HEADER METAL BINDING PROTEIN 10-JAN-18 6C3M TITLE WILD TYPE STRUCTURE OF SIRHP COMPND MOL_ID: 1; COMPND 2 MOLECULE: SULFITE REDUCTASE [NADPH] HEMOPROTEIN BETA-COMPONENT; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: SIRHP; COMPND 5 EC: 1.8.1.2; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI (STRAIN K12); SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 STRAIN: K12; SOURCE 5 GENE: CYSI, B2763, JW2733; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS REDOX, IRON-SULFUR CLUSTER, FE4-S4 CLUSTER, SIROHEME, IRON, METAL KEYWDS 2 BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR M.E.STROUPE REVDAT 5 27-DEC-23 6C3M 1 COMPND FORMUL REVDAT 4 04-OCT-23 6C3M 1 LINK REVDAT 3 27-NOV-19 6C3M 1 REMARK REVDAT 2 20-JUN-18 6C3M 1 JRNL REVDAT 1 13-JUN-18 6C3M 0 JRNL AUTH M.R.CEPEDA,L.MCGARRY,J.M.PENNINGTON,J.KRZYSTEK,M.E.STROUPE JRNL TITL THE ROLE OF EXTENDED FE4S4CLUSTER LIGANDS IN MEDIATING JRNL TITL 2 SULFITE REDUCTASE HEMOPROTEIN ACTIVITY. JRNL REF BIOCHIM. BIOPHYS. ACTA V.1866 933 2018 JRNL REFN ISSN 0006-3002 JRNL PMID 29852252 JRNL DOI 10.1016/J.BBAPAP.2018.05.013 REMARK 2 REMARK 2 RESOLUTION. 1.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (1.11.1_2575: ???) 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) : 1.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 38.60 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.350 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.4 REMARK 3 NUMBER OF REFLECTIONS : 68350 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.167 REMARK 3 R VALUE (WORKING SET) : 0.166 REMARK 3 FREE R VALUE : 0.186 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 2.920 REMARK 3 FREE R VALUE TEST SET COUNT : 1999 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 38.6236 - 3.7147 1.00 5035 152 0.1572 0.1593 REMARK 3 2 3.7147 - 2.9488 1.00 4835 146 0.1533 0.1707 REMARK 3 3 2.9488 - 2.5762 1.00 4802 144 0.1673 0.1851 REMARK 3 4 2.5762 - 2.3407 1.00 4789 145 0.1641 0.1726 REMARK 3 5 2.3407 - 2.1729 1.00 4763 142 0.1568 0.2012 REMARK 3 6 2.1729 - 2.0448 1.00 4749 144 0.1533 0.1873 REMARK 3 7 2.0448 - 1.9424 1.00 4726 142 0.1632 0.1894 REMARK 3 8 1.9424 - 1.8578 1.00 4743 144 0.1607 0.1924 REMARK 3 9 1.8578 - 1.7863 1.00 4716 142 0.1616 0.1905 REMARK 3 10 1.7863 - 1.7247 1.00 4699 142 0.1778 0.2224 REMARK 3 11 1.7247 - 1.6708 1.00 4689 140 0.1931 0.2200 REMARK 3 12 1.6708 - 1.6230 1.00 4696 142 0.2120 0.2338 REMARK 3 13 1.6230 - 1.5803 0.99 4682 141 0.2328 0.2546 REMARK 3 14 1.5803 - 1.5417 0.94 4427 133 0.2651 0.2925 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) : 0.150 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 19.050 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL 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 3835 REMARK 3 ANGLE : 1.531 5216 REMARK 3 CHIRALITY : 0.064 560 REMARK 3 PLANARITY : 0.007 680 REMARK 3 DIHEDRAL : 4.229 3177 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 6C3M COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-JAN-18. REMARK 100 THE DEPOSITION ID IS D_1000231977. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 17-OCT-17 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 22-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 300 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 68383 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.500 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 (%) : 99.4 REMARK 200 DATA REDUNDANCY : 9.700 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 15.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.50 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.60 REMARK 200 COMPLETENESS FOR SHELL (%) : 95.8 REMARK 200 DATA REDUNDANCY IN SHELL : 3.80 REMARK 200 R MERGE FOR SHELL (I) : NULL 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: PHENIX REMARK 200 STARTING MODEL: 1AOP REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 31.55 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.80 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 65 MM POTASSIUM PHOSPHATE 18% PEG 8000 REMARK 280 1 MM EDTA, PH 7.8, EVAPORATION, TEMPERATURE 293K 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 34.19900 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 43.60700 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 38.61150 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 43.60700 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 34.19900 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 38.61150 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: 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 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 SER A 2 REMARK 465 GLU A 3 REMARK 465 LYS A 4 REMARK 465 HIS A 5 REMARK 465 PRO A 6 REMARK 465 GLY A 7 REMARK 465 PRO A 8 REMARK 465 LEU A 9 REMARK 465 VAL A 10 REMARK 465 VAL A 11 REMARK 465 GLU A 12 REMARK 465 GLY A 13 REMARK 465 LYS A 14 REMARK 465 LEU A 15 REMARK 465 THR A 16 REMARK 465 ASP A 17 REMARK 465 ALA A 18 REMARK 465 GLU A 19 REMARK 465 ARG A 20 REMARK 465 MET A 21 REMARK 465 LYS A 22 REMARK 465 HIS A 23 REMARK 465 GLU A 24 REMARK 465 SER A 25 REMARK 465 ASN A 26 REMARK 465 TYR A 27 REMARK 465 LEU A 28 REMARK 465 ARG A 29 REMARK 465 GLY A 30 REMARK 465 THR A 31 REMARK 465 ILE A 32 REMARK 465 ALA A 33 REMARK 465 GLU A 34 REMARK 465 ASP A 35 REMARK 465 LEU A 36 REMARK 465 ASN A 37 REMARK 465 ASP A 38 REMARK 465 GLY A 39 REMARK 465 LEU A 40 REMARK 465 THR A 41 REMARK 465 GLY A 42 REMARK 465 GLY A 43 REMARK 465 PHE A 44 REMARK 465 LYS A 45 REMARK 465 GLY A 46 REMARK 465 ASP A 47 REMARK 465 ASN A 48 REMARK 465 PHE A 49 REMARK 465 LEU A 50 REMARK 465 LEU A 51 REMARK 465 ILE A 52 REMARK 465 ARG A 53 REMARK 465 PHE A 54 REMARK 465 HIS A 55 REMARK 465 GLY A 56 REMARK 465 MET A 57 REMARK 465 TYR A 58 REMARK 465 GLN A 59 REMARK 465 GLN A 60 REMARK 465 ASP A 61 REMARK 465 ASP A 62 REMARK 465 ARG A 63 REMARK 465 ASP A 64 REMARK 465 ILE A 65 REMARK 465 ARG A 66 REMARK 465 ALA A 67 REMARK 465 GLU A 68 REMARK 465 ARG A 69 REMARK 465 ALA A 70 REMARK 465 GLU A 71 REMARK 465 GLN A 72 REMARK 465 LYS A 73 REMARK 465 LEU A 74 REMARK 465 GLU A 75 REMARK 465 PRO A 76 REMARK 465 ARG A 77 REMARK 465 HIS A 78 REMARK 465 ALA A 79 REMARK 465 ARG A 184 REMARK 465 THR A 185 REMARK 465 ARG A 186 REMARK 465 ALA A 187 REMARK 465 TYR A 188 REMARK 465 ALA A 189 REMARK 465 GLU A 190 REMARK 465 ILE A 191 REMARK 465 TRP A 192 REMARK 465 LEU A 193 REMARK 465 ASP A 194 REMARK 465 GLN A 195 REMARK 465 GLU A 196 REMARK 465 LYS A 197 REMARK 465 VAL A 198 REMARK 465 ALA A 199 REMARK 465 THR A 200 REMARK 465 THR A 201 REMARK 465 ASP A 202 REMARK 465 GLU A 203 REMARK 465 GLU A 204 REMARK 465 PRO A 205 REMARK 465 ILE A 206 REMARK 465 LEU A 207 REMARK 465 GLY A 208 REMARK 465 GLN A 209 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 O HOH A 733 O HOH A 1151 1.87 REMARK 500 O HOH A 754 O HOH A 1153 2.01 REMARK 500 NH2 ARG A 294 O HOH A 701 2.02 REMARK 500 O HOH A 776 O HOH A 1118 2.03 REMARK 500 O HOH A 709 O HOH A 1044 2.07 REMARK 500 O HOH A 958 O HOH A 1035 2.14 REMARK 500 O HOH A 729 O HOH A 1123 2.15 REMARK 500 OD2 ASP A 389 O HOH A 702 2.16 REMARK 500 OE1 GLU A 520 O HOH A 703 2.16 REMARK 500 O HOH A 1006 O HOH A 1103 2.17 REMARK 500 O HOH A 789 O HOH A 1061 2.17 REMARK 500 O HOH A 1099 O HOH A 1161 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O HOH A 912 O HOH A 1062 3555 1.96 REMARK 500 O HOH A 1063 O HOH A 1096 3555 2.09 REMARK 500 O HOH A 1117 O HOH A 1164 4566 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 MET A 151 N - CA - C ANGL. DEV. = 19.1 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 LEU A 86 74.41 -156.61 REMARK 500 LEU A 145 72.96 -57.42 REMARK 500 ALA A 146 162.58 -20.63 REMARK 500 THR A 147 -59.92 156.70 REMARK 500 ASP A 150 30.71 -159.40 REMARK 500 MET A 151 -22.83 27.69 REMARK 500 ASP A 229 63.92 60.06 REMARK 500 ASP A 353 -127.56 61.94 REMARK 500 ASN A 364 15.20 58.30 REMARK 500 SER A 436 -144.82 54.66 REMARK 500 ALA A 447 -73.78 -128.42 REMARK 500 ASP A 563 76.12 -158.07 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 LEU A 145 ALA A 146 143.45 REMARK 500 ASP A 150 MET A 151 149.35 REMARK 500 REMARK 500 REMARK: NULL 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 K A 602 K REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ILE A 362 O REMARK 620 2 ASN A 395 O 140.2 REMARK 620 3 GLN A 396 O 67.2 73.2 REMARK 620 4 ASN A 397 OD1 78.2 89.8 66.4 REMARK 620 5 HOH A 788 O 151.0 61.1 130.2 128.1 REMARK 620 6 HOH A 824 O 138.3 73.9 132.0 79.5 52.7 REMARK 620 7 HOH A 953 O 88.1 116.9 132.1 149.9 62.9 94.0 REMARK 620 N 1 2 3 4 5 6 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 434 SG REMARK 620 2 SF4 A 603 S2 112.0 REMARK 620 3 SF4 A 603 S3 107.2 108.5 REMARK 620 4 SF4 A 603 S4 124.0 101.7 102.3 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 440 SG REMARK 620 2 SF4 A 603 S1 106.2 REMARK 620 3 SF4 A 603 S3 124.6 102.1 REMARK 620 4 SF4 A 603 S4 115.5 104.4 101.7 REMARK 620 5 HOH A1052 O 83.4 60.1 151.5 65.6 REMARK 620 N 1 2 3 4 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 479 SG REMARK 620 2 SF4 A 603 S1 106.0 REMARK 620 3 SF4 A 603 S2 118.5 101.9 REMARK 620 4 SF4 A 603 S4 122.8 104.4 100.7 REMARK 620 5 HOH A1052 O 80.7 65.0 160.0 70.2 REMARK 620 N 1 2 3 4 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 483 SG REMARK 620 2 SF4 A 603 S1 121.7 REMARK 620 3 SF4 A 603 S2 102.7 102.3 REMARK 620 4 SF4 A 603 S3 118.0 103.5 106.7 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 SRM A 604 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 483 SG REMARK 620 2 SRM A 604 NA 87.4 REMARK 620 3 SRM A 604 NB 89.7 89.7 REMARK 620 4 SRM A 604 NC 80.6 168.0 89.7 REMARK 620 5 SRM A 604 ND 82.9 88.9 172.5 90.1 REMARK 620 6 PO4 A 601 O1 174.6 91.2 85.1 100.7 102.3 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue PO4 A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: binding site for residue K 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 SRM A 604 DBREF 6C3M A 1 570 UNP P17846 CYSI_ECOLI 1 570 SEQRES 1 A 570 MET SER GLU LYS HIS PRO GLY PRO LEU VAL VAL GLU GLY SEQRES 2 A 570 LYS LEU THR ASP ALA GLU ARG MET LYS HIS GLU SER ASN SEQRES 3 A 570 TYR LEU ARG GLY THR ILE ALA GLU ASP LEU ASN ASP GLY SEQRES 4 A 570 LEU THR GLY GLY PHE LYS GLY ASP ASN PHE LEU LEU ILE SEQRES 5 A 570 ARG PHE HIS GLY MET TYR GLN GLN ASP ASP ARG ASP ILE SEQRES 6 A 570 ARG ALA GLU ARG ALA GLU GLN LYS LEU GLU PRO ARG HIS SEQRES 7 A 570 ALA MET LEU LEU ARG CYS ARG LEU PRO GLY GLY VAL ILE SEQRES 8 A 570 THR THR LYS GLN TRP GLN ALA ILE ASP LYS PHE ALA GLY SEQRES 9 A 570 GLU ASN THR ILE TYR GLY SER ILE ARG LEU THR ASN ARG SEQRES 10 A 570 GLN THR PHE GLN PHE HIS GLY ILE LEU LYS LYS ASN VAL SEQRES 11 A 570 LYS PRO VAL HIS GLN MET LEU HIS SER VAL GLY LEU ASP SEQRES 12 A 570 ALA LEU ALA THR ALA ASN ASP MET ASN ARG ASN VAL LEU SEQRES 13 A 570 CYS THR SER ASN PRO TYR GLU SER GLN LEU HIS ALA GLU SEQRES 14 A 570 ALA TYR GLU TRP ALA LYS LYS ILE SER GLU HIS LEU LEU SEQRES 15 A 570 PRO ARG THR ARG ALA TYR ALA GLU ILE TRP LEU ASP GLN SEQRES 16 A 570 GLU LYS VAL ALA THR THR ASP GLU GLU PRO ILE LEU GLY SEQRES 17 A 570 GLN THR TYR LEU PRO ARG LYS PHE LYS THR THR VAL VAL SEQRES 18 A 570 ILE PRO PRO GLN ASN ASP ILE ASP LEU HIS ALA ASN ASP SEQRES 19 A 570 MET ASN PHE VAL ALA ILE ALA GLU ASN GLY LYS LEU VAL SEQRES 20 A 570 GLY PHE ASN LEU LEU VAL GLY GLY GLY LEU SER ILE GLU SEQRES 21 A 570 HIS GLY ASN LYS LYS THR TYR ALA ARG THR ALA SER GLU SEQRES 22 A 570 PHE GLY TYR LEU PRO LEU GLU HIS THR LEU ALA VAL ALA SEQRES 23 A 570 GLU ALA VAL VAL THR THR GLN ARG ASP TRP GLY ASN ARG SEQRES 24 A 570 THR ASP ARG LYS ASN ALA LYS THR LYS TYR THR LEU GLU SEQRES 25 A 570 ARG VAL GLY VAL GLU THR PHE LYS ALA GLU VAL GLU ARG SEQRES 26 A 570 ARG ALA GLY ILE LYS PHE GLU PRO ILE ARG PRO TYR GLU SEQRES 27 A 570 PHE THR GLY ARG GLY ASP ARG ILE GLY TRP VAL LYS GLY SEQRES 28 A 570 ILE ASP ASP ASN TRP HIS LEU THR LEU PHE ILE GLU ASN SEQRES 29 A 570 GLY ARG ILE LEU ASP TYR PRO ALA ARG PRO LEU LYS THR SEQRES 30 A 570 GLY LEU LEU GLU ILE ALA LYS ILE HIS LYS GLY ASP PHE SEQRES 31 A 570 ARG ILE THR ALA ASN GLN ASN LEU ILE ILE ALA GLY VAL SEQRES 32 A 570 PRO GLU SER GLU LYS ALA LYS ILE GLU LYS ILE ALA LYS SEQRES 33 A 570 GLU SER GLY LEU MET ASN ALA VAL THR PRO GLN ARG GLU SEQRES 34 A 570 ASN SER MET ALA CYS VAL SER PHE PRO THR CYS PRO LEU SEQRES 35 A 570 ALA MET ALA GLU ALA GLU ARG PHE LEU PRO SER PHE ILE SEQRES 36 A 570 ASP ASN ILE ASP ASN LEU MET ALA LYS HIS GLY VAL SER SEQRES 37 A 570 ASP GLU HIS ILE VAL MET ARG VAL THR GLY CYS PRO ASN SEQRES 38 A 570 GLY CYS GLY ARG ALA MET LEU ALA GLU VAL GLY LEU VAL SEQRES 39 A 570 GLY LYS ALA PRO GLY ARG TYR ASN LEU HIS LEU GLY GLY SEQRES 40 A 570 ASN ARG ILE GLY THR ARG ILE PRO ARG MET TYR LYS GLU SEQRES 41 A 570 ASN ILE THR GLU PRO GLU ILE LEU ALA SER LEU ASP GLU SEQRES 42 A 570 LEU ILE GLY ARG TRP ALA LYS GLU ARG GLU ALA GLY GLU SEQRES 43 A 570 GLY PHE GLY ASP PHE THR VAL ARG ALA GLY ILE ILE ARG SEQRES 44 A 570 PRO VAL LEU ASP PRO ALA ARG ASP LEU TRP ASP HET PO4 A 601 5 HET K A 602 1 HET SF4 A 603 8 HET SRM A 604 63 HETNAM PO4 PHOSPHATE ION HETNAM K POTASSIUM ION HETNAM SF4 IRON/SULFUR CLUSTER HETNAM SRM SIROHEME FORMUL 2 PO4 O4 P 3- FORMUL 3 K K 1+ FORMUL 4 SF4 FE4 S4 FORMUL 5 SRM C42 H44 FE N4 O16 FORMUL 6 HOH *477(H2 O) HELIX 1 AA1 LEU A 86 GLY A 88 5 3 HELIX 2 AA2 THR A 93 THR A 107 1 15 HELIX 3 AA3 LEU A 126 LYS A 128 5 3 HELIX 4 AA4 ASN A 129 VAL A 140 1 12 HELIX 5 AA5 GLU A 163 GLN A 165 5 3 HELIX 6 AA6 LEU A 166 LEU A 181 1 16 HELIX 7 AA7 ASP A 229 ASN A 233 5 5 HELIX 8 AA8 HIS A 281 GLY A 297 1 17 HELIX 9 AA9 ASP A 301 ALA A 305 5 5 HELIX 10 AB1 LYS A 306 GLY A 315 1 10 HELIX 11 AB2 GLY A 315 GLY A 328 1 14 HELIX 12 AB3 ILE A 362 ASN A 364 5 3 HELIX 13 AB4 LEU A 375 HIS A 386 1 12 HELIX 14 AB5 GLU A 407 SER A 418 1 12 HELIX 15 AB6 THR A 425 ASN A 430 1 6 HELIX 16 AB7 PHE A 450 HIS A 465 1 16 HELIX 17 AB8 ARG A 485 ALA A 489 5 5 HELIX 18 AB9 GLU A 524 ARG A 542 1 19 HELIX 19 AC1 GLY A 547 ALA A 555 1 9 HELIX 20 AC2 ASP A 563 LEU A 568 1 6 SHEET 1 AA1 4 LEU A 81 ARG A 83 0 SHEET 2 AA1 4 PHE A 120 HIS A 123 -1 O PHE A 122 N LEU A 82 SHEET 3 AA1 4 ILE A 112 LEU A 114 -1 N ARG A 113 O GLN A 121 SHEET 4 AA1 4 ARG A 366 ILE A 367 -1 O ILE A 367 N ILE A 112 SHEET 1 AA2 5 VAL A 90 THR A 92 0 SHEET 2 AA2 5 ASP A 389 ILE A 392 -1 O PHE A 390 N ILE A 91 SHEET 3 AA2 5 LEU A 398 PRO A 404 -1 O ILE A 399 N ARG A 391 SHEET 4 AA2 5 ASN A 355 LEU A 360 -1 N LEU A 360 O LEU A 398 SHEET 5 AA2 5 GLY A 347 LYS A 350 -1 N VAL A 349 O HIS A 357 SHEET 1 AA3 5 LEU A 156 CYS A 157 0 SHEET 2 AA3 5 THR A 218 VAL A 221 1 O VAL A 220 N LEU A 156 SHEET 3 AA3 5 MET A 235 GLU A 242 1 O ALA A 239 N VAL A 221 SHEET 4 AA3 5 LYS A 245 VAL A 253 -1 O ASN A 250 N VAL A 238 SHEET 5 AA3 5 SER A 272 PRO A 278 -1 O SER A 272 N VAL A 253 SHEET 1 AA4 2 ASP A 369 TYR A 370 0 SHEET 2 AA4 2 ARG A 373 PRO A 374 -1 O ARG A 373 N TYR A 370 SHEET 1 AA5 5 SER A 431 ALA A 433 0 SHEET 2 AA5 5 MET A 474 THR A 477 1 O VAL A 476 N MET A 432 SHEET 3 AA5 5 VAL A 491 ALA A 497 1 O GLY A 495 N THR A 477 SHEET 4 AA5 5 ARG A 500 LEU A 505 -1 O HIS A 504 N GLY A 492 SHEET 5 AA5 5 ARG A 516 THR A 523 -1 O TYR A 518 N LEU A 503 LINK O ILE A 362 K K A 602 1555 1555 2.74 LINK O ASN A 395 K K A 602 1555 1555 2.77 LINK O GLN A 396 K K A 602 1555 1555 3.38 LINK OD1 ASN A 397 K K A 602 1555 1555 2.63 LINK SG CYS A 434 FE1 SF4 A 603 1555 1555 2.34 LINK SG CYS A 440 FE2 SF4 A 603 1555 1555 2.29 LINK SG CYS A 479 FE3 SF4 A 603 1555 1555 2.33 LINK SG CYS A 483 FE4 SF4 A 603 1555 1555 2.27 LINK SG CYS A 483 FE SRM A 604 1555 1555 2.66 LINK O1 PO4 A 601 FE SRM A 604 1555 1555 2.15 LINK K K A 602 O HOH A 788 1555 1555 2.95 LINK K K A 602 O HOH A 824 1555 1555 3.24 LINK K K A 602 O HOH A 953 1555 1555 2.97 LINK FE2 SF4 A 603 O HOH A1052 1555 1555 2.47 LINK FE3 SF4 A 603 O HOH A1052 1555 1555 2.19 CISPEP 1 ALA A 146 THR A 147 0 -2.44 CISPEP 2 PRO A 223 PRO A 224 0 10.44 CISPEP 3 PHE A 437 PRO A 438 0 8.41 SITE 1 AC1 6 ARG A 83 ARG A 153 LYS A 215 LYS A 217 SITE 2 AC1 6 SRM A 604 HOH A 844 SITE 1 AC2 6 ILE A 362 ASN A 395 GLN A 396 ASN A 397 SITE 2 AC2 6 HOH A 788 HOH A 953 SITE 1 AC3 9 CYS A 434 CYS A 440 ALA A 443 THR A 477 SITE 2 AC3 9 GLY A 478 CYS A 479 ASN A 481 CYS A 483 SITE 3 AC3 9 HOH A1052 SITE 1 AC4 40 ARG A 83 ARG A 113 THR A 115 ASN A 116 SITE 2 AC4 40 ARG A 117 THR A 119 GLN A 121 HIS A 123 SITE 3 AC4 40 ARG A 214 LYS A 215 LYS A 217 GLY A 256 SITE 4 AC4 40 LEU A 257 SER A 258 ARG A 302 GLN A 396 SITE 5 AC4 40 ALA A 433 CYS A 434 VAL A 435 THR A 439 SITE 6 AC4 40 CYS A 440 PRO A 441 LEU A 442 ASN A 481 SITE 7 AC4 40 GLY A 482 CYS A 483 ARG A 485 PO4 A 601 SITE 8 AC4 40 HOH A 735 HOH A 751 HOH A 765 HOH A 779 SITE 9 AC4 40 HOH A 822 HOH A 827 HOH A 831 HOH A 852 SITE 10 AC4 40 HOH A 867 HOH A 932 HOH A 939 HOH A 956 CRYST1 68.398 77.223 87.214 90.00 90.00 90.00 P 21 21 21 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 0.014620 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012950 0.000000 0.00000 SCALE3 0.000000 0.000000 0.011466 0.00000