PDB Short entry for 1CPD HEADER OXIDOREDUCTASE(H2O2(A)) 18-AUG-94 1CPD TITLE A CATION BINDING MOTIF STABILIZES THE COMPOUND I RADICAL OF CYTOCHROME TITLE 2 C PEROXIDASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYTOCHROME C PEROXIDASE; COMPND 3 CHAIN: A; COMPND 4 EC: 1.11.1.5; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 4 ORGANISM_TAXID: 4932 KEYWDS OXIDOREDUCTASE(H2O2(A)) EXPDTA X-RAY DIFFRACTION AUTHOR M.A.MILLER,G.W.HAN,J.KRAUT REVDAT 4 07-FEB-24 1CPD 1 REMARK SEQADV LINK REVDAT 3 29-NOV-17 1CPD 1 HELIX REVDAT 2 24-FEB-09 1CPD 1 VERSN REVDAT 1 01-NOV-94 1CPD 0 JRNL AUTH M.A.MILLER,G.W.HAN,J.KRAUT JRNL TITL A CATION BINDING MOTIF STABILIZES THE COMPOUND I RADICAL OF JRNL TITL 2 CYTOCHROME C PEROXIDASE. JRNL REF PROC.NATL.ACAD.SCI.USA V. 91 11118 1994 JRNL REFN ISSN 0027-8424 JRNL PMID 7972020 JRNL DOI 10.1073/PNAS.91.23.11118 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH J.WANG,J.M.MAURO,S.L.EDWARDS,S.J.OATLEY,L.A.FISHEL, REMARK 1 AUTH 2 V.A.ASHFORD,N.-H.XUONG,J.KRAUT REMARK 1 TITL X-RAY STRUCTURES OF RECOMBINANT YEAST CYTOCHROME C REMARK 1 TITL 2 PEROXIDASE AND THREE HEME CLEFT MUTANTS PREPARED BY REMARK 1 TITL 3 SITE-DIRECTED MUTAGENESIS REMARK 1 REF BIOCHEMISTRY V. 29 7160 1990 REMARK 1 REFN ISSN 0006-2960 REMARK 1 REFERENCE 2 REMARK 1 AUTH L.A.FISHEL,J.E.VILLAFRANCA,J.M.MAURO,J.KRAUT REMARK 1 TITL YEAST CYTOCHROME C PEROXIDASE: MUTAGENESIS AND EXPRESSION IN REMARK 1 TITL 2 ESCHERICHIA COLI SHOW TRYPTOPHAN-51 IS NOT THE RADICAL SITE REMARK 1 TITL 3 IN COMPOUND I REMARK 1 REF BIOCHEMISTRY V. 26 351 1987 REMARK 1 REFN ISSN 0006-2960 REMARK 1 REFERENCE 3 REMARK 1 AUTH B.C.FINZEL,T.L.POULOS,J.KRAUT REMARK 1 TITL CRYSTAL STRUCTURE OF YEAST CYTOCHROME C PEROXIDASE REFINED REMARK 1 TITL 2 AT 1.7 ANGSTROMS RESOLUTION REMARK 1 REF J.BIOL.CHEM. V. 259 13027 1984 REMARK 1 REFN ISSN 0021-9258 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : TNT REMARK 3 AUTHORS : TRONRUD,TEN EYCK,MATTHEWS REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 20136 REMARK 3 REMARK 3 USING DATA ABOVE SIGMA CUTOFF. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : 0.164 REMARK 3 R VALUE (WORKING SET) : NULL REMARK 3 FREE R VALUE : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 REMARK 3 USING ALL DATA, NO SIGMA CUTOFF. REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : NULL 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) : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2318 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 44 REMARK 3 SOLVENT ATOMS : 216 REMARK 3 REMARK 3 WILSON B VALUE (FROM FCALC, A**2) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. RMS WEIGHT COUNT REMARK 3 BOND LENGTHS (A) : 0.012 ; NULL ; NULL REMARK 3 BOND ANGLES (DEGREES) : 2.720 ; NULL ; NULL REMARK 3 TORSION ANGLES (DEGREES) : NULL ; NULL ; NULL REMARK 3 PSEUDOROTATION ANGLES (DEGREES) : NULL ; NULL ; NULL REMARK 3 TRIGONAL CARBON PLANES (A) : NULL ; NULL ; NULL REMARK 3 GENERAL PLANES (A) : NULL ; NULL ; NULL REMARK 3 ISOTROPIC THERMAL FACTORS (A**2) : NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS (A) : NULL ; NULL ; NULL REMARK 3 REMARK 3 INCORRECT CHIRAL-CENTERS (COUNT) : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL REMARK 3 REMARK 3 RESTRAINT LIBRARIES. REMARK 3 STEREOCHEMISTRY : NULL REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 COORDINATES FOR RESIDUES -1, 0, AND 1 - 3 ARE NOT INCLUDED REMARK 3 IN THIS ENTRY BECAUSE THESE RESIDUES COULD NOT BE RESOLVED REMARK 3 IN THE FINAL ELECTRON DENSITY MAPS. WATER MOLECULES WITH REMARK 3 B-FACTORS GREATER THAN 80 WERE NOT INCLUDED IN THE MODEL. REMARK 4 REMARK 4 1CPD COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 100 THE DEPOSITION ID IS D_1000172452. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : NULL REMARK 200 RADIATION SOURCE : NULL REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : NULL REMARK 200 RESOLUTION RANGE HIGH (A) : NULL REMARK 200 RESOLUTION RANGE LOW (A) : NULL REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : NULL 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 (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.87 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.61 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL 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 52.50000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 22.55000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 37.10000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 22.55000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 52.50000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 37.10000 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 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 400 REMARK 400 COMPOUND REMARK 400 THE TRP 191 TO GLY SUBSTITUTION CREATES A CAVITY OF REMARK 400 SIGNIFICANT SIZE WITHIN THE ENZYME. THIS STRUCTURE HAS A REMARK 400 SINGLE AMMONIUM ION (NH4+) AND FOUR WATER MOLECULES BOUND REMARK 400 IN THE CAVITY. 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 ILE A 0 REMARK 465 THR A 1 REMARK 465 THR A 2 REMARK 465 PRO A 3 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LYS A 12 NZ REMARK 470 GLU A 35 CD OE1 OE2 REMARK 470 LYS A 74 CE NZ REMARK 470 LYS A 90 CD CE NZ REMARK 470 LYS A 97 CD CE NZ REMARK 470 LYS A 183 CE NZ REMARK 470 LYS A 226 CD CE NZ REMARK 470 LYS A 260 CE NZ REMARK 470 LYS A 278 CD CE NZ 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 GLU A 188 CD GLU A 188 OE1 0.071 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 ASP A 18 CB - CG - OD1 ANGL. DEV. = -6.1 DEGREES REMARK 500 ASP A 18 CB - CG - OD2 ANGL. DEV. = 5.8 DEGREES REMARK 500 ASP A 33 CB - CG - OD1 ANGL. DEV. = -6.0 DEGREES REMARK 500 ASP A 33 CB - CG - OD2 ANGL. DEV. = 7.0 DEGREES REMARK 500 ASP A 34 CB - CG - OD1 ANGL. DEV. = 5.8 DEGREES REMARK 500 ASP A 34 CB - CG - OD2 ANGL. DEV. = -5.5 DEGREES REMARK 500 ARG A 48 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 ASP A 58 CB - CG - OD1 ANGL. DEV. = 6.2 DEGREES REMARK 500 ASP A 58 CB - CG - OD2 ANGL. DEV. = -6.8 DEGREES REMARK 500 ASP A 79 CB - CG - OD1 ANGL. DEV. = 6.2 DEGREES REMARK 500 ASP A 79 CB - CG - OD2 ANGL. DEV. = -6.7 DEGREES REMARK 500 ARG A 127 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 ARG A 130 NE - CZ - NH1 ANGL. DEV. = 5.7 DEGREES REMARK 500 ARG A 130 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES REMARK 500 ASP A 132 CB - CG - OD1 ANGL. DEV. = 6.5 DEGREES REMARK 500 ASP A 132 CB - CG - OD2 ANGL. DEV. = -8.5 DEGREES REMARK 500 ASP A 136 CB - CG - OD1 ANGL. DEV. = 7.0 DEGREES REMARK 500 ASP A 136 CB - CG - OD2 ANGL. DEV. = -7.2 DEGREES REMARK 500 ARG A 143 NE - CZ - NH2 ANGL. DEV. = -4.6 DEGREES REMARK 500 ASP A 146 CB - CG - OD2 ANGL. DEV. = -6.0 DEGREES REMARK 500 ASP A 150 CB - CG - OD1 ANGL. DEV. = 7.8 DEGREES REMARK 500 ASP A 150 CB - CG - OD2 ANGL. DEV. = -8.0 DEGREES REMARK 500 ASP A 165 CB - CG - OD2 ANGL. DEV. = -5.7 DEGREES REMARK 500 ARG A 166 NE - CZ - NH1 ANGL. DEV. = 5.5 DEGREES REMARK 500 ARG A 166 NE - CZ - NH2 ANGL. DEV. = -3.8 DEGREES REMARK 500 ASP A 210 CB - CG - OD1 ANGL. DEV. = -7.5 DEGREES REMARK 500 ASP A 210 CB - CG - OD2 ANGL. DEV. = 6.5 DEGREES REMARK 500 TYR A 229 CB - CG - CD2 ANGL. DEV. = -4.5 DEGREES REMARK 500 ASP A 254 CB - CG - OD2 ANGL. DEV. = -7.9 DEGREES REMARK 500 ASP A 256 CB - CG - OD2 ANGL. DEV. = -10.9 DEGREES REMARK 500 ASP A 279 CB - CG - OD2 ANGL. DEV. = -6.1 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 SER A 15 -165.86 -128.53 REMARK 500 ASP A 33 52.16 -91.04 REMARK 500 TYR A 36 135.13 -39.12 REMARK 500 ASP A 148 45.03 -98.44 REMARK 500 LYS A 149 -168.36 -129.12 REMARK 500 ASN A 219 30.51 74.57 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 HEM A 296 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 175 NE2 REMARK 620 2 HEM A 296 NA 97.1 REMARK 620 3 HEM A 296 NB 99.5 85.6 REMARK 620 4 HEM A 296 NC 80.5 177.6 95.2 REMARK 620 5 HEM A 296 ND 87.7 89.0 171.5 90.4 REMARK 620 6 HOH A 595 O 174.7 77.8 81.8 104.5 90.7 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 NH4 A 975 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HEM A 296 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1CCP RELATED DB: PDB REMARK 900 NATIVE REMARK 900 RELATED ID: 2CCP RELATED DB: PDB REMARK 900 D235N REMARK 900 RELATED ID: 3CCP RELATED DB: PDB REMARK 900 W191F REMARK 900 RELATED ID: 4CCP RELATED DB: PDB REMARK 900 W51F REMARK 900 RELATED ID: 1CPE RELATED DB: PDB REMARK 900 RELATED ID: 1CPF RELATED DB: PDB REMARK 900 RELATED ID: 1CPG RELATED DB: PDB REMARK 900 RELATED ID: 1BEJ RELATED DB: PDB REMARK 900 RELATED ID: 1BEM RELATED DB: PDB REMARK 900 RELATED ID: 1BEQ RELATED DB: PDB REMARK 900 RELATED ID: 1BES RELATED DB: PDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THIS CYTOCHROME C PEROXIDASE DIFFERS FROM A PREVIOUSLY REMARK 999 DEPOSITED STRUCTURE (PROTEIN DATA BANK ENTRY 2CYP) BY REMARK 999 TWO STRAIN-RELATED SEQUENCE DIFFERENCES - THR 53 TO ILE REMARK 999 AND ASP 152 TO GLY, AND THE ADDITION OF MET-ILE AT THE REMARK 999 N-TERMINUS, HENCE CCP(MI). THE OVERALL STRUCTURE IS THE REMARK 999 SAME AS THE PREVIOUSLY DEPOSITED ONE BUT IN A DIFFERENT REMARK 999 SPACE GROUP. REMARK 999 REMARK 999 THE SEQUENCE DIFFERS FROM THAT REPORTED FOR 2CYP AT RESIDUE REMARK 999 272. IN THE PRESENT ENTRY, THIS RESIDUE IS REPORTED AS REMARK 999 ASN. THIS CORRECTS AN ERROR INTRODUCED IN 2CYP, WHERE THE REMARK 999 RESIDUE IS INCORRECTLY REPORTED TO BE ASP. REMARK 999 REMARK 999 RESIDUES ARE NUMBERED TO BE CONSISTENT WITH THE SEQUENCE OF REMARK 999 THE NATIVE (2CYP) STRUCTURE. THUS THE FIRST TWO RESIDUES REMARK 999 HAVE RESIDUE NUMBERS -1 AND 0, RESPECTIVELY. DBREF 1CPD A 1 294 UNP P00431 CCPR_YEAST 68 361 SEQADV 1CPD ILE A 53 UNP P00431 THR 120 CONFLICT SEQADV 1CPD GLY A 152 UNP P00431 ASP 219 CONFLICT SEQADV 1CPD GLY A 191 UNP P00431 TRP 258 CONFLICT SEQRES 1 A 296 MET ILE THR THR PRO LEU VAL HIS VAL ALA SER VAL GLU SEQRES 2 A 296 LYS GLY ARG SER TYR GLU ASP PHE GLN LYS VAL TYR ASN SEQRES 3 A 296 ALA ILE ALA LEU LYS LEU ARG GLU ASP ASP GLU TYR ASP SEQRES 4 A 296 ASN TYR ILE GLY TYR GLY PRO VAL LEU VAL ARG LEU ALA SEQRES 5 A 296 TRP HIS ILE SER GLY THR TRP ASP LYS HIS ASP ASN THR SEQRES 6 A 296 GLY GLY SER TYR GLY GLY THR TYR ARG PHE LYS LYS GLU SEQRES 7 A 296 PHE ASN ASP PRO SER ASN ALA GLY LEU GLN ASN GLY PHE SEQRES 8 A 296 LYS PHE LEU GLU PRO ILE HIS LYS GLU PHE PRO TRP ILE SEQRES 9 A 296 SER SER GLY ASP LEU PHE SER LEU GLY GLY VAL THR ALA SEQRES 10 A 296 VAL GLN GLU MET GLN GLY PRO LYS ILE PRO TRP ARG CYS SEQRES 11 A 296 GLY ARG VAL ASP THR PRO GLU ASP THR THR PRO ASP ASN SEQRES 12 A 296 GLY ARG LEU PRO ASP ALA ASP LYS ASP ALA GLY TYR VAL SEQRES 13 A 296 ARG THR PHE PHE GLN ARG LEU ASN MET ASN ASP ARG GLU SEQRES 14 A 296 VAL VAL ALA LEU MET GLY ALA HIS ALA LEU GLY LYS THR SEQRES 15 A 296 HIS LEU LYS ASN SER GLY TYR GLU GLY PRO GLY GLY ALA SEQRES 16 A 296 ALA ASN ASN VAL PHE THR ASN GLU PHE TYR LEU ASN LEU SEQRES 17 A 296 LEU ASN GLU ASP TRP LYS LEU GLU LYS ASN ASP ALA ASN SEQRES 18 A 296 ASN GLU GLN TRP ASP SER LYS SER GLY TYR MET MET LEU SEQRES 19 A 296 PRO THR ASP TYR SER LEU ILE GLN ASP PRO LYS TYR LEU SEQRES 20 A 296 SER ILE VAL LYS GLU TYR ALA ASN ASP GLN ASP LYS PHE SEQRES 21 A 296 PHE LYS ASP PHE SER LYS ALA PHE GLU LYS LEU LEU GLU SEQRES 22 A 296 ASN GLY ILE THR PHE PRO LYS ASP ALA PRO SER PRO PHE SEQRES 23 A 296 ILE PHE LYS THR LEU GLU GLU GLN GLY LEU HET NH4 A 975 1 HET HEM A 296 43 HETNAM NH4 AMMONIUM ION HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETSYN HEM HEME FORMUL 2 NH4 H4 N 1+ FORMUL 3 HEM C34 H32 FE N4 O4 FORMUL 4 HOH *216(H2 O) HELIX 1 A SER A 15 ASP A 33 1 19 HELIX 2 B TYR A 42 SER A 54 1 13 HELIX 3 B1 PHE A 73 ASN A 78 1 6 HELIX 4 C GLY A 84 PHE A 99 1BENT AT PRO 94 16 HELIX 5 D SER A 103 MET A 119 1 17 HELIX 6 E ASP A 150 PHE A 158 1 9 HELIX 7 F ASN A 164 LEU A 177 1 14 HELIX 8 F1 HIS A 181 GLY A 186 1 6 HELIX 9 G GLU A 201 GLU A 209 1 9 HELIX 10 H LEU A 232 GLN A 240 1 9 HELIX 11 I ASP A 241 ASN A 253 1 13 HELIX 12 J GLN A 255 ASN A 272 1 18 HELIX 13 J1 THR A 288 GLY A 293 1 6 SHEET 1 A 2 LYS A 179 THR A 180 0 SHEET 2 A 2 GLY A 189 PRO A 190 -1 O GLY A 189 N THR A 180 SHEET 1 B 3 TRP A 211 LYS A 215 0 SHEET 2 B 3 GLU A 221 SER A 225 -1 O GLN A 222 N GLU A 214 SHEET 3 B 3 MET A 230 MET A 231 -1 N MET A 231 O TRP A 223 LINK NE2 HIS A 175 FE HEM A 296 1555 1555 2.10 LINK FE HEM A 296 O HOH A 595 1555 1555 2.23 SITE 1 AC1 5 HIS A 175 LEU A 177 LYS A 179 HOH A 976 SITE 2 AC1 5 HOH A 979 SITE 1 AC2 19 PRO A 44 ARG A 48 TRP A 51 ASP A 146 SITE 2 AC2 19 ALA A 147 LEU A 171 ALA A 174 HIS A 175 SITE 3 AC2 19 LEU A 177 GLY A 178 LYS A 179 THR A 180 SITE 4 AC2 19 HIS A 181 ASN A 184 SER A 185 HOH A 348 SITE 5 AC2 19 HOH A 595 HOH A 895 HOH A 896 CRYST1 105.000 74.200 45.100 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 0.009524 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013477 0.000000 0.00000 SCALE3 0.000000 0.000000 0.022173 0.00000