HEADER OXIDOREDUCTASE 26-NOV-18 6N6P TITLE CRYSTAL STRUCTURE OF [FEFE]-HYDROGENASE IN THE PRESENCE OF 7 MM SODIUM TITLE 2 DITHIONITE COMPND MOL_ID: 1; COMPND 2 MOLECULE: IRON HYDROGENASE 1; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: CPI,FE-ONLY HYDROGENASE,[FE] HYDROGENASE; COMPND 5 EC: 1.12.7.2; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CLOSTRIDIUM PASTEURIANUM; SOURCE 3 ORGANISM_TAXID: 1501; SOURCE 4 EXPRESSION_SYSTEM: CLOSTRIDIUM PASTEURIANUM; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 1501 KEYWDS [FEFE]-HYDROGENASE, REACTIVITY OF [FEFE]-HYDROGENASE, CLOSTRIDIUM KEYWDS 2 PASTEURIANUM, IRON SULFUR CLUSTERS, ELECTRON-TRANSFER, CATALYSIS, KEYWDS 3 OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR O.A.ZADVORNYY,S.M.KEABLE,J.W.PETERS REVDAT 4 11-OCT-23 6N6P 1 LINK REVDAT 3 05-FEB-20 6N6P 1 JRNL REVDAT 2 22-JAN-20 6N6P 1 JRNL REVDAT 1 25-DEC-19 6N6P 0 JRNL AUTH J.H.ARTZ,O.A.ZADVORNYY,D.W.MULDER,S.M.KEABLE,A.E.COHEN, JRNL AUTH 2 M.W.RATZLOFF,S.G.WILLIAMS,B.GINOVSKA,N.KUMAR,J.SONG, JRNL AUTH 3 S.E.MCPHILLIPS,C.M.DAVIDSON,A.Y.LYUBIMOV,N.PENCE,G.J.SCHUT, JRNL AUTH 4 A.K.JONES,S.M.SOLTIS,M.W.W.ADAMS,S.RAUGEI,P.W.KING, JRNL AUTH 5 J.W.PETERS JRNL TITL TUNING CATALYTIC BIAS OF HYDROGEN GAS PRODUCING JRNL TITL 2 HYDROGENASES. JRNL REF J.AM.CHEM.SOC. V. 142 1227 2020 JRNL REFN ESSN 1520-5126 JRNL PMID 31816235 JRNL DOI 10.1021/JACS.9B08756 REMARK 2 REMARK 2 RESOLUTION. 1.95 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX 1.13RC2_2986 REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.95 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.61 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 48370 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.158 REMARK 3 R VALUE (WORKING SET) : 0.155 REMARK 3 FREE R VALUE : 0.204 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.310 REMARK 3 FREE R VALUE TEST SET COUNT : 2567 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 39.6136 - 5.1071 1.00 2742 183 0.1448 0.1986 REMARK 3 2 5.1071 - 4.0549 1.00 2637 155 0.1164 0.1559 REMARK 3 3 4.0549 - 3.5427 0.99 2582 160 0.1377 0.1746 REMARK 3 4 3.5427 - 3.2190 1.00 2561 147 0.1498 0.2042 REMARK 3 5 3.2190 - 2.9883 1.00 2584 132 0.1598 0.1901 REMARK 3 6 2.9883 - 2.8122 1.00 2549 139 0.1647 0.1874 REMARK 3 7 2.8122 - 2.6714 1.00 2555 134 0.1597 0.2231 REMARK 3 8 2.6714 - 2.5551 1.00 2544 138 0.1618 0.2322 REMARK 3 9 2.5551 - 2.4568 1.00 2552 128 0.1560 0.1989 REMARK 3 10 2.4568 - 2.3720 1.00 2546 127 0.1553 0.2352 REMARK 3 11 2.3720 - 2.2979 1.00 2490 162 0.1651 0.2066 REMARK 3 12 2.2979 - 2.2322 0.96 2460 118 0.2372 0.2726 REMARK 3 13 2.2322 - 2.1734 0.97 2405 172 0.1894 0.2946 REMARK 3 14 2.1734 - 2.1204 1.00 2510 142 0.1640 0.2251 REMARK 3 15 2.1204 - 2.0722 1.00 2521 130 0.1575 0.2099 REMARK 3 16 2.0722 - 2.0281 1.00 2505 161 0.1587 0.2100 REMARK 3 17 2.0281 - 1.9875 1.00 2528 116 0.1628 0.2010 REMARK 3 18 1.9875 - 1.9500 1.00 2532 123 0.1699 0.2335 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : NULL REMARK 3 B_SOL : NULL REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.190 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 20.770 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 8.60 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 : 0.004 4655 REMARK 3 ANGLE : 0.617 6317 REMARK 3 CHIRALITY : 0.051 703 REMARK 3 PLANARITY : 0.004 814 REMARK 3 DIHEDRAL : 5.357 3986 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): 19.6319 23.7006 19.7121 REMARK 3 T TENSOR REMARK 3 T11: 0.2027 T22: 0.2136 REMARK 3 T33: 0.0524 T12: 0.0061 REMARK 3 T13: 0.0141 T23: -0.0062 REMARK 3 L TENSOR REMARK 3 L11: 0.2827 L22: 0.4350 REMARK 3 L33: 0.8498 L12: -0.1198 REMARK 3 L13: -0.0876 L23: -0.0620 REMARK 3 S TENSOR REMARK 3 S11: 0.0062 S12: -0.0310 S13: 0.0305 REMARK 3 S21: -0.0229 S22: 0.0050 S23: -0.0212 REMARK 3 S31: -0.0010 S32: 0.0738 S33: -0.0163 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 6N6P COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-NOV-18. REMARK 100 THE DEPOSITION ID IS D_1000238210. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-OCT-17 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) : 0.9537 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 : XDS REMARK 200 DATA SCALING SOFTWARE : AIMLESS 0.5.17 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 48714 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.950 REMARK 200 RESOLUTION RANGE LOW (A) : 39.610 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 23.60 REMARK 200 R MERGE (I) : 0.14100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 16.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.95 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.00 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 19.00 REMARK 200 R MERGE FOR SHELL (I) : 0.46200 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 5.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHENIX PHASER 2.8.0 REMARK 200 STARTING MODEL: 3C8Y REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.48 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.48 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 25% PEG 4000, 0.1 M SODIUM ACETATE (PH REMARK 280 4.6), 0.1 M SODIUM SULFATE, CAPILLARY DIFFUSION. CRYSTALS WERE REMARK 280 TREATED WITH 7 MM SODIUM SULFITE PRIOR FREEZING, BATCH MODE, REMARK 280 TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 42 21 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 -Y+1/2,X+1/2,Z+1/2 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/2 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 Y,X,-Z REMARK 290 8555 -Y,-X,-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 0.000000 -1.000000 0.000000 56.01050 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 56.01050 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 51.88600 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 56.01050 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 56.01050 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 51.88600 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 56.01050 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 56.01050 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 51.88600 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 56.01050 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 56.01050 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 51.88600 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 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: MONOMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 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 911 LIES ON A SPECIAL POSITION. REMARK 375 HOH A1043 LIES ON A SPECIAL POSITION. REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LYS A 574 CA C O CB CG CD CE REMARK 470 LYS A 574 NZ 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 LEU A 33 -67.04 -133.99 REMARK 500 ASN A 44 83.53 -166.88 REMARK 500 ASN A 106 48.09 -150.33 REMARK 500 GLU A 162 17.64 59.12 REMARK 500 SER A 236 -32.76 -137.88 REMARK 500 SER A 236 -30.60 -138.48 REMARK 500 PHE A 266 -160.60 -107.28 REMARK 500 THR A 334 -67.14 -129.26 REMARK 500 PRO A 354 47.27 -88.56 REMARK 500 TYR A 445 67.83 -117.15 REMARK 500 TYR A 555 -57.76 -132.27 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 A1457 DISTANCE = 5.91 ANGSTROMS REMARK 525 HOH A1458 DISTANCE = 6.09 ANGSTROMS REMARK 525 HOH A1459 DISTANCE = 6.15 ANGSTROMS REMARK 525 HOH A1460 DISTANCE = 6.24 ANGSTROMS REMARK 525 HOH A1461 DISTANCE = 6.28 ANGSTROMS REMARK 525 HOH A1462 DISTANCE = 6.30 ANGSTROMS REMARK 525 HOH A1463 DISTANCE = 6.72 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 FES A 606 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 34 SG REMARK 620 2 FES A 606 S1 102.5 REMARK 620 3 FES A 606 S2 126.7 105.5 REMARK 620 4 CYS A 46 SG 103.6 118.2 101.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FES A 606 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 49 SG REMARK 620 2 FES A 606 S1 113.4 REMARK 620 3 FES A 606 S2 111.0 108.2 REMARK 620 4 CYS A 62 SG 101.2 106.2 116.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 605 FE3 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 94 NE2 REMARK 620 2 SF4 A 605 S1 132.2 REMARK 620 3 SF4 A 605 S2 104.3 105.4 REMARK 620 4 SF4 A 605 S4 101.5 105.9 104.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 605 FE4 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 98 SG REMARK 620 2 SF4 A 605 S1 113.9 REMARK 620 3 SF4 A 605 S2 117.0 105.4 REMARK 620 4 SF4 A 605 S3 111.2 103.0 105.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 605 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 101 SG REMARK 620 2 SF4 A 605 S1 116.6 REMARK 620 3 SF4 A 605 S3 106.9 102.9 REMARK 620 4 SF4 A 605 S4 116.5 105.9 106.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 605 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 107 SG REMARK 620 2 SF4 A 605 S2 112.5 REMARK 620 3 SF4 A 605 S3 117.1 105.2 REMARK 620 4 SF4 A 605 S4 109.2 105.0 107.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 604 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 147 SG REMARK 620 2 SF4 A 604 S1 119.2 REMARK 620 3 SF4 A 604 S3 116.7 102.9 REMARK 620 4 SF4 A 604 S4 104.4 105.9 106.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 604 FE3 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 150 SG REMARK 620 2 SF4 A 604 S1 118.3 REMARK 620 3 SF4 A 604 S2 100.3 105.4 REMARK 620 4 SF4 A 604 S4 119.9 105.9 104.9 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 604 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 153 SG REMARK 620 2 SF4 A 604 S2 109.9 REMARK 620 3 SF4 A 604 S3 116.4 105.2 REMARK 620 4 SF4 A 604 S4 112.4 105.0 107.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 603 FE4 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 157 SG REMARK 620 2 SF4 A 603 S1 109.9 REMARK 620 3 SF4 A 603 S2 121.2 105.4 REMARK 620 4 SF4 A 603 S3 110.7 103.0 105.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 603 FE3 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 190 SG REMARK 620 2 SF4 A 603 S1 121.0 REMARK 620 3 SF4 A 603 S2 118.8 105.4 REMARK 620 4 SF4 A 603 S4 98.7 105.9 105.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 603 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 193 SG REMARK 620 2 SF4 A 603 S2 119.9 REMARK 620 3 SF4 A 603 S3 102.2 105.2 REMARK 620 4 SF4 A 603 S4 116.3 105.0 107.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 603 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 196 SG REMARK 620 2 SF4 A 603 S1 118.1 REMARK 620 3 SF4 A 603 S3 112.0 102.9 REMARK 620 4 SF4 A 603 S4 110.3 105.9 106.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 604 FE4 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 200 SG REMARK 620 2 SF4 A 604 S1 111.1 REMARK 620 3 SF4 A 604 S2 112.1 105.4 REMARK 620 4 SF4 A 604 S3 119.0 103.0 105.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 602 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 300 SG REMARK 620 2 SF4 A 602 S1 113.7 REMARK 620 3 SF4 A 602 S3 111.8 102.9 REMARK 620 4 SF4 A 602 S4 114.8 105.9 106.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 602 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 355 SG REMARK 620 2 SF4 A 602 S2 101.0 REMARK 620 3 SF4 A 602 S3 109.8 105.2 REMARK 620 4 SF4 A 602 S4 126.7 105.0 107.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 602 FE4 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 499 SG REMARK 620 2 SF4 A 602 S1 115.1 REMARK 620 3 SF4 A 602 S2 118.9 105.4 REMARK 620 4 SF4 A 602 S3 107.8 103.0 105.1 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 402 A 601 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 503 SG REMARK 620 2 402 A 601 S1 93.4 REMARK 620 3 402 A 601 S2 97.3 85.1 REMARK 620 4 402 A 601 C3 88.9 91.8 173.2 REMARK 620 5 402 A 601 C4 95.5 169.5 88.2 94.0 REMARK 620 6 402 A 601 C5 170.5 91.0 91.5 82.5 81.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 602 FE3 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 503 SG REMARK 620 2 SF4 A 602 S1 122.5 REMARK 620 3 SF4 A 602 S2 112.1 105.4 REMARK 620 4 SF4 A 602 S4 104.5 105.9 104.9 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 402 A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SF4 A 602 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SF4 A 603 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SF4 A 604 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SF4 A 605 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue FES 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 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6N59 RELATED DB: PDB DBREF 6N6P A 1 574 UNP P29166 PHF1_CLOPA 1 574 SEQRES 1 A 574 MET LYS THR ILE ILE ILE ASN GLY VAL GLN PHE ASN THR SEQRES 2 A 574 ASP GLU ASP THR THR ILE LEU LYS PHE ALA ARG ASP ASN SEQRES 3 A 574 ASN ILE ASP ILE SER ALA LEU CYS PHE LEU ASN ASN CYS SEQRES 4 A 574 ASN ASN ASP ILE ASN LYS CYS GLU ILE CYS THR VAL GLU SEQRES 5 A 574 VAL GLU GLY THR GLY LEU VAL THR ALA CYS ASP THR LEU SEQRES 6 A 574 ILE GLU ASP GLY MET ILE ILE ASN THR ASN SER ASP ALA SEQRES 7 A 574 VAL ASN GLU LYS ILE LYS SER ARG ILE SER GLN LEU LEU SEQRES 8 A 574 ASP ILE HIS GLU PHE LYS CYS GLY PRO CYS ASN ARG ARG SEQRES 9 A 574 GLU ASN CYS GLU PHE LEU LYS LEU VAL ILE LYS TYR LYS SEQRES 10 A 574 ALA ARG ALA SER LYS PRO PHE LEU PRO LYS ASP LYS THR SEQRES 11 A 574 GLU TYR VAL ASP GLU ARG SER LYS SER LEU THR VAL ASP SEQRES 12 A 574 ARG THR LYS CYS LEU LEU CYS GLY ARG CYS VAL ASN ALA SEQRES 13 A 574 CYS GLY LYS ASN THR GLU THR TYR ALA MET LYS PHE LEU SEQRES 14 A 574 ASN LYS ASN GLY LYS THR ILE ILE GLY ALA GLU ASP GLU SEQRES 15 A 574 LYS CYS PHE ASP ASP THR ASN CYS LEU LEU CYS GLY GLN SEQRES 16 A 574 CYS ILE ILE ALA CYS PRO VAL ALA ALA LEU SER GLU LYS SEQRES 17 A 574 SER HIS MET ASP ARG VAL LYS ASN ALA LEU ASN ALA PRO SEQRES 18 A 574 GLU LYS HIS VAL ILE VAL ALA MET ALA PRO SER VAL ARG SEQRES 19 A 574 ALA SER ILE GLY GLU LEU PHE ASN MET GLY PHE GLY VAL SEQRES 20 A 574 ASP VAL THR GLY LYS ILE TYR THR ALA LEU ARG GLN LEU SEQRES 21 A 574 GLY PHE ASP LYS ILE PHE ASP ILE ASN PHE GLY ALA ASP SEQRES 22 A 574 MET THR ILE MET GLU GLU ALA THR GLU LEU VAL GLN ARG SEQRES 23 A 574 ILE GLU ASN ASN GLY PRO PHE PRO MET PHE THR SER CYS SEQRES 24 A 574 CYS PRO GLY TRP VAL ARG GLN ALA GLU ASN TYR TYR PRO SEQRES 25 A 574 GLU LEU LEU ASN ASN LEU SER SER ALA LYS SER PRO GLN SEQRES 26 A 574 GLN ILE PHE GLY THR ALA SER LYS THR TYR TYR PRO SER SEQRES 27 A 574 ILE SER GLY LEU ASP PRO LYS ASN VAL PHE THR VAL THR SEQRES 28 A 574 VAL MET PRO CYS THR SER LYS LYS PHE GLU ALA ASP ARG SEQRES 29 A 574 PRO GLN MET GLU LYS ASP GLY LEU ARG ASP ILE ASP ALA SEQRES 30 A 574 VAL ILE THR THR ARG GLU LEU ALA LYS MET ILE LYS ASP SEQRES 31 A 574 ALA LYS ILE PRO PHE ALA LYS LEU GLU ASP SER GLU ALA SEQRES 32 A 574 ASP PRO ALA MET GLY GLU TYR SER GLY ALA GLY ALA ILE SEQRES 33 A 574 PHE GLY ALA THR GLY GLY VAL MET GLU ALA ALA LEU ARG SEQRES 34 A 574 SER ALA LYS ASP PHE ALA GLU ASN ALA GLU LEU GLU ASP SEQRES 35 A 574 ILE GLU TYR LYS GLN VAL ARG GLY LEU ASN GLY ILE LYS SEQRES 36 A 574 GLU ALA GLU VAL GLU ILE ASN ASN ASN LYS TYR ASN VAL SEQRES 37 A 574 ALA VAL ILE ASN GLY ALA SER ASN LEU PHE LYS PHE MET SEQRES 38 A 574 LYS SER GLY MET ILE ASN GLU LYS GLN TYR HIS PHE ILE SEQRES 39 A 574 GLU VAL MET ALA CYS HIS GLY GLY CYS VAL ASN GLY GLY SEQRES 40 A 574 GLY GLN PRO HIS VAL ASN PRO LYS ASP LEU GLU LYS VAL SEQRES 41 A 574 ASP ILE LYS LYS VAL ARG ALA SER VAL LEU TYR ASN GLN SEQRES 42 A 574 ASP GLU HIS LEU SER LYS ARG LYS SER HIS GLU ASN THR SEQRES 43 A 574 ALA LEU VAL LYS MET TYR GLN ASN TYR PHE GLY LYS PRO SEQRES 44 A 574 GLY GLU GLY ARG ALA HIS GLU ILE LEU HIS PHE LYS TYR SEQRES 45 A 574 LYS LYS HET 402 A 601 17 HET SF4 A 602 8 HET SF4 A 603 8 HET SF4 A 604 8 HET SF4 A 605 8 HET FES A 606 4 HET GOL A 607 6 HET GOL A 608 6 HETNAM 402 DICARBONYL[BIS(CYANIDE-KAPPAC)]-MU- HETNAM 2 402 (IMINODIMETHANETHIOLATATO-1KAPPAS:2KAPPAS)-MU- HETNAM 3 402 (OXOMETHYLIDENE)DIIRON(2+) HETNAM SF4 IRON/SULFUR CLUSTER HETNAM FES FE2/S2 (INORGANIC) CLUSTER HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 402 C7 H5 FE2 N3 O3 S2 2+ FORMUL 3 SF4 4(FE4 S4) FORMUL 7 FES FE2 S2 FORMUL 8 GOL 2(C3 H8 O3) FORMUL 10 HOH *763(H2 O) HELIX 1 AA1 THR A 18 ASN A 26 1 9 HELIX 2 AA2 CYS A 62 THR A 64 5 3 HELIX 3 AA3 SER A 76 ASP A 92 1 17 HELIX 4 AA4 CYS A 107 LYS A 117 1 11 HELIX 5 AA5 GLY A 151 GLU A 162 1 12 HELIX 6 AA6 ALA A 179 LYS A 183 5 5 HELIX 7 AA7 CYS A 184 THR A 188 5 5 HELIX 8 AA8 GLY A 194 CYS A 200 1 7 HELIX 9 AA9 HIS A 210 ALA A 220 1 11 HELIX 10 AB1 PRO A 231 ASN A 242 5 12 HELIX 11 AB2 VAL A 249 LEU A 260 1 12 HELIX 12 AB3 ILE A 268 ASN A 290 1 23 HELIX 13 AB4 CYS A 300 TYR A 311 1 12 HELIX 14 AB5 PRO A 312 LEU A 318 5 7 HELIX 15 AB6 SER A 323 LYS A 333 1 11 HELIX 16 AB7 THR A 334 ILE A 339 1 6 HELIX 17 AB8 ASP A 343 LYS A 345 5 3 HELIX 18 AB9 THR A 356 ASP A 363 1 8 HELIX 19 AC1 THR A 381 ALA A 391 1 11 HELIX 20 AC2 PRO A 394 LEU A 398 5 5 HELIX 21 AC3 ASP A 404 GLY A 408 5 5 HELIX 22 AC4 SER A 411 ILE A 416 1 6 HELIX 23 AC5 PHE A 417 ALA A 419 5 3 HELIX 24 AC6 GLY A 421 ASN A 437 1 17 HELIX 25 AC7 TYR A 445 ARG A 449 5 5 HELIX 26 AC8 GLY A 473 SER A 483 1 11 HELIX 27 AC9 GLY A 484 LYS A 489 1 6 HELIX 28 AD1 GLY A 502 GLY A 506 5 5 HELIX 29 AD2 ASN A 513 VAL A 520 1 8 HELIX 30 AD3 ASP A 521 LEU A 537 1 17 HELIX 31 AD4 LYS A 541 GLU A 544 5 4 HELIX 32 AD5 ASN A 545 TYR A 555 1 11 HELIX 33 AD6 GLU A 561 LEU A 568 1 8 SHEET 1 AA1 5 VAL A 9 THR A 13 0 SHEET 2 AA1 5 LYS A 2 ILE A 6 -1 N ILE A 4 O PHE A 11 SHEET 3 AA1 5 ILE A 71 ASN A 73 1 O ILE A 72 N ILE A 5 SHEET 4 AA1 5 THR A 50 VAL A 53 -1 N GLU A 52 O ASN A 73 SHEET 5 AA1 5 GLY A 57 THR A 60 -1 O GLY A 57 N VAL A 53 SHEET 1 AA2 3 VAL A 133 ASP A 134 0 SHEET 2 AA2 3 LEU A 140 ASP A 143 -1 O VAL A 142 N ASP A 134 SHEET 3 AA2 3 LEU A 205 GLU A 207 -1 O SER A 206 N THR A 141 SHEET 1 AA3 2 LYS A 167 LYS A 171 0 SHEET 2 AA3 2 LYS A 174 GLY A 178 -1 O ILE A 176 N LEU A 169 SHEET 1 AA4 4 LYS A 264 ASP A 267 0 SHEET 2 AA4 4 HIS A 224 MET A 229 1 N VAL A 227 O PHE A 266 SHEET 3 AA4 4 VAL A 347 MET A 353 1 O VAL A 350 N ILE A 226 SHEET 4 AA4 4 ALA A 377 THR A 380 1 O ILE A 379 N THR A 351 SHEET 1 AA5 4 MET A 295 PHE A 296 0 SHEET 2 AA5 4 PHE A 493 MET A 497 1 O ILE A 494 N MET A 295 SHEET 3 AA5 4 ASN A 464 ASN A 472 1 N ILE A 471 O GLU A 495 SHEET 4 AA5 4 ILE A 454 ILE A 461 -1 N LYS A 455 O VAL A 470 SHEET 1 AA6 2 GLU A 368 LYS A 369 0 SHEET 2 AA6 2 LEU A 372 ARG A 373 -1 O LEU A 372 N LYS A 369 LINK SG CYS A 34 FE2 FES A 606 1555 1555 2.49 LINK SG CYS A 46 FE2 FES A 606 1555 1555 2.52 LINK SG CYS A 49 FE1 FES A 606 1555 1555 2.48 LINK SG CYS A 62 FE1 FES A 606 1555 1555 2.53 LINK NE2 HIS A 94 FE3 SF4 A 605 1555 1555 2.28 LINK SG CYS A 98 FE4 SF4 A 605 1555 1555 2.49 LINK SG CYS A 101 FE2 SF4 A 605 1555 1555 2.47 LINK SG CYS A 107 FE1 SF4 A 605 1555 1555 2.47 LINK SG CYS A 147 FE2 SF4 A 604 1555 1555 2.51 LINK SG CYS A 150 FE3 SF4 A 604 1555 1555 2.49 LINK SG CYS A 153 FE1 SF4 A 604 1555 1555 2.45 LINK SG CYS A 157 FE4 SF4 A 603 1555 1555 2.43 LINK SG CYS A 190 FE3 SF4 A 603 1555 1555 2.47 LINK SG CYS A 193 FE1 SF4 A 603 1555 1555 2.58 LINK SG CYS A 196 FE2 SF4 A 603 1555 1555 2.52 LINK SG CYS A 200 FE4 SF4 A 604 1555 1555 2.46 LINK SG CYS A 300 FE2 SF4 A 602 1555 1555 2.48 LINK SG CYS A 355 FE1 SF4 A 602 1555 1555 2.33 LINK SG CYS A 499 FE4 SF4 A 602 1555 1555 2.49 LINK SG CYS A 503 FE1 402 A 601 1555 1555 2.50 LINK SG CYS A 503 FE3 SF4 A 602 1555 1555 2.17 CISPEP 1 GLY A 291 PRO A 292 0 -0.20 CISPEP 2 PHE A 293 PRO A 294 0 -3.89 SITE 1 AC1 16 ALA A 230 PRO A 231 SER A 232 ILE A 268 SITE 2 AC1 16 ALA A 272 CYS A 299 PRO A 324 GLN A 325 SITE 3 AC1 16 MET A 353 PRO A 354 CYS A 355 LYS A 358 SITE 4 AC1 16 PHE A 417 MET A 497 CYS A 503 SF4 A 602 SITE 1 AC2 10 CYS A 300 PRO A 301 PRO A 354 CYS A 355 SITE 2 AC2 10 SER A 357 ALA A 498 CYS A 499 CYS A 503 SITE 3 AC2 10 GLY A 506 402 A 601 SITE 1 AC3 9 LEU A 140 CYS A 157 MET A 166 CYS A 190 SITE 2 AC3 9 LEU A 191 LEU A 192 CYS A 193 GLY A 194 SITE 3 AC3 9 CYS A 196 SITE 1 AC4 11 CYS A 147 LEU A 148 LEU A 149 CYS A 150 SITE 2 AC4 11 GLY A 151 CYS A 153 ILE A 177 CYS A 200 SITE 3 AC4 11 VAL A 202 ALA A 204 LEU A 205 SITE 1 AC5 11 HIS A 94 GLU A 95 PHE A 96 LYS A 97 SITE 2 AC5 11 CYS A 98 CYS A 101 ARG A 104 CYS A 107 SITE 3 AC5 11 LYS A 146 VAL A 202 ALA A 203 SITE 1 AC6 9 ALA A 32 LEU A 33 CYS A 34 PHE A 35 SITE 2 AC6 9 LYS A 45 CYS A 46 GLU A 47 CYS A 49 SITE 3 AC6 9 CYS A 62 SITE 1 AC7 10 LYS A 223 LYS A 333 LYS A 345 VAL A 347 SITE 2 AC7 10 PHE A 348 LEU A 372 ARG A 373 ASP A 376 SITE 3 AC7 10 HOH A 805 HOH A1051 SITE 1 AC8 8 ARG A 104 GLU A 105 ASN A 106 CYS A 107 SITE 2 AC8 8 LEU A 110 LYS A 111 HOH A 817 HOH A 983 CRYST1 112.021 112.021 103.772 90.00 90.00 90.00 P 42 21 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 0.008927 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008927 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009637 0.00000