HEADER BIOSYNTHETIC PROTEIN 18-DEC-17 6BXN TITLE CRYSTAL STRUCTURE OF CANDIDATUS METHANOPEREDENS NITROREDUCENS DPH2 TITLE 2 WITH 4FE-4S CLUSTER AND SAM COMPND MOL_ID: 1; COMPND 2 MOLECULE: DIPHTHAMIDE BIOSYNTHESIS ENZYME DPH2; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CANDIDATUS METHANOPEREDENS NITROREDUCENS; SOURCE 3 ORGANISM_TAXID: 1392998; SOURCE 4 GENE: ANME2D_01646; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS DIPHTHAMIDE BIOSYNTHESIS, RADICAL SAM ENZYME, BIOSYNTHETIC PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR M.K.FENWICK,A.T.TORELLI,Y.ZHANG,M.DONG,V.KATHIRESAN,J.D.CARANTOA, AUTHOR 2 B.DZIKOVSKI,K.M.LANCASTER,J.H.FREED,B.M.HOFFMAN,H.LIN,S.E.EALICK REVDAT 2 04-OCT-23 6BXN 1 LINK REVDAT 1 11-APR-18 6BXN 0 JRNL AUTH M.DONG,V.KATHIRESAN,M.K.FENWICK,A.T.TORELLI,Y.ZHANG, JRNL AUTH 2 J.D.CARANTO,B.DZIKOVSKI,A.SHARMA,K.M.LANCASTER,J.H.FREED, JRNL AUTH 3 S.E.EALICK,B.M.HOFFMAN,H.LIN JRNL TITL ORGANOMETALLIC AND RADICAL INTERMEDIATES REVEAL MECHANISM OF JRNL TITL 2 DIPHTHAMIDE BIOSYNTHESIS. JRNL REF SCIENCE V. 359 1247 2018 JRNL REFN ESSN 1095-9203 JRNL PMID 29590073 JRNL DOI 10.1126/SCIENCE.AAO6595 REMARK 2 REMARK 2 RESOLUTION. 2.08 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.12_2829: ???) 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) : 2.08 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 44.49 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 3 NUMBER OF REFLECTIONS : 35217 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.208 REMARK 3 R VALUE (WORKING SET) : 0.206 REMARK 3 FREE R VALUE : 0.260 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.770 REMARK 3 FREE R VALUE TEST SET COUNT : 1679 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 44.4979 - 4.7569 0.97 2974 145 0.2013 0.2334 REMARK 3 2 4.7569 - 3.7763 0.99 2884 138 0.1749 0.2267 REMARK 3 3 3.7763 - 3.2991 0.98 2784 144 0.1846 0.2314 REMARK 3 4 3.2991 - 2.9976 0.99 2795 162 0.2103 0.2685 REMARK 3 5 2.9976 - 2.7828 0.99 2792 127 0.2184 0.2839 REMARK 3 6 2.7828 - 2.6187 1.00 2776 133 0.2182 0.2834 REMARK 3 7 2.6187 - 2.4876 0.98 2785 133 0.2218 0.2973 REMARK 3 8 2.4876 - 2.3793 0.99 2761 146 0.2158 0.2637 REMARK 3 9 2.3793 - 2.2877 1.00 2783 130 0.2155 0.2634 REMARK 3 10 2.2877 - 2.2088 1.00 2745 149 0.2433 0.3307 REMARK 3 11 2.2088 - 2.1397 0.99 2762 132 0.2515 0.3251 REMARK 3 12 2.1397 - 2.0785 0.98 2697 140 0.2820 0.3652 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) : 0.280 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 28.280 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 31.85 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 : 0.008 4817 REMARK 3 ANGLE : 0.926 6556 REMARK 3 CHIRALITY : 0.058 760 REMARK 3 PLANARITY : 0.006 836 REMARK 3 DIHEDRAL : 16.010 2923 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): 11.8830 16.5934 33.7036 REMARK 3 T TENSOR REMARK 3 T11: 0.1415 T22: 0.2345 REMARK 3 T33: 0.2503 T12: -0.0132 REMARK 3 T13: -0.0110 T23: 0.0539 REMARK 3 L TENSOR REMARK 3 L11: 0.5564 L22: 1.3318 REMARK 3 L33: 0.8271 L12: 0.1030 REMARK 3 L13: 0.0430 L23: 0.0504 REMARK 3 S TENSOR REMARK 3 S11: 0.0657 S12: -0.0078 S13: -0.0280 REMARK 3 S21: 0.1187 S22: -0.0092 S23: -0.1063 REMARK 3 S31: 0.0326 S32: -0.1265 S33: -0.0560 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 6BXN COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-JAN-18. REMARK 100 THE DEPOSITION ID IS D_1000231708. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-DEC-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 : 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) : 0.9792 REMARK 200 MONOCHROMATOR : NULL 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 : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 35318 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.080 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 (%) : 99.0 REMARK 200 DATA REDUNDANCY : 4.500 REMARK 200 R MERGE (I) : 0.09300 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 6.3000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.08 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.15 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.7 REMARK 200 DATA REDUNDANCY IN SHELL : 4.40 REMARK 200 R MERGE FOR SHELL (I) : 0.57900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> 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 REMARK 200 STARTING MODEL: 3LZC REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 37.10 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.96 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 65 MM HEPES, PH 6.5-7.0, AND 18-25% REMARK 280 (W/V) POLYETHYLENE GLYCOL (PEG) 1000, VAPOR DIFFUSION, HANGING REMARK 280 DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 15.73800 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 71.23100 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 63.59500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 71.23100 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 15.73800 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 63.59500 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: 3880 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 25350 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -64.0 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 GLY A -3 REMARK 465 SER A -2 REMARK 465 HIS A -1 REMARK 465 MET A 0 REMARK 465 SER A 1 REMARK 465 GLU A 2 REMARK 465 GLN A 3 REMARK 465 PHE A 4 REMARK 465 ASP A 5 REMARK 465 PHE A 6 REMARK 465 LYS A 104 REMARK 465 THR A 105 REMARK 465 ALA A 106 REMARK 465 LEU A 107 REMARK 465 ASN A 108 REMARK 465 ILE A 134 REMARK 465 LYS A 135 REMARK 465 GLU A 136 REMARK 465 TYR A 137 REMARK 465 GLY A 138 REMARK 465 LYS A 139 REMARK 465 GLU A 140 REMARK 465 ARG A 149 REMARK 465 ALA A 150 REMARK 465 ASP A 167 REMARK 465 CYS A 168 REMARK 465 PHE A 198 REMARK 465 LEU A 199 REMARK 465 ASN A 200 REMARK 465 GLN A 201 REMARK 465 ALA A 202 REMARK 465 ILE A 322 REMARK 465 GLN A 323 REMARK 465 GLY B -3 REMARK 465 SER B -2 REMARK 465 HIS B -1 REMARK 465 MET B 0 REMARK 465 SER B 1 REMARK 465 GLU B 2 REMARK 465 GLN B 3 REMARK 465 PHE B 4 REMARK 465 ASP B 5 REMARK 465 PHE B 6 REMARK 465 GLN B 323 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 ARG A 33 NE CZ NH1 NH2 REMARK 470 GLU A 84 CG CD OE1 OE2 REMARK 470 ARG A 94 CG CD NE CZ NH1 NH2 REMARK 470 SER A 95 OG REMARK 470 ASN A 96 CG OD1 ND2 REMARK 470 ILE A 97 CG1 CG2 CD1 REMARK 470 LEU A 110 CG CD1 CD2 REMARK 470 LYS A 111 CG CD CE NZ REMARK 470 ASN A 113 CG OD1 ND2 REMARK 470 ARG A 114 CG CD NE CZ NH1 NH2 REMARK 470 ILE A 118 CG1 CG2 CD1 REMARK 470 GLN A 122 CG CD OE1 NE2 REMARK 470 VAL A 124 CG1 CG2 REMARK 470 GLU A 128 CG CD OE1 OE2 REMARK 470 LYS A 132 CG CD CE NZ REMARK 470 VAL A 142 CG1 CG2 REMARK 470 LYS A 145 CG CD CE NZ REMARK 470 ILE A 151 CG1 CG2 CD1 REMARK 470 GLU A 169 CG CD OE1 OE2 REMARK 470 ILE A 178 CG1 CG2 CD1 REMARK 470 LYS A 189 CG CD CE NZ REMARK 470 ASP A 196 CG OD1 OD2 REMARK 470 VAL A 203 CG1 CG2 REMARK 470 VAL A 205 CG1 CG2 REMARK 470 SER A 206 OG REMARK 470 ARG A 209 CG CD NE CZ NH1 NH2 REMARK 470 ARG A 212 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 213 CG CD CE NZ REMARK 470 ARG A 312 CG CD NE CZ NH1 NH2 REMARK 470 GLU A 314 CG CD OE1 OE2 REMARK 470 ASP B 7 CG OD1 OD2 REMARK 470 ARG B 10 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 21 CG CD CE NZ REMARK 470 ARG B 33 CG CD NE CZ NH1 NH2 REMARK 470 GLU B 84 CG CD OE1 OE2 REMARK 470 ARG B 94 CG CD NE CZ NH1 NH2 REMARK 470 ASN B 96 CG OD1 ND2 REMARK 470 ILE B 97 CG1 CG2 CD1 REMARK 470 LYS B 111 CG CD CE NZ REMARK 470 ILE B 178 CG1 CG2 CD1 REMARK 470 LEU B 199 CG CD1 CD2 REMARK 470 GLU B 208 CG CD OE1 OE2 REMARK 470 ARG B 209 CG CD NE CZ NH1 NH2 REMARK 470 LYS B 220 CG CD CE NZ REMARK 470 ARG B 312 CG CD NE CZ NH1 NH2 REMARK 470 TRP B 313 CG CD1 CD2 NE1 CE2 CE3 CZ2 REMARK 470 TRP B 313 CZ3 CH2 REMARK 470 GLU B 314 CG CD OE1 OE2 REMARK 470 ILE B 322 CG1 CG2 CD1 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 ASN A 19 48.45 39.76 REMARK 500 ALA A 93 102.24 58.53 REMARK 500 LYS A 111 -34.57 -133.25 REMARK 500 ASN A 160 117.91 -161.21 REMARK 500 ASP A 263 -76.93 -92.98 REMARK 500 ALA A 282 -149.54 -82.97 REMARK 500 ASN A 315 35.78 -87.28 REMARK 500 ALA B 93 79.19 55.18 REMARK 500 ASP B 147 -168.54 -161.79 REMARK 500 ASP B 263 -74.96 -99.73 REMARK 500 LYS B 274 31.05 -88.36 REMARK 500 ALA B 282 -155.24 -81.36 REMARK 500 ASN B 315 48.01 -74.07 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 B1127 DISTANCE = 5.85 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 900 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 61 SG REMARK 620 2 SF4 A 900 S2 114.5 REMARK 620 3 SF4 A 900 S3 119.4 105.8 REMARK 620 4 SF4 A 900 S4 111.0 101.7 102.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 900 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 159 SG REMARK 620 2 SF4 A 900 S1 119.5 REMARK 620 3 SF4 A 900 S3 109.2 103.5 REMARK 620 4 SF4 A 900 S4 119.5 101.2 101.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 900 FE3 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 283 SG REMARK 620 2 SF4 A 900 S1 118.7 REMARK 620 3 SF4 A 900 S2 111.9 102.2 REMARK 620 4 SF4 A 900 S4 114.0 106.3 101.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 A 900 FE4 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SAM A 901 N REMARK 620 2 SF4 A 900 S1 138.7 REMARK 620 3 SF4 A 900 S2 85.0 99.1 REMARK 620 4 SF4 A 900 S3 112.9 105.7 104.9 REMARK 620 5 SAM A 901 O 67.6 92.0 148.3 100.4 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 B 900 FE1 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 61 SG REMARK 620 2 SF4 B 900 S2 113.5 REMARK 620 3 SF4 B 900 S3 118.6 107.3 REMARK 620 4 SF4 B 900 S4 111.2 102.4 102.0 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 B 900 FE2 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 159 SG REMARK 620 2 SF4 B 900 S1 119.3 REMARK 620 3 SF4 B 900 S3 109.0 106.1 REMARK 620 4 SF4 B 900 S4 118.4 100.7 101.4 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 B 900 FE3 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 283 SG REMARK 620 2 SF4 B 900 S1 117.0 REMARK 620 3 SF4 B 900 S2 112.7 103.5 REMARK 620 4 SF4 B 900 S4 114.9 105.4 101.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SF4 B 900 FE4 REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SAM B 901 O REMARK 620 2 SF4 B 900 S1 90.4 REMARK 620 3 SF4 B 900 S2 148.1 98.2 REMARK 620 4 SF4 B 900 S3 102.3 107.7 104.2 REMARK 620 5 SAM B 901 N 64.9 148.4 94.1 97.2 REMARK 620 N 1 2 3 4 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 900 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SAM A 901 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SF4 B 900 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue SAM B 901 DBREF1 6BXN A 2 323 UNP A0A062UZ78_9EURY DBREF2 6BXN A A0A062UZ78 2 323 DBREF1 6BXN B 2 323 UNP A0A062UZ78_9EURY DBREF2 6BXN B A0A062UZ78 2 323 SEQADV 6BXN GLY A -3 UNP A0A062UZ7 EXPRESSION TAG SEQADV 6BXN SER A -2 UNP A0A062UZ7 EXPRESSION TAG SEQADV 6BXN HIS A -1 UNP A0A062UZ7 EXPRESSION TAG SEQADV 6BXN MET A 0 UNP A0A062UZ7 EXPRESSION TAG SEQADV 6BXN SER A 1 UNP A0A062UZ7 EXPRESSION TAG SEQADV 6BXN GLY B -3 UNP A0A062UZ7 EXPRESSION TAG SEQADV 6BXN SER B -2 UNP A0A062UZ7 EXPRESSION TAG SEQADV 6BXN HIS B -1 UNP A0A062UZ7 EXPRESSION TAG SEQADV 6BXN MET B 0 UNP A0A062UZ7 EXPRESSION TAG SEQADV 6BXN SER B 1 UNP A0A062UZ7 EXPRESSION TAG SEQRES 1 A 327 GLY SER HIS MET SER GLU GLN PHE ASP PHE ASP LEU GLU SEQRES 2 A 327 ARG ILE LEU LYS THR ILE LYS ASP LYS ASN CYS LYS LYS SEQRES 3 A 327 VAL GLY LEU GLN PHE PRO GLU GLY LEU LYS ARG GLN ALA SEQRES 4 A 327 ILE ASN ILE ALA ARG GLU ILE GLU GLU LYS THR ARG ALA SEQRES 5 A 327 ASN VAL ILE ILE SER GLY ASN PRO CYS PHE GLY ALA CYS SEQRES 6 A 327 ASP ILE ASP THR ILE LEU ALA GLY SER VAL ASP ILE LEU SEQRES 7 A 327 PHE HIS PHE GLY HIS ALA GLY MET GLY GLU TYR GLU ASN SEQRES 8 A 327 VAL VAL PHE ILE GLU ALA ARG SER ASN ILE ASP ILE ILE SEQRES 9 A 327 PRO ALA VAL LYS THR ALA LEU ASN LEU LEU LYS ALA ASN SEQRES 10 A 327 ARG ILE GLY LEU ILE THR THR VAL GLN HIS VAL HIS LYS SEQRES 11 A 327 LEU GLU GLU ALA CYS LYS VAL ILE LYS GLU TYR GLY LYS SEQRES 12 A 327 GLU CYS VAL ILE GLY LYS GLY ASP PRO ARG ALA ILE TYR SEQRES 13 A 327 PRO GLY GLN VAL LEU GLY CYS ASN PHE THR ALA ALA ARG SEQRES 14 A 327 VAL ASP CYS GLU GLU PHE ILE TYR ILE GLY SER GLY ILE SEQRES 15 A 327 PHE HIS PRO LEU GLY VAL ALA ILE ALA THR LYS LYS ARG SEQRES 16 A 327 VAL ILE ALA ALA ASP PRO PHE LEU ASN GLN ALA VAL GLU SEQRES 17 A 327 VAL SER PRO GLU ARG PHE LEU ARG LYS ARG GLY GLY TYR SEQRES 18 A 327 ILE ALA LYS ALA THR GLY ALA LYS ILE PHE GLY ILE ILE SEQRES 19 A 327 VAL SER THR LYS SER GLY GLN TYR ARG MET LYS LEU ALA SEQRES 20 A 327 GLN LYS LEU LYS GLU ILE ALA ASP LYS HIS GLY LYS ILE SEQRES 21 A 327 GLY TYR ILE ILE LEU MET ASP LEU VAL THR PRO GLU GLN SEQRES 22 A 327 LEU LEU ALA PHE LYS ALA ASP ALA TYR VAL ASN THR ALA SEQRES 23 A 327 CYS PRO ARG ILE THR ILE ASP ASP ALA GLU ARG PHE HIS SEQRES 24 A 327 ALA PRO VAL LEU THR PRO GLN GLU PHE GLU ILE VAL LEU SEQRES 25 A 327 GLY GLU ARG ARG TRP GLU ASN MET GLU MET ASP GLU MET SEQRES 26 A 327 ILE GLN SEQRES 1 B 327 GLY SER HIS MET SER GLU GLN PHE ASP PHE ASP LEU GLU SEQRES 2 B 327 ARG ILE LEU LYS THR ILE LYS ASP LYS ASN CYS LYS LYS SEQRES 3 B 327 VAL GLY LEU GLN PHE PRO GLU GLY LEU LYS ARG GLN ALA SEQRES 4 B 327 ILE ASN ILE ALA ARG GLU ILE GLU GLU LYS THR ARG ALA SEQRES 5 B 327 ASN VAL ILE ILE SER GLY ASN PRO CYS PHE GLY ALA CYS SEQRES 6 B 327 ASP ILE ASP THR ILE LEU ALA GLY SER VAL ASP ILE LEU SEQRES 7 B 327 PHE HIS PHE GLY HIS ALA GLY MET GLY GLU TYR GLU ASN SEQRES 8 B 327 VAL VAL PHE ILE GLU ALA ARG SER ASN ILE ASP ILE ILE SEQRES 9 B 327 PRO ALA VAL LYS THR ALA LEU ASN LEU LEU LYS ALA ASN SEQRES 10 B 327 ARG ILE GLY LEU ILE THR THR VAL GLN HIS VAL HIS LYS SEQRES 11 B 327 LEU GLU GLU ALA CYS LYS VAL ILE LYS GLU TYR GLY LYS SEQRES 12 B 327 GLU CYS VAL ILE GLY LYS GLY ASP PRO ARG ALA ILE TYR SEQRES 13 B 327 PRO GLY GLN VAL LEU GLY CYS ASN PHE THR ALA ALA ARG SEQRES 14 B 327 VAL ASP CYS GLU GLU PHE ILE TYR ILE GLY SER GLY ILE SEQRES 15 B 327 PHE HIS PRO LEU GLY VAL ALA ILE ALA THR LYS LYS ARG SEQRES 16 B 327 VAL ILE ALA ALA ASP PRO PHE LEU ASN GLN ALA VAL GLU SEQRES 17 B 327 VAL SER PRO GLU ARG PHE LEU ARG LYS ARG GLY GLY TYR SEQRES 18 B 327 ILE ALA LYS ALA THR GLY ALA LYS ILE PHE GLY ILE ILE SEQRES 19 B 327 VAL SER THR LYS SER GLY GLN TYR ARG MET LYS LEU ALA SEQRES 20 B 327 GLN LYS LEU LYS GLU ILE ALA ASP LYS HIS GLY LYS ILE SEQRES 21 B 327 GLY TYR ILE ILE LEU MET ASP LEU VAL THR PRO GLU GLN SEQRES 22 B 327 LEU LEU ALA PHE LYS ALA ASP ALA TYR VAL ASN THR ALA SEQRES 23 B 327 CYS PRO ARG ILE THR ILE ASP ASP ALA GLU ARG PHE HIS SEQRES 24 B 327 ALA PRO VAL LEU THR PRO GLN GLU PHE GLU ILE VAL LEU SEQRES 25 B 327 GLY GLU ARG ARG TRP GLU ASN MET GLU MET ASP GLU MET SEQRES 26 B 327 ILE GLN HET SF4 A 900 8 HET SAM A 901 27 HET SF4 B 900 8 HET SAM B 901 27 HETNAM SF4 IRON/SULFUR CLUSTER HETNAM SAM S-ADENOSYLMETHIONINE FORMUL 3 SF4 2(FE4 S4) FORMUL 4 SAM 2(C15 H22 N6 O5 S) FORMUL 7 HOH *219(H2 O) HELIX 1 AA1 ASP A 7 LYS A 18 1 12 HELIX 2 AA2 PRO A 28 ARG A 33 5 6 HELIX 3 AA3 GLN A 34 THR A 46 1 13 HELIX 4 AA4 ASP A 64 GLY A 69 1 6 HELIX 5 AA5 VAL A 121 HIS A 125 5 5 HELIX 6 AA6 LYS A 126 VAL A 133 1 8 HELIX 7 AA7 PHE A 161 ARG A 165 5 5 HELIX 8 AA8 ILE A 178 LYS A 189 1 12 HELIX 9 AA9 PRO A 207 THR A 222 1 16 HELIX 10 AB1 ARG A 239 HIS A 253 1 15 HELIX 11 AB2 THR A 266 ALA A 272 1 7 HELIX 12 AB3 CYS A 283 ASP A 290 1 8 HELIX 13 AB4 THR A 300 LEU A 308 1 9 HELIX 14 AB5 ARG A 312 MET A 316 5 5 HELIX 15 AB6 LEU B 8 LYS B 18 1 11 HELIX 16 AB7 PRO B 28 ARG B 33 5 6 HELIX 17 AB8 GLN B 34 THR B 46 1 13 HELIX 18 AB9 ASP B 64 GLY B 69 1 6 HELIX 19 AC1 ILE B 99 LEU B 110 1 12 HELIX 20 AC2 VAL B 121 HIS B 125 5 5 HELIX 21 AC3 LYS B 126 TYR B 137 1 12 HELIX 22 AC4 PHE B 161 ARG B 165 5 5 HELIX 23 AC5 ILE B 178 LYS B 189 1 12 HELIX 24 AC6 PRO B 207 THR B 222 1 16 HELIX 25 AC7 ARG B 239 HIS B 253 1 15 HELIX 26 AC8 THR B 266 ALA B 272 1 7 HELIX 27 AC9 CYS B 283 ASP B 290 1 8 HELIX 28 AD1 ALA B 291 PHE B 294 5 4 HELIX 29 AD2 THR B 300 GLY B 309 1 10 SHEET 1 AA1 8 VAL A 88 ILE A 91 0 SHEET 2 AA1 8 ILE A 73 PHE A 77 1 N HIS A 76 O VAL A 89 SHEET 3 AA1 8 LYS A 22 GLN A 26 1 N GLY A 24 O PHE A 75 SHEET 4 AA1 8 ASN A 49 SER A 53 1 O SER A 53 N LEU A 25 SHEET 5 AA1 8 ILE B 256 MET B 262 1 O LEU B 261 N ILE A 52 SHEET 6 AA1 8 ILE B 226 SER B 232 1 N ILE B 229 O TYR B 258 SHEET 7 AA1 8 ALA B 277 ASN B 280 1 O VAL B 279 N ILE B 230 SHEET 8 AA1 8 VAL B 298 LEU B 299 1 O LEU B 299 N ASN B 280 SHEET 1 AA2 4 VAL A 142 ILE A 143 0 SHEET 2 AA2 4 ILE A 115 THR A 119 1 N ILE A 115 O VAL A 142 SHEET 3 AA2 4 GLU A 170 ILE A 174 1 O ILE A 172 N GLY A 116 SHEET 4 AA2 4 VAL A 192 ALA A 195 1 O ILE A 193 N TYR A 173 SHEET 1 AA3 8 VAL A 298 LEU A 299 0 SHEET 2 AA3 8 ALA A 277 ASN A 280 1 N ASN A 280 O LEU A 299 SHEET 3 AA3 8 ILE A 226 SER A 232 1 N ILE A 230 O VAL A 279 SHEET 4 AA3 8 ILE A 256 MET A 262 1 O TYR A 258 N ILE A 229 SHEET 5 AA3 8 ASN B 49 SER B 53 1 O ILE B 52 N ILE A 259 SHEET 6 AA3 8 LYS B 22 GLN B 26 1 N LEU B 25 O SER B 53 SHEET 7 AA3 8 ILE B 73 GLY B 78 1 O PHE B 75 N GLY B 24 SHEET 8 AA3 8 VAL B 88 GLU B 92 1 O VAL B 89 N HIS B 76 SHEET 1 AA4 5 GLU B 140 ILE B 143 0 SHEET 2 AA4 5 ARG B 114 THR B 119 1 N ILE B 115 O GLU B 140 SHEET 3 AA4 5 GLU B 170 ILE B 174 1 O GLU B 170 N GLY B 116 SHEET 4 AA4 5 ARG B 191 ASP B 196 1 O ALA B 195 N TYR B 173 SHEET 5 AA4 5 GLN B 201 GLU B 204 -1 O VAL B 203 N ALA B 194 LINK SG CYS A 61 FE1 SF4 A 900 1555 1555 2.23 LINK SG CYS A 159 FE2 SF4 A 900 1555 1555 2.26 LINK SG CYS A 283 FE3 SF4 A 900 1555 1555 2.26 LINK FE4 SF4 A 900 N SAM A 901 1555 1555 2.30 LINK FE4 SF4 A 900 O SAM A 901 1555 1555 2.66 LINK SG CYS B 61 FE1 SF4 B 900 1555 1555 2.27 LINK SG CYS B 159 FE2 SF4 B 900 1555 1555 2.26 LINK SG CYS B 283 FE3 SF4 B 900 1555 1555 2.24 LINK FE4 SF4 B 900 O SAM B 901 1555 1555 2.78 LINK FE4 SF4 B 900 N SAM B 901 1555 1555 2.30 SITE 1 AC1 6 PHE A 58 CYS A 61 GLY A 158 CYS A 159 SITE 2 AC1 6 CYS A 283 SAM A 901 SITE 1 AC2 15 PHE A 58 LEU A 157 GLY A 158 HIS A 180 SITE 2 AC2 15 LYS A 234 GLN A 237 LEU A 264 VAL A 265 SITE 3 AC2 15 CYS A 283 ARG A 285 ILE A 286 ASP A 289 SITE 4 AC2 15 ASP A 290 SF4 A 900 HOH A1067 SITE 1 AC3 6 CYS B 61 ARG B 149 GLY B 158 CYS B 159 SITE 2 AC3 6 CYS B 283 SAM B 901 SITE 1 AC4 17 PHE B 58 LEU B 157 GLY B 158 HIS B 180 SITE 2 AC4 17 LYS B 234 GLN B 237 ASP B 263 LEU B 264 SITE 3 AC4 17 VAL B 265 CYS B 283 ARG B 285 ILE B 286 SITE 4 AC4 17 ASP B 289 ASP B 290 SF4 B 900 HOH B1011 SITE 5 AC4 17 HOH B1080 CRYST1 31.476 127.190 142.462 90.00 90.00 90.00 P 21 21 21 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 0.031770 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007862 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007019 0.00000