HEADER OXIDOREDUCTASE 19-MAY-04 1VZI TITLE STRUCTURE OF SUPEROXIDE REDUCTASE BOUND TO FERROCYANIDE AND ACTIVE TITLE 2 SITE EXPANSION UPON X-RAY INDUCED PHOTOREDUCTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: DESULFOFERRODOXIN; COMPND 3 CHAIN: A, B; COMPND 4 SYNONYM: SUPEROXIDE REDUCTASE, DFX, SOR; COMPND 5 EC: 1.15.1.2; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DESULFOVIBRIO BAARSII; SOURCE 3 ORGANISM_TAXID: 453230; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI DH5[ALPHA]; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 668369; SOURCE 6 EXPRESSION_SYSTEM_PLASMID: PMLE47A KEYWDS FERROCYANIDE, MICROSPECTROPHOTOMETRY, REDOX STATES, PHOTOREDUCTION, KEYWDS 2 DINUCLEAR IRON CLUSTER, OXIDOREDUCTASE, ELECTRON TRANSPORT EXPDTA X-RAY DIFFRACTION AUTHOR V.ADAM,A.ROYANT,V.NIVIERE,F.P.MOLINA-HEREDIA,D.BOURGEOIS REVDAT 4 22-MAY-19 1VZI 1 REMARK REVDAT 3 28-FEB-18 1VZI 1 SOURCE JRNL REVDAT 2 24-FEB-09 1VZI 1 VERSN REVDAT 1 27-AUG-04 1VZI 0 JRNL AUTH V.ADAM,A.ROYANT,V.NIVIERE,F.P.MOLINA-HEREDIA,D.BOURGEOIS JRNL TITL STRUCTURE OF SUPEROXIDE REDUCTASE BOUND TO FERROCYANIDE AND JRNL TITL 2 ACTIVE SITE EXPANSION UPON X-RAY-INDUCED PHOTO-REDUCTION. JRNL REF STRUCTURE V. 12 1729 2004 JRNL REFN ISSN 0969-2126 JRNL PMID 15341736 JRNL DOI 10.1016/J.STR.2004.07.013 REMARK 2 REMARK 2 RESOLUTION. 1.15 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : SHELXL-97 REMARK 3 AUTHORS : G.M.SHELDRICK REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.15 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 45.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.1 REMARK 3 CROSS-VALIDATION METHOD : FREE R-VALUE REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (NO CUTOFF). REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : 0.143 REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : NULL REMARK 3 FREE R VALUE (NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : NULL REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : 98585 REMARK 3 REMARK 3 FIT/AGREEMENT OF MODEL FOR DATA WITH F>4SIG(F). REMARK 3 R VALUE (WORKING + TEST SET, F>4SIG(F)) : NULL REMARK 3 R VALUE (WORKING SET, F>4SIG(F)) : NULL REMARK 3 FREE R VALUE (F>4SIG(F)) : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%, F>4SIG(F)) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (F>4SIG(F)) : NULL REMARK 3 TOTAL NUMBER OF REFLECTIONS (F>4SIG(F)) : 61989 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1956 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 10 REMARK 3 SOLVENT ATOMS : 518 REMARK 3 REMARK 3 MODEL REFINEMENT. REMARK 3 OCCUPANCY SUM OF NON-HYDROGEN ATOMS : 2480.2 REMARK 3 OCCUPANCY SUM OF HYDROGEN ATOMS : 0.00 REMARK 3 NUMBER OF DISCRETELY DISORDERED RESIDUES : 1 REMARK 3 NUMBER OF LEAST-SQUARES PARAMETERS : 22352 REMARK 3 NUMBER OF RESTRAINTS : 0 REMARK 3 REMARK 3 RMS DEVIATIONS FROM RESTRAINT TARGET VALUES. REMARK 3 BOND LENGTHS (A) : 0.016 REMARK 3 ANGLE DISTANCES (A) : 0.034 REMARK 3 SIMILAR DISTANCES (NO TARGET VALUES) (A) : NULL REMARK 3 DISTANCES FROM RESTRAINT PLANES (A) : NULL REMARK 3 ZERO CHIRAL VOLUMES (A**3) : NULL REMARK 3 NON-ZERO CHIRAL VOLUMES (A**3) : NULL REMARK 3 ANTI-BUMPING DISTANCE RESTRAINTS (A) : NULL REMARK 3 RIGID-BOND ADP COMPONENTS (A**2) : NULL REMARK 3 SIMILAR ADP COMPONENTS (A**2) : NULL REMARK 3 APPROXIMATELY ISOTROPIC ADPS (A**2) : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED: NULL REMARK 3 REMARK 3 STEREOCHEMISTRY TARGET VALUES : ENGH AND HUBER REMARK 3 SPECIAL CASE: NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: ANISOTROPIC REFINEMENT REDUCED FREE R REMARK 3 (NO CUTOFF). CHLORIDE ION IN ACTIVE SITE II (MONOMER B) IS REMARK 3 MODELED IN DUAL CONFORMATIONS REMARK 4 REMARK 4 1VZI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 19-MAY-04. REMARK 100 THE DEPOSITION ID IS D_1290020042. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-JUL-03 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 8.00 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.923 REMARK 200 MONOCHROMATOR : DIAMOND 111 REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XDS REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 93621 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.150 REMARK 200 RESOLUTION RANGE LOW (A) : 45.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 200 DATA REDUNDANCY : 6.100 REMARK 200 R MERGE (I) : 0.05000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : 98.1 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.41000 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: CNS REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 38.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.47 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 18% PEG 4000, 100 MM TRIS PH 8.0, 100 REMARK 280 MM CACL2, PH 8.00 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: I 41 2 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 3555 -Y,X+1/2,Z+1/4 REMARK 290 4555 Y+1/2,-X,Z+3/4 REMARK 290 5555 -X+1/2,Y,-Z+3/4 REMARK 290 6555 X,-Y+1/2,-Z+1/4 REMARK 290 7555 Y+1/2,X+1/2,-Z+1/2 REMARK 290 8555 -Y,-X,-Z REMARK 290 9555 X+1/2,Y+1/2,Z+1/2 REMARK 290 10555 -X,-Y,Z REMARK 290 11555 -Y+1/2,X,Z+3/4 REMARK 290 12555 Y,-X+1/2,Z+1/4 REMARK 290 13555 -X,Y+1/2,-Z+1/4 REMARK 290 14555 X+1/2,-Y,-Z+3/4 REMARK 290 15555 Y,X,-Z REMARK 290 16555 -Y+1/2,-X+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 61.80400 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 61.80400 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 36.50800 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 61.80400 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 18.25400 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 61.80400 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 54.76200 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 61.80400 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 54.76200 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 61.80400 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 18.25400 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 61.80400 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 61.80400 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 36.50800 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 SMTRY1 9 1.000000 0.000000 0.000000 61.80400 REMARK 290 SMTRY2 9 0.000000 1.000000 0.000000 61.80400 REMARK 290 SMTRY3 9 0.000000 0.000000 1.000000 36.50800 REMARK 290 SMTRY1 10 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 10 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 10 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 11 0.000000 -1.000000 0.000000 61.80400 REMARK 290 SMTRY2 11 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 11 0.000000 0.000000 1.000000 54.76200 REMARK 290 SMTRY1 12 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 12 -1.000000 0.000000 0.000000 61.80400 REMARK 290 SMTRY3 12 0.000000 0.000000 1.000000 18.25400 REMARK 290 SMTRY1 13 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 13 0.000000 1.000000 0.000000 61.80400 REMARK 290 SMTRY3 13 0.000000 0.000000 -1.000000 18.25400 REMARK 290 SMTRY1 14 1.000000 0.000000 0.000000 61.80400 REMARK 290 SMTRY2 14 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 14 0.000000 0.000000 -1.000000 54.76200 REMARK 290 SMTRY1 15 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 15 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 15 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 16 0.000000 -1.000000 0.000000 61.80400 REMARK 290 SMTRY2 16 -1.000000 0.000000 0.000000 61.80400 REMARK 290 SMTRY3 16 0.000000 0.000000 -1.000000 36.50800 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: PQS 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 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 A2063 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2109 LIES ON A SPECIAL POSITION. REMARK 375 HOH A2219 LIES ON A SPECIAL POSITION. REMARK 375 HOH B2121 LIES ON A SPECIAL POSITION. REMARK 400 REMARK 400 COMPOUND REMARK 400 NON-HEME IRON PROTEIN. REMARK 400 CATALYSES SUPEROXIDE ANION + 2 H(+) = H(2)O(2). REMARK 400 COFACTOR: BINDS 1 DESULFOFERRODOXIN-LIKE FES(4) SITE AND 1 REMARK 400 REMARK 400 ENGINEERED MUTATION GLU 47 TO ALA, CHAINS A AND B 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 0 REMARK 465 MET B 0 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 ASN A 125 C ASN A 125 OXT 0.126 REMARK 500 ASN B 125 C ASN B 125 OXT 0.133 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 ARG A 3 NE - CZ - NH2 ANGL. DEV. = -4.8 DEGREES REMARK 500 GLU A 17 OE1 - CD - OE2 ANGL. DEV. = -7.4 DEGREES REMARK 500 ASP A 42 CB - CG - OD2 ANGL. DEV. = -5.7 DEGREES REMARK 500 TYR A 88 CB - CG - CD2 ANGL. DEV. = -4.2 DEGREES REMARK 500 TYR A 88 CB - CG - CD1 ANGL. DEV. = 4.2 DEGREES REMARK 500 ARG A 112 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 ARG B 3 NE - CZ - NH1 ANGL. DEV. = -3.5 DEGREES REMARK 500 ASP B 84 CB - CG - OD2 ANGL. DEV. = 6.3 DEGREES REMARK 500 ASP B 85 CB - CG - OD1 ANGL. DEV. = 6.1 DEGREES REMARK 500 TYR B 88 CB - CG - CD1 ANGL. DEV. = 4.5 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 4 -1.64 79.12 REMARK 500 ASP A 84 -117.54 48.28 REMARK 500 LEU B 4 -6.57 80.26 REMARK 500 HIS B 74 101.43 -162.37 REMARK 500 ASP B 84 -108.43 39.09 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 A2013 DISTANCE = 5.90 ANGSTROMS REMARK 525 HOH B2028 DISTANCE = 7.76 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 CA A1126 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP A 32 OD1 REMARK 620 2 GLU A 25 OE1 88.1 REMARK 620 3 ASP A 32 OD1 162.8 75.3 REMARK 620 4 HOH A2109 O 91.2 88.9 92.8 REMARK 620 5 HOH A2109 O 91.2 88.9 92.8 0.0 REMARK 620 6 GLU A 25 OE1 87.3 162.5 107.3 108.1 108.1 REMARK 620 7 ASP A 32 OD2 49.9 78.3 120.5 138.8 138.8 85.8 REMARK 620 8 ASP A 32 OD2 120.2 73.7 51.2 142.6 142.6 94.2 70.6 REMARK 620 N 1 2 3 4 5 6 7 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 CA A1127 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HOH A2061 O REMARK 620 2 CYS A 87 O 98.5 REMARK 620 3 CYS B 87 O 167.5 86.6 REMARK 620 4 THR B 89 OG1 70.9 80.6 98.9 REMARK 620 5 HOH B2060 O 85.5 166.4 92.1 113.0 REMARK 620 6 THR A 89 OG1 109.2 101.4 80.7 178.0 65.1 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE2 A1131 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 9 SG REMARK 620 2 CYS A 12 SG 111.0 REMARK 620 3 CYS A 28 SG 107.3 106.5 REMARK 620 4 CYS A 29 SG 105.2 104.1 122.6 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE2 A1132 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 115 SG REMARK 620 2 HIS A 48 NE2 114.0 REMARK 620 3 HIS A 68 NE2 99.6 87.6 REMARK 620 4 HIS A 118 ND1 105.9 85.1 154.3 REMARK 620 5 HIS A 74 NE2 90.0 155.9 86.2 90.5 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE2 B1127 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS B 9 SG REMARK 620 2 CYS B 12 SG 108.7 REMARK 620 3 CYS B 28 SG 108.0 104.9 REMARK 620 4 CYS B 29 SG 108.1 106.2 120.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 FE2 B1128 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 118 ND1 REMARK 620 2 HIS B 48 NE2 85.7 REMARK 620 3 HIS B 68 NE2 153.3 88.9 REMARK 620 4 CYS B 115 SG 105.5 113.8 100.6 REMARK 620 5 HIS B 74 NE2 87.7 152.9 85.2 93.4 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 CA A1126 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A1127 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A1128 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A1129 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A1130 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FE2 A1131 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FE2 A1132 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL B1126 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FE2 B1127 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FE2 B1128 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1VZH RELATED DB: PDB REMARK 900 STRUCTURE OF SUPEROXIDE REDUCTASE BOUND TO FERROCYANIDE AND ACTIVE REMARK 900 SITE EXPANSION UPON X-RAY INDUCED PHOTOREDUCTION REMARK 900 RELATED ID: 1VZG RELATED DB: PDB REMARK 900 STRUCTURE OF SUPEROXIDE REDUCTASE BOUND TO FERROCYANIDE AND ACTIVE REMARK 900 SITE EXPANSION UPON X-RAY INDUCED PHOTOREDUCTION DBREF 1VZI A 0 125 UNP Q46495 DESR_DESBR 1 126 DBREF 1VZI B 0 125 UNP Q46495 DESR_DESBR 1 126 SEQADV 1VZI ALA A 46 UNP Q46495 GLU 47 ENGINEERED MUTATION SEQADV 1VZI ALA B 46 UNP Q46495 GLU 47 ENGINEERED MUTATION SEQRES 1 A 126 MET PRO GLU ARG LEU GLN VAL TYR LYS CYS GLU VAL CYS SEQRES 2 A 126 GLY ASN ILE VAL GLU VAL LEU ASN GLY GLY ILE GLY GLU SEQRES 3 A 126 LEU VAL CYS CYS ASN GLN ASP MET LYS LEU MET SER GLU SEQRES 4 A 126 ASN THR VAL ASP ALA ALA LYS ALA LYS HIS VAL PRO VAL SEQRES 5 A 126 ILE GLU LYS ILE ASP GLY GLY TYR LYS VAL LYS VAL GLY SEQRES 6 A 126 ALA VAL ALA HIS PRO MET GLU GLU LYS HIS TYR ILE GLN SEQRES 7 A 126 TRP ILE GLU LEU LEU ALA ASP ASP LYS CYS TYR THR GLN SEQRES 8 A 126 PHE LEU LYS PRO GLY GLN ALA PRO GLU ALA VAL PHE LEU SEQRES 9 A 126 ILE GLU ALA ALA LYS VAL VAL ALA ARG GLU TYR CYS ASN SEQRES 10 A 126 ILE HIS GLY HIS TRP LYS ALA GLU ASN SEQRES 1 B 126 MET PRO GLU ARG LEU GLN VAL TYR LYS CYS GLU VAL CYS SEQRES 2 B 126 GLY ASN ILE VAL GLU VAL LEU ASN GLY GLY ILE GLY GLU SEQRES 3 B 126 LEU VAL CYS CYS ASN GLN ASP MET LYS LEU MET SER GLU SEQRES 4 B 126 ASN THR VAL ASP ALA ALA LYS ALA LYS HIS VAL PRO VAL SEQRES 5 B 126 ILE GLU LYS ILE ASP GLY GLY TYR LYS VAL LYS VAL GLY SEQRES 6 B 126 ALA VAL ALA HIS PRO MET GLU GLU LYS HIS TYR ILE GLN SEQRES 7 B 126 TRP ILE GLU LEU LEU ALA ASP ASP LYS CYS TYR THR GLN SEQRES 8 B 126 PHE LEU LYS PRO GLY GLN ALA PRO GLU ALA VAL PHE LEU SEQRES 9 B 126 ILE GLU ALA ALA LYS VAL VAL ALA ARG GLU TYR CYS ASN SEQRES 10 B 126 ILE HIS GLY HIS TRP LYS ALA GLU ASN HET CA A1126 1 HET CA A1127 1 HET CL A1128 1 HET CL A1129 1 HET CL A1130 1 HET FE2 A1131 1 HET FE2 A1132 1 HET CL B1126 2 HET FE2 B1127 1 HET FE2 B1128 1 HETNAM CA CALCIUM ION HETNAM CL CHLORIDE ION HETNAM FE2 FE (II) ION FORMUL 3 CA 2(CA 2+) FORMUL 5 CL 4(CL 1-) FORMUL 8 FE2 4(FE 2+) FORMUL 13 HOH *518(H2 O) HELIX 1 1 ALA A 44 VAL A 49 1 6 HELIX 2 2 ALA B 44 VAL B 49 1 6 SHEET 1 AA 6 LYS A 34 LEU A 35 0 SHEET 2 AA 6 VAL A 6 LYS A 8 -1 O LYS A 8 N LYS A 34 SHEET 3 AA 6 ILE A 15 ASN A 20 -1 O VAL A 16 N TYR A 7 SHEET 4 AA 6 ILE B 15 ASN B 20 -1 O ILE B 15 N LEU A 19 SHEET 5 AA 6 VAL B 6 LYS B 8 -1 O TYR B 7 N VAL B 16 SHEET 6 AA 6 LYS B 34 LEU B 35 -1 O LYS B 34 N LYS B 8 SHEET 1 AB 4 GLN A 31 ASP A 32 0 SHEET 2 AB 4 LEU A 26 CYS A 28 -1 O CYS A 28 N GLN A 31 SHEET 3 AB 4 LEU B 26 CYS B 28 -1 O VAL B 27 N VAL A 27 SHEET 4 AB 4 GLN B 31 ASP B 32 -1 O GLN B 31 N CYS B 28 SHEET 1 AC 3 PRO A 50 ILE A 55 0 SHEET 2 AC 3 GLY A 58 VAL A 63 -1 O GLY A 58 N ILE A 55 SHEET 3 AC 3 GLU A 99 LEU A 103 -1 O ALA A 100 N VAL A 61 SHEET 1 AD 8 GLY A 119 GLU A 124 0 SHEET 2 AD 8 VAL A 110 CYS A 115 -1 O ALA A 111 N ALA A 123 SHEET 3 AD 8 ILE A 76 ALA A 83 -1 N GLN A 77 O TYR A 114 SHEET 4 AD 8 LYS A 86 PHE A 91 -1 O LYS A 86 N ALA A 83 SHEET 5 AD 8 LYS B 86 PHE B 91 -1 O CYS B 87 N THR A 89 SHEET 6 AD 8 ILE B 76 ALA B 83 -1 O ILE B 79 N GLN B 90 SHEET 7 AD 8 VAL B 110 CYS B 115 -1 O VAL B 110 N LEU B 82 SHEET 8 AD 8 GLY B 119 GLU B 124 -1 O GLY B 119 N CYS B 115 SHEET 1 BA 3 PRO B 50 ILE B 55 0 SHEET 2 BA 3 GLY B 58 VAL B 63 -1 O GLY B 58 N ILE B 55 SHEET 3 BA 3 GLU B 99 PHE B 102 -1 O ALA B 100 N VAL B 61 LINK CA CA A1126 OD1 ASP A 32 1555 6554 2.56 LINK CA CA A1126 OE1 GLU A 25 1555 1555 2.85 LINK CA CA A1126 OD1 ASP A 32 1555 1555 2.50 LINK CA CA A1126 O HOH A2109 1555 1555 2.33 LINK CA CA A1126 O HOH A2109 1555 6554 2.33 LINK CA CA A1126 OE1 GLU A 25 1555 6554 2.17 LINK CA CA A1126 OD2 ASP A 32 1555 6554 2.50 LINK CA CA A1126 OD2 ASP A 32 1555 1555 2.45 LINK CA CA A1127 O HOH A2061 1555 1555 2.81 LINK CA CA A1127 O CYS A 87 1555 1555 2.80 LINK CA CA A1127 O CYS B 87 1555 1555 2.87 LINK CA CA A1127 OG1 THR B 89 1555 1555 2.78 LINK CA CA A1127 O HOH B2060 1555 1555 2.61 LINK CA CA A1127 OG1 THR A 89 1555 1555 2.78 LINK FE FE2 A1131 SG CYS A 9 1555 1555 2.35 LINK FE FE2 A1131 SG CYS A 12 1555 1555 2.36 LINK FE FE2 A1131 SG CYS A 28 1555 1555 2.30 LINK FE FE2 A1131 SG CYS A 29 1555 1555 2.33 LINK FE FE2 A1132 SG CYS A 115 1555 1555 2.36 LINK FE FE2 A1132 NE2 HIS A 48 1555 1555 2.19 LINK FE FE2 A1132 NE2 HIS A 68 1555 1555 2.15 LINK FE FE2 A1132 ND1 HIS A 118 1555 1555 2.15 LINK FE FE2 A1132 NE2 HIS A 74 1555 1555 2.25 LINK FE FE2 B1127 SG CYS B 9 1555 1555 2.30 LINK FE FE2 B1127 SG CYS B 12 1555 1555 2.33 LINK FE FE2 B1127 SG CYS B 28 1555 1555 2.31 LINK FE FE2 B1127 SG CYS B 29 1555 1555 2.30 LINK FE FE2 B1128 ND1 HIS B 118 1555 1555 2.19 LINK FE FE2 B1128 NE2 HIS B 48 1555 1555 2.17 LINK FE FE2 B1128 NE2 HIS B 68 1555 1555 2.17 LINK FE FE2 B1128 SG CYS B 115 1555 1555 2.36 LINK FE FE2 B1128 NE2 HIS B 74 1555 1555 2.20 CISPEP 1 VAL A 63 GLY A 64 0 -5.94 CISPEP 2 VAL B 63 GLY B 64 0 -5.63 SITE 1 AC1 3 GLU A 25 ASP A 32 HOH A2109 SITE 1 AC2 6 CYS A 87 THR A 89 HOH A2061 CYS B 87 SITE 2 AC2 6 THR B 89 HOH B2060 SITE 1 AC3 4 HIS A 48 HIS A 74 HOH A2139 HOH A2149 SITE 1 AC4 5 GLY A 21 CL A1130 HOH A2008 HOH A2073 SITE 2 AC4 5 LYS B 73 SITE 1 AC5 4 GLU A 2 ARG A 3 CL A1129 HOH A2012 SITE 1 AC6 4 CYS A 9 CYS A 12 CYS A 28 CYS A 29 SITE 1 AC7 5 HIS A 48 HIS A 68 HIS A 74 CYS A 115 SITE 2 AC7 5 HIS A 118 SITE 1 AC8 6 ASN A 30 ALA B 44 HIS B 48 HIS B 118 SITE 2 AC8 6 HOH B2150 HOH B2157 SITE 1 AC9 4 CYS B 9 CYS B 12 CYS B 28 CYS B 29 SITE 1 BC1 5 HIS B 48 HIS B 68 HIS B 74 CYS B 115 SITE 2 BC1 5 HIS B 118 CRYST1 123.608 123.608 73.016 90.00 90.00 90.00 I 41 2 2 32 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 0.008090 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008090 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013696 0.00000