HEADER ELECTRON TRANSPORT 10-SEP-03 1QYB TITLE X-RAY CRYSTAL STRUCTURE OF DESULFOVIBRIO VULGARIS RUBRERYTHRIN WITH TITLE 2 ZINC SUBSTITUTED INTO THE [FE(SCYS)4] SITE AND ALTERNATIVE DIIRON TITLE 3 SITE STRUCTURES COMPND MOL_ID: 1; COMPND 2 MOLECULE: RUBRERYTHRIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DESULFOVIBRIO VULGARIS SUBSP. VULGARIS; SOURCE 3 ORGANISM_TAXID: 882; SOURCE 4 STRAIN: HILDENBOROUGH; SOURCE 5 GENE: RR; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PT7-7 KEYWDS RUBRERYTHRIN, ZINC-SUBSTITUTED, DIIRON FOUR-HELIX BUNDLE, RUBREDOXIN- KEYWDS 2 LIKE, ELECTRON TRANSPORT EXPDTA X-RAY DIFFRACTION AUTHOR S.JIN,D.M.KURTZ,Z.J.LIU,J.ROSE,B.C.WANG REVDAT 4 23-AUG-23 1QYB 1 REMARK LINK REVDAT 3 13-JUL-11 1QYB 1 VERSN REVDAT 2 24-FEB-09 1QYB 1 VERSN REVDAT 1 30-MAR-04 1QYB 0 JRNL AUTH S.JIN,D.M.KURTZ,Z.J.LIU,J.ROSE,B.C.WANG JRNL TITL X-RAY CRYSTAL STRUCTURE OF DESULFOVIBRIO VULGARIS JRNL TITL 2 RUBRERYTHRIN WITH ZINC SUBSTITUTED INTO THE [FE(SCYS)(4)] JRNL TITL 3 SITE AND ALTERNATIVE DIIRON SITE STRUCTURES. JRNL REF BIOCHEMISTRY V. 43 3204 2004 JRNL REFN ISSN 0006-2960 JRNL PMID 15023070 JRNL DOI 10.1021/BI0356193 REMARK 2 REMARK 2 RESOLUTION. 1.75 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.75 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 17.59 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 95.8 REMARK 3 NUMBER OF REFLECTIONS : 36400 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 SET) : 0.182 REMARK 3 FREE R VALUE : 0.213 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 7.800 REMARK 3 FREE R VALUE TEST SET COUNT : 2843 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.004 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.75 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.86 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 92.20 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 5420 REMARK 3 BIN R VALUE (WORKING SET) : 0.2290 REMARK 3 BIN FREE R VALUE : 0.2640 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 8.00 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 474 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.012 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1514 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 8 REMARK 3 SOLVENT ATOMS : 247 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 16.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.00 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 6.21000 REMARK 3 B22 (A**2) : -2.63000 REMARK 3 B33 (A**2) : -3.58000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.00000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.18 REMARK 3 ESD FROM SIGMAA (A) : 0.11 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.22 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.16 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.005 REMARK 3 BOND ANGLES (DEGREES) : 1.000 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 19.20 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.750 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.120 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 1.610 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.130 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 3.220 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.35 REMARK 3 BSOL : 46.05 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : ION.PARAM REMARK 3 PARAMETER FILE 3 : WATER_REP.PARAM REMARK 3 PARAMETER FILE 4 : CIS_PEPTIDE-011502-ZNS4.PARAM REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 TOPOLOGY FILE 1 : PROTEIN.TOP REMARK 3 TOPOLOGY FILE 2 : WATER.TOP REMARK 3 TOPOLOGY FILE 3 : ION.TOP REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1QYB COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-SEP-03. REMARK 100 THE DEPOSITION ID IS D_1000020217. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-DEC-01 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 17-ID REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0 REMARK 200 MONOCHROMATOR : SI 111 CHANNEL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 38040 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.750 REMARK 200 RESOLUTION RANGE LOW (A) : 17.590 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.3 REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.04200 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 24.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.75 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.81 REMARK 200 COMPLETENESS FOR SHELL (%) : 96.5 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.14500 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 14.50 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNS REMARK 200 STARTING MODEL: PDB ENTRY 1RYT REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 45.38 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.25 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG1450, TRIS, PH 8.0, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 298K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 2 2 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 -X,Y,-Z REMARK 290 4555 X,-Y,-Z 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 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-Y+1/2,-Z+1/2 REMARK 290 REMARK 290 WHERE NNN -> OPERATOR NUMBER REMARK 290 MMM -> TRANSLATION VECTOR REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY TRANSFORMATIONS REMARK 290 THE FOLLOWING TRANSFORMATIONS OPERATE ON THE ATOM/HETATM REMARK 290 RECORDS IN THIS ENTRY TO PRODUCE CRYSTALLOGRAPHICALLY REMARK 290 RELATED MOLECULES. REMARK 290 SMTRY1 1 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 1 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 1 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 24.00400 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 40.08050 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 50.51450 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 24.00400 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 40.08050 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 50.51450 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 24.00400 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 40.08050 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 50.51450 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 24.00400 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 40.08050 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 50.51450 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: 3860 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18170 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -104.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 48.00800 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 101.02900 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA,PQS REMARK 350 TOTAL BURIED SURFACE AREA: 14130 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 29940 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -235.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 2 -1.000000 0.000000 0.000000 48.00800 REMARK 350 BIOMT2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 1.000000 0.00000 REMARK 350 BIOMT1 3 -1.000000 0.000000 0.000000 48.00800 REMARK 350 BIOMT2 3 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 3 0.000000 0.000000 -1.000000 101.02900 REMARK 350 BIOMT1 4 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 4 0.000000 -1.000000 0.000000 0.00000 REMARK 350 BIOMT3 4 0.000000 0.000000 -1.000000 101.02900 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 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 ALA A 81 -157.75 -119.24 REMARK 500 TYR A 114 76.14 -105.39 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 FE A 601 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 20 OE1 REMARK 620 2 GLU A 20 OE2 55.4 REMARK 620 3 GLU A 53 OE2 117.4 107.9 REMARK 620 4 GLU A 53 OE1 77.1 96.4 42.5 REMARK 620 5 GLU A 97 OE1 85.7 98.8 151.5 144.7 REMARK 620 6 GLU A 128 OE2 128.6 79.0 96.7 135.9 78.6 REMARK 620 7 GLU A 128 OE1 155.8 101.4 59.0 101.2 106.7 39.5 REMARK 620 8 HOH A1079 O 132.8 170.3 64.5 82.0 87.8 95.4 69.6 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE A 601 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 20 OE1 REMARK 620 2 GLU A 20 OE2 48.6 REMARK 620 3 GLU A 53 OE2 107.5 154.3 REMARK 620 4 GLU A 53 OE1 58.9 104.5 49.9 REMARK 620 5 HIS A 56 ND1 140.3 97.7 99.4 131.0 REMARK 620 6 GLU A 128 OE2 88.0 84.8 106.1 112.8 112.2 REMARK 620 7 GLU A 128 OE1 127.5 130.2 69.3 107.6 89.0 47.9 REMARK 620 N 1 2 3 4 5 6 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE A 600 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 GLU A 53 OE2 REMARK 620 2 GLU A 94 OE1 165.8 REMARK 620 3 GLU A 94 OE2 117.1 57.5 REMARK 620 4 GLU A 128 OE1 94.8 88.7 146.1 REMARK 620 5 HIS A 131 ND1 89.6 104.4 103.4 87.1 REMARK 620 6 HOH A1079 O 84.0 82.0 79.6 93.4 173.6 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 401 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 158 SG REMARK 620 2 CYS A 161 SG 115.3 REMARK 620 3 CYS A 174 SG 111.8 103.7 REMARK 620 4 CYS A 177 SG 106.2 111.4 108.3 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 FE A 600 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FE A 601 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE SO4 A 2000 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1LKM RELATED DB: PDB REMARK 900 RUBRERYTHRIN ALL-IRON(III) FORM DBREF 1QYB A 1 191 UNP P24931 RUBY_DESVH 1 191 SEQRES 1 A 191 MET LYS SER LEU LYS GLY SER ARG THR GLU LYS ASN ILE SEQRES 2 A 191 LEU THR ALA PHE ALA GLY GLU SER GLN ALA ARG ASN ARG SEQRES 3 A 191 TYR ASN TYR PHE GLY GLY GLN ALA LYS LYS ASP GLY PHE SEQRES 4 A 191 VAL GLN ILE SER ASP ILE PHE ALA GLU THR ALA ASP GLN SEQRES 5 A 191 GLU ARG GLU HIS ALA LYS ARG LEU PHE LYS PHE LEU GLU SEQRES 6 A 191 GLY GLY ASP LEU GLU ILE VAL ALA ALA PHE PRO ALA GLY SEQRES 7 A 191 ILE ILE ALA ASP THR HIS ALA ASN LEU ILE ALA SER ALA SEQRES 8 A 191 ALA GLY GLU HIS HIS GLU TYR THR GLU MET TYR PRO SER SEQRES 9 A 191 PHE ALA ARG ILE ALA ARG GLU GLU GLY TYR GLU GLU ILE SEQRES 10 A 191 ALA ARG VAL PHE ALA SER ILE ALA VAL ALA GLU GLU PHE SEQRES 11 A 191 HIS GLU LYS ARG PHE LEU ASP PHE ALA ARG ASN ILE LYS SEQRES 12 A 191 GLU GLY ARG VAL PHE LEU ARG GLU GLN ALA THR LYS TRP SEQRES 13 A 191 ARG CYS ARG ASN CYS GLY TYR VAL HIS GLU GLY THR GLY SEQRES 14 A 191 ALA PRO GLU LEU CYS PRO ALA CYS ALA HIS PRO LYS ALA SEQRES 15 A 191 HIS PHE GLU LEU LEU GLY ILE ASN TRP HET FE A 600 1 HET FE A 601 2 HET ZN A 401 1 HET SO4 A2000 5 HETNAM FE FE (III) ION HETNAM ZN ZINC ION HETNAM SO4 SULFATE ION FORMUL 2 FE 2(FE 3+) FORMUL 4 ZN ZN 2+ FORMUL 5 SO4 O4 S 2- FORMUL 6 HOH *247(H2 O) HELIX 1 1 SER A 7 ASP A 37 1 31 HELIX 2 2 PHE A 39 LYS A 62 1 24 HELIX 3 3 ASP A 82 GLU A 100 1 19 HELIX 4 4 GLU A 100 GLY A 113 1 14 HELIX 5 5 TYR A 114 GLU A 144 1 31 HELIX 6 6 PRO A 180 ALA A 182 5 3 SHEET 1 A 3 VAL A 164 GLY A 169 0 SHEET 2 A 3 LEU A 149 CYS A 158 -1 N TRP A 156 O HIS A 165 SHEET 3 A 3 PHE A 184 LEU A 186 -1 O GLU A 185 N ARG A 157 LINK OE1 GLU A 20 FE A FE A 601 1555 1555 2.04 LINK OE1 GLU A 20 FE B FE A 601 1555 1555 2.91 LINK OE2 GLU A 20 FE A FE A 601 1555 1555 2.57 LINK OE2 GLU A 20 FE B FE A 601 1555 1555 2.10 LINK OE2 GLU A 53 FE FE A 600 1555 1555 2.20 LINK OE2 GLU A 53 FE A FE A 601 1555 1555 3.23 LINK OE2 GLU A 53 FE B FE A 601 1555 1555 2.72 LINK OE1 GLU A 53 FE B FE A 601 1555 1555 2.42 LINK OE1 GLU A 53 FE A FE A 601 1555 1555 2.21 LINK ND1 HIS A 56 FE B FE A 601 1555 1555 2.15 LINK OE1 GLU A 94 FE FE A 600 1555 1555 2.34 LINK OE2 GLU A 94 FE FE A 600 1555 1555 2.21 LINK OE1 GLU A 97 FE A FE A 601 1555 1555 2.34 LINK OE1 GLU A 128 FE FE A 600 1555 1555 2.17 LINK OE2 GLU A 128 FE A FE A 601 1555 1555 1.96 LINK OE2 GLU A 128 FE B FE A 601 1555 1555 2.22 LINK OE1 GLU A 128 FE A FE A 601 1555 1555 3.31 LINK OE1 GLU A 128 FE B FE A 601 1555 1555 2.93 LINK ND1 HIS A 131 FE FE A 600 1555 1555 2.31 LINK SG CYS A 158 ZN ZN A 401 1555 1555 2.31 LINK SG CYS A 161 ZN ZN A 401 1555 1555 2.33 LINK SG CYS A 174 ZN ZN A 401 1555 1555 2.33 LINK SG CYS A 177 ZN ZN A 401 1555 1555 2.32 LINK FE FE A 600 O HOH A1079 1555 1555 2.23 LINK FE A FE A 601 O HOH A1079 1555 1555 1.96 CISPEP 1 GLY A 78 ILE A 79 0 -0.45 SITE 1 AC1 6 GLU A 53 GLU A 94 GLU A 128 HIS A 131 SITE 2 AC1 6 FE A 601 HOH A1079 SITE 1 AC2 7 GLU A 20 GLU A 53 HIS A 56 GLU A 97 SITE 2 AC2 7 GLU A 128 FE A 600 HOH A1079 SITE 1 AC3 4 CYS A 158 CYS A 161 CYS A 174 CYS A 177 SITE 1 AC4 8 ARG A 146 ARG A 150 GLU A 151 GLN A 152 SITE 2 AC4 8 HOH A1120 HOH A1122 HOH A1208 HOH A1228 CRYST1 48.008 80.161 101.029 90.00 90.00 90.00 I 2 2 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 0.020830 0.000000 0.000000 0.00000 SCALE2 0.000000 0.012475 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009898 0.00000