98.4 90.0 90.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 501 FE3 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 107 SG REMARK 620 2 SF4 A 501 S1 116.7 REMARK 620 3 SF4 A 501 S2 123.8 90.0 REMARK 620 4 SF4 A 501 S4 134.4 90.0 90.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 502 FE4 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 111 SG REMARK 620 2 SF4 A 502 S1 112.3 REMARK 620 3 SF4 A 502 S2 141.2 90.0 REMARK 620 4 SF4 A 502 S3 119.9 90.0 90.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 501 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 126 OE1 REMARK 620 2 SF4 A 501 S2 128.6 REMARK 620 3 SF4 A 501 S3 127.3 90.0 REMARK 620 4 SF4 A 501 S4 119.5 90.0 90.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 MG B 303 MG REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU B 43 OE2 REMARK 620 2 FAD B 301 O1A 134.9 REMARK 620 3 FAD B 301 O1P 81.1 71.5 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FES B 302 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 225 OD1 REMARK 620 2 FES B 302 S1 103.5 REMARK 620 3 FES B 302 S2 104.7 90.0 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FES B 302 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 233 SG REMARK 620 2 FES B 302 S1 111.0 REMARK 620 3 FES B 302 S2 111.7 90.0 REMARK 620 4 CYS B 245 SG 114.8 115.7 111.1 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 501 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SF4 A 502 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FAD A 503 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FAD B 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FES B 302 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue MG B 303 DBREF 5VJ7 A 1 476 UNP I6V148 I6V148_9EURY 1 476 DBREF 5VJ7 B 1 289 UNP I6TYZ3 I6TYZ3_9EURY 1 289 SEQRES 1 A 476 MET PRO ARG LEU ILE LYS GLU ARG VAL PRO THR PRO GLU SEQRES 2 A 476 ARG SER VAL GLY GLU ARG VAL ARG ASP PHE GLY GLU VAL SEQRES 3 A 476 ASN LEU GLY TYR SER TRP GLU LEU ALA LEU ARG GLU ALA SEQRES 4 A 476 GLU ARG CYS LEU GLN CYS PRO VAL GLU TYR ALA PRO CYS SEQRES 5 A 476 ILE LYS GLY CYS PRO VAL HIS ILE ASN ILE PRO GLY PHE SEQRES 6 A 476 ILE LYS ALA LEU ARG GLU ASN ARG ASP ASN PRO SER LYS SEQRES 7 A 476 ALA VAL ARG GLU ALA LEU ARG ILE ILE TRP ARG ASP ASN SEQRES 8 A 476 THR LEU PRO ALA ILE THR GLY ARG VAL CYS PRO GLN GLU SEQRES 9 A 476 GLU GLN CYS GLU GLY ALA CYS VAL VAL GLY LYS VAL GLY SEQRES 10 A 476 ASP PRO ILE ASN ILE GLY LYS LEU GLU ARG PHE VAL ALA SEQRES 11 A 476 ASP TYR ALA ARG GLU HIS GLY ILE ASP ASP GLU LEU LEU SEQRES 12 A 476 LEU GLU GLU ILE LYS GLY ILE LYS ARG ASN GLY LYS LYS SEQRES 13 A 476 VAL ALA ILE ILE GLY ALA GLY PRO ALA GLY LEU THR CYS SEQRES 14 A 476 ALA ALA ASP LEU ALA LYS MET GLY TYR GLU VAL THR ILE SEQRES 15 A 476 TYR GLU ALA LEU HIS GLN PRO GLY GLY VAL LEU THR TYR SEQRES 16 A 476 GLY ILE PRO GLU PHE ARG LEU PRO LYS GLU ILE LEU ARG SEQRES 17 A 476 LYS GLU LEU LYS LYS LEU SER LEU LEU GLY VAL GLU ILE SEQRES 18 A 476 LYS THR ASP HIS ILE VAL GLY LYS THR ILE THR ILE GLN SEQRES 19 A 476 GLU LEU LEU GLN GLU TYR ASP ALA VAL PHE ILE GLY THR SEQRES 20 A 476 GLY ALA GLY THR PRO LYS LEU PRO ASN ILE PRO GLY ILE SEQRES 21 A 476 ASN LEU ASN GLY ILE TYR SER ALA ASN GLU PHE LEU THR SEQRES 22 A 476 ARG ILE ASN LEU MET LYS ALA TYR LYS PHE PRO GLU TYR SEQRES 23 A 476 ASP THR PRO ILE VAL VAL GLY LYS LYS VAL VAL VAL ILE SEQRES 24 A 476 GLY ALA GLY ASN THR ALA MET ASP ALA ALA ARG SER ALA SEQRES 25 A 476 LEU ARG LEU GLY ALA GLU VAL THR ILE ALA TYR ARG ARG SEQRES 26 A 476 GLY ARG GLU ASP MET THR ALA ARG ILE GLU GLU VAL LYS SEQRES 27 A 476 HIS ALA GLU GLU GLU GLY VAL LYS PHE MET PHE PHE VAL SEQRES 28 A 476 ASN PRO VAL GLU PHE ILE GLY ASP GLU ASN GLY ASN VAL SEQRES 29 A 476 LYS ALA VAL LYS PHE GLU LYS MET LYS PRO LEU GLU GLU SEQRES 30 A 476 ARG ASP SER ARG GLY LYS ARG LYS ILE VAL GLY THR GLY SEQRES 31 A 476 GLU TYR ILE THR VAL GLU ALA ASP THR VAL ILE ILE ALA SEQRES 32 A 476 ILE GLY GLN THR PRO ASN LYS VAL LEU TRP ARG ALA THR SEQRES 33 A 476 PRO GLU LEU LYS VAL ASP GLU TRP GLY ARG ILE VAL VAL SEQRES 34 A 476 ASP GLU ASN LEU MET THR SER ILE PRO GLY VAL PHE ALA SEQRES 35 A 476 GLY GLY ASP ALA ILE ARG GLY GLU ALA THR VAL ILE LEU SEQRES 36 A 476 ALA MET GLY ASP GLY ARG LYS ALA ALA LYS ALA ILE HIS SEQRES 37 A 476 GLN TYR LEU SER LYS LYS GLY ASN SEQRES 1 B 289 MET TYR LYS ILE LEU GLU LYS LYS GLU ILE ALA MET ARG SEQRES 2 B 289 ASN THR TRP TYR LYS VAL TYR ALA PRO HIS VAL ALA LYS SEQRES 3 B 289 LYS VAL GLN PRO GLY GLN PHE VAL ILE VAL ARG ALA PHE SEQRES 4 B 289 PRO ASN GLY GLU ARG ILE PRO LEU THR PRO VAL MET TRP SEQRES 5 B 289 ASP ARG GLU GLU GLY TRP ILE VAL LEU ILE VAL PHE THR SEQRES 6 B 289 ARG GLY LYS THR THR MET ARG MET ALA VAL GLU LEU LYS SEQRES 7 B 289 GLU GLY ASP SER LEU LEU ASN VAL ALA GLY PRO LEU GLY SEQRES 8 B 289 THR PRO VAL PRO MET GLU LYS PHE GLY LYS ILE LEU ALA SEQRES 9 B 289 ILE GLY ALA TYR THR GLY ILE VAL GLU VAL TYR PRO ILE SEQRES 10 B 289 ALA LYS ALA TRP GLN GLU ILE GLY ASN ASP VAL THR THR SEQRES 11 B 289 LEU HIS VAL THR PHE GLU PRO MET VAL ILE LEU LYS GLU SEQRES 12 B 289 GLU LEU GLU LYS ALA VAL THR ARG HIS ILE VAL GLU PRO SEQRES 13 B 289 VAL PRO LEU ASN PRO ASN GLN ASP PHE LEU ALA ASN MET SEQRES 14 B 289 LYS ASN VAL SER GLN ARG LEU LYS GLU LYS VAL ARG GLU SEQRES 15 B 289 LEU LEU GLU SER GLU ASP TRP ASP LEU VAL PHE MET VAL SEQRES 16 B 289 GLY PRO VAL GLY ASP GLN LYS GLN VAL PHE GLU VAL VAL SEQRES 17 B 289 LYS GLU TYR GLY VAL PRO MET LYS VAL ASP LEU HIS PRO SEQRES 18 B 289 ILE MET VAL ASP GLY THR GLY MET CYS GLY ALA CYS ARG SEQRES 19 B 289 VAL THR VAL GLY GLY GLU VAL LYS PHE ALA CYS VAL ASP SEQRES 20 B 289 GLY PRO GLU PHE ASP ALA TYR GLN VAL ASP TRP ASP GLU SEQRES 21 B 289 LEU ILE HIS ARG VAL GLY PHE TYR ALA LYS LEU GLU LYS SEQRES 22 B 289 LEU ALA LEU GLU LYS TYR MET GLU GLU LEU LYS ALA LYS SEQRES 23 B 289 GLY VAL ILE HET SF4 A 501 8 HET SF4 A 502 8 HET FAD A 503 84 HET FAD B 301 84 HET FES B 302 4 HET MG B 303 1 HETNAM SF4 IRON/SULFUR CLUSTER HETNAM FAD FLAVIN-ADENINE DINUCLEOTIDE HETNAM FES FE2/S2 (INORGANIC) CLUSTER HETNAM MG MAGNESIUM ION FORMUL 3 SF4 2(FE4 S4) FORMUL 5 FAD 2(C27 H33 N9 O15 P2) FORMUL 7 FES FE2 S2 FORMUL 8 MG MG 2+ FORMUL 9 HOH *185(H2 O) HELIX 1 AA1 SER A 15 VAL A 20 1 6 HELIX 2 AA2 SER A 31 GLU A 40 1 10 HELIX 3 AA3 ALA A 50 CYS A 56 1 7 HELIX 4 AA4 ASN A 61 ASN A 72 1 12 HELIX 5 AA5 ASN A 75 ASN A 91 1 17 HELIX 6 AA6 LEU A 93 CYS A 101 1 9 HELIX 7 AA7 PRO A 102 GLU A 105 5 4 HELIX 8 AA8 GLN A 106 CYS A 111 1 6 HELIX 9 AA9 VAL A 112 LYS A 115 5 4 HELIX 10 AB1 ASN A 121 HIS A 136 1 16 HELIX 11 AB2 GLY A 137 GLY A 149 1 13 HELIX 12 AB3 GLY A 163 MET A 176 1 14 HELIX 13 AB4 GLY A 191 GLY A 196 1 6 HELIX 14 AB5 LYS A 204 LEU A 217 1 14 HELIX 15 AB6 THR A 232 GLN A 238 1 7 HELIX 16 AB7 ALA A 268 LEU A 277 1 10 HELIX 17 AB8 LYS A 279 PHE A 283 5 5 HELIX 18 AB9 GLY A 302 ARG A 314 1 13 HELIX 19 AC1 GLY A 326 MET A 330 5 5 HELIX 20 AC2 ARG A 333 GLY A 344 1 12 HELIX 21 AC3 VAL A 411 THR A 416 5 6 HELIX 22 AC4 GLY A 444 GLY A 449 1 6 HELIX 23 AC5 THR A 452 LEU A 471 1 20 HELIX 24 AC6 ALA B 21 LYS B 26 1 6 HELIX 25 AC7 GLY B 67 LEU B 77 1 11 HELIX 26 AC8 GLY B 110 ILE B 124 1 15 HELIX 27 AC9 PHE B 135 VAL B 139 5 5 HELIX 28 AD1 GLU B 143 LYS B 147 5 5 HELIX 29 AD2 SER B 173 ARG B 181 1 9 HELIX 30 AD3 PRO B 197 GLU B 210 1 14 HELIX 31 AD4 ALA B 244 GLY B 248 1 5 HELIX 32 AD5 ASP B 257 ARG B 264 1 8 HELIX 33 AD6 TYR B 268 GLU B 281 1 14 SHEET 1 AA1 5 GLU A 220 THR A 223 0 SHEET 2 AA1 5 GLU A 179 GLU A 184 1 N ILE A 182 O LYS A 222 SHEET 3 AA1 5 LYS A 156 ILE A 160 1 N ILE A 159 O TYR A 183 SHEET 4 AA1 5 ALA A 242 ILE A 245 1 O PHE A 244 N ILE A 160 SHEET 5 AA1 5 VAL A 440 ALA A 442 1 O PHE A 441 N ILE A 245 SHEET 1 AA2 2 THR A 251 PRO A 252 0 SHEET 2 AA2 2 GLN A 406 THR A 407 -1 O THR A 407 N THR A 251 SHEET 1 AA3 5 ILE A 265 SER A 267 0 SHEET 2 AA3 5 THR A 399 ILE A 402 1 O VAL A 400 N TYR A 266 SHEET 3 AA3 5 LYS A 295 ILE A 299 1 N ILE A 299 O ILE A 401 SHEET 4 AA3 5 GLU A 318 ALA A 322 1 O ALA A 322 N VAL A 298 SHEET 5 AA3 5 LYS A 346 MET A 348 1 O MET A 348 N ILE A 321 SHEET 1 AA4 3 VAL A 351 GLY A 358 0 SHEET 2 AA4 3 VAL A 364 LYS A 373 -1 O LYS A 368 N GLU A 355 SHEET 3 AA4 3 VAL A 387 GLU A 396 -1 O ILE A 393 N PHE A 369 SHEET 1 AA5 5 MET B 51 ASP B 53 0 SHEET 2 AA5 5 TRP B 58 PHE B 64 -1 O VAL B 60 N MET B 51 SHEET 3 AA5 5 ASN B 14 TYR B 20 -1 N TYR B 17 O LEU B 61 SHEET 4 AA5 5 TYR B 2 ALA B 11 -1 N LYS B 8 O TRP B 16 SHEET 5 AA5 5 SER B 82 LEU B 83 -1 O LEU B 83 N TYR B 2 SHEET 1 AA6 3 ILE B 45 LEU B 47 0 SHEET 2 AA6 3 PHE B 33 ARG B 37 -1 N VAL B 34 O LEU B 47 SHEET 3 AA6 3 ASN B 85 LEU B 90 -1 O ALA B 87 N ILE B 35 SHEET 1 AA7 6 THR B 150 VAL B 154 0 SHEET 2 AA7 6 ASP B 127 VAL B 133 1 N HIS B 132 O VAL B 154 SHEET 3 AA7 6 LYS B 101 ALA B 107 1 N ILE B 102 O THR B 129 SHEET 4 AA7 6 LEU B 191 VAL B 195 1 O PHE B 193 N ILE B 105 SHEET 5 AA7 6 MET B 215 ASP B 218 1 O LYS B 216 N VAL B 192 SHEET 6 AA7 6 GLU B 250 ASP B 252 -1 O PHE B 251 N VAL B 217 SHEET 1 AA8 2 ARG B 234 VAL B 237 0 SHEET 2 AA8 2 GLU B 240 PHE B 243 -1 O LYS B 242 N VAL B 235 LINK SG CYS A 42 FE3 SF4 A 502 1555 1555 2.05 LINK SG CYS A 45 FE1 SF4 A 502 1555 1555 2.19 LINK SG CYS A 52 FE2 SF4 A 502 1555 1555 2.13 LINK SG CYS A 56 FE4 SF4 A 501 1555 1555 2.09 LINK SG CYS A 101 FE2 SF4 A 501 1555 1555 2.29 LINK SG CYS A 107 FE3 SF4 A 501 1555 1555 2.24 LINK SG CYS A 111 FE4 SF4 A 502 1555 1555 2.33 LINK OE1 GLU A 126 FE1 SF4 A 501 1555 1555 1.82 LINK OE2 GLU B 43 MG MG B 303 1555 1555 2.24 LINK OD1 ASP B 225 FE2 FES B 302 1555 1555 1.96 LINK SG CYS B 233 FE1 FES B 302 1555 1555 2.18 LINK SG CYS B 245 FE1 FES B 302 1555 1555 1.95 LINK O1A FAD B 301 MG MG B 303 1555 1555 2.07 LINK O1P FAD B 301 MG MG B 303 1555 1555 2.29 CISPEP 1 PHE A 283 PRO A 284 0 12.97 CISPEP 2 GLY B 88 PRO B 89 0 0.90 CISPEP 3 LEU B 166 ALA B 167 0 3.90 CISPEP 4 GLY B 248 PRO B 249 0 4.85 SITE 1 AC1 6 CYS A 56 CYS A 101 GLN A 103 GLN A 106 SITE 2 AC1 6 CYS A 107 GLU A 126 SITE 1 AC2 6 CYS A 42 LEU A 43 CYS A 45 CYS A 52 SITE 2 AC2 6 CYS A 111 ILE A 120 SITE 1 AC3 29 VAL A 100 GLY A 161 ALA A 162 GLY A 163 SITE 2 AC3 29 PRO A 164 ALA A 165 GLU A 184 ALA A 185 SITE 3 AC3 29 LEU A 186 GLY A 191 VAL A 192 ILE A 197 SITE 4 AC3 29 ARG A 201 HIS A 225 VAL A 227 THR A 247 SITE 5 AC3 29 GLY A 248 ASN A 303 THR A 304 ARG A 333 SITE 6 AC3 29 LEU A 412 GLY A 444 ASP A 445 ALA A 451 SITE 7 AC3 29 THR A 452 VAL A 453 ALA A 456 HOH A 603 SITE 8 AC3 29 HOH A 619 SITE 1 AC4 23 GLU B 43 ARG B 44 ILE B 45 PRO B 46 SITE 2 AC4 23 LEU B 47 THR B 48 ILE B 62 VAL B 63 SITE 3 AC4 23 PHE B 64 ARG B 66 GLY B 67 THR B 69 SITE 4 AC4 23 THR B 70 GLU B 113 HIS B 220 PRO B 221 SITE 5 AC4 23 MET B 223 VAL B 265 GLU B 272 MG B 303 SITE 6 AC4 23 HOH B 402 HOH B 412 HOH B 422 SITE 1 AC5 9 VAL B 224 ASP B 225 GLY B 226 GLY B 228 SITE 2 AC5 9 MET B 229 CYS B 230 GLY B 231 CYS B 233 SITE 3 AC5 9 CYS B 245 SITE 1 AC6 2 GLU B 43 FAD B 301 CRYST1 55.743 73.140 99.963 90.00 96.73 90.00 P 1 21 1 2 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 0.017939 0.000000 0.002117 0.00000 SCALE2 0.000000 0.013672 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010073 0.00000