HEADER OXIDOREDUCTASE (H2O2(A)) 03-JUL-95 1CYF TITLE IDENTIFYING THE PHYSIOLOGICAL ELECTRON TRANSFER SITE OF CYTOCHROME C TITLE 2 PEROXIDASE BY STRUCTURE-BASED ENGINEERING 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; COMPND 6 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 4 ORGANISM_TAXID: 4932; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS OXIDOREDUCTASE (H2O2(A)) EXPDTA X-RAY DIFFRACTION AUTHOR M.A.MILLER,G.W.HAN,J.KRAUT REVDAT 5 07-FEB-24 1CYF 1 REMARK REVDAT 4 03-NOV-21 1CYF 1 REMARK SEQADV LINK REVDAT 3 29-NOV-17 1CYF 1 HELIX REVDAT 2 24-FEB-09 1CYF 1 VERSN REVDAT 1 07-DEC-95 1CYF 0 JRNL AUTH M.A.MILLER,L.GEREN,G.W.HAN,A.SAUNDERS,J.BEASLEY,G.J.PIELAK, JRNL AUTH 2 B.DURHAM,F.MILLETT,J.KRAUT JRNL TITL IDENTIFYING THE PHYSIOLOGICAL ELECTRON TRANSFER SITE OF JRNL TITL 2 CYTOCHROME C PEROXIDASE BY STRUCTURE-BASED ENGINEERING. JRNL REF BIOCHEMISTRY V. 35 667 1996 JRNL REFN ISSN 0006-2960 JRNL PMID 8547245 JRNL DOI 10.1021/BI952557A 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 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. 2.35 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) : 2.35 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 84.0 REMARK 3 NUMBER OF REFLECTIONS : 12243 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) : 0.166 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 : 2362 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 43 REMARK 3 SOLVENT ATOMS : 152 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) : 0.010 ; 1.000 ; 2480 REMARK 3 BOND ANGLES (DEGREES) : 2.900 ; 1.350 ; 3342 REMARK 3 TORSION ANGLES (DEGREES) : 16.600; 0.000 ; 1407 REMARK 3 PSEUDOROTATION ANGLES (DEGREES) : NULL ; NULL ; NULL REMARK 3 TRIGONAL CARBON PLANES (A) : 0.020 ; 1.000 ; 75 REMARK 3 GENERAL PLANES (A) : 0.006 ; 10.000; 354 REMARK 3 ISOTROPIC THERMAL FACTORS (A**2) : 3.890 ; 0.040 ; 2480 REMARK 3 NON-BONDED CONTACTS (A) : 0.023 ; 10.000; 67 REMARK 3 REMARK 3 INCORRECT CHIRAL-CENTERS (COUNT) : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : MOEW & KRETSINGER, JMB 91, 211-228 (1975) REMARK 3 KSOL : 0.67 REMARK 3 BSOL : 91.17 REMARK 3 REMARK 3 RESTRAINT LIBRARIES. REMARK 3 STEREOCHEMISTRY : D.E. TRONRUD ET AL., ACTA CRYST. A43, 489 REMARK 3 (1987) REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS : 0 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 THE ADDITION OF A BULKY GROUP AT POSITION 193 MAKES IT REMARK 3 IMPOSSIBLE FOR THE ENZYME TO CRYSTALLIZE IN A FORM THAT IS REMARK 3 ISOMORPHOUS WITH THE CCP(MI) PARENT. THIS IS BECAUSE CB OF REMARK 3 ALA 193 IN THE PARENT MAKES A CRYSTAL CONTACT WITH THE SIDE REMARK 3 CHAIN OF THR 275. THE MUTANT ENZYME ADOPTS A NEW CRYSTAL REMARK 3 PACKING THAT ALLOWS RESIDUE 193 TO PROJECT INTO AN REMARK 3 OTHERWISE UNOCCUPIED AREA. REMARK 3 REMARK 3 THE MODEL WAS CREATED INITIALLY USING MOLECULAR REPLACEMENT REMARK 3 WITH THE CCP(MI) PARENT AS THE SEARCH MODEL. TRANSLATION REMARK 3 FUNCTIONS WERE CALCULATED BY SAMPLING A TRANSLATION VECTOR REMARK 3 ON A 1 ANGSTROM GRID, UTILIZING DATA BETWEEN 8 AND 4 REMARK 3 ANGSTROM RESOLUTION. THE TRANSLATION VECTOR WAS FURTHER REMARK 3 REFINED BY AN R-FACTOR MINIMIZATION PROCEDURE WITH STEPS OF REMARK 3 0.1 ANGSTROM, RESULTING IN AN R-FACTOR OF 0.283 FOR DATA TO REMARK 3 4 ANGSTROMS RESOLUTION. REMARK 3 REMARK 3 UNLIKE THE CCP(MI) PARENT, COORDINATES FOR RESIDUES -1, 0, REMARK 3 AND 1 - 3 ARE INCLUDED IN THIS ENTRY BECAUSE THESE RESIDUES REMARK 3 COULD BE RESOLVED IN THE FINAL ELECTRON DENSITY MAPS. REMARK 3 WATER MOLECULES WITH B-FACTORS GREATER THAN 80. WERE NOT REMARK 3 INCLUDED. REMARK 4 REMARK 4 1CYF 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_1000172598. 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 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 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 (%): 50.66 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.49 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 50.66500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 22.50000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 36.94000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 22.50000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 50.66500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 36.94000 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 SIDE CHAIN AT CYS 193 IS DISORDERED, AND NO REMARK 400 INTERPRETABLE DENSITY WAS FOUND BEYOND SG OF CYS 193. REMARK 400 HOWEVER, THE PRESENCE OF THE SIDE CHAIN WAS CONFIRMED REMARK 400 UNAMBIGUOUSLY USING ELECTROSPRAY MASS SPECTROSCOPY. 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 THR A 2 CB OG1 CG2 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 226 CD CE NZ REMARK 470 LYS A 243 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: 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 C MET A 163 O HOH A 700 1554 0.94 REMARK 500 CA MET A 163 O HOH A 700 1554 1.44 REMARK 500 N ASN A 164 O HOH A 700 1554 1.58 REMARK 500 CB MET A 163 O HOH A 700 1554 1.86 REMARK 500 O MET A 163 O HOH A 700 1554 1.86 REMARK 500 REMARK 500 REMARK: NULL 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 221 CD GLU A 221 OE2 0.069 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 LEU A 4 CB - CA - C ANGL. DEV. = -13.3 DEGREES REMARK 500 ASP A 18 CB - CG - OD2 ANGL. DEV. = -6.6 DEGREES REMARK 500 ASP A 34 CB - CG - OD1 ANGL. DEV. = 8.5 DEGREES REMARK 500 ASP A 34 CB - CG - OD2 ANGL. DEV. = -7.2 DEGREES REMARK 500 ARG A 48 NE - CZ - NH2 ANGL. DEV. = -3.8 DEGREES REMARK 500 ASP A 58 CB - CG - OD1 ANGL. DEV. = 6.8 DEGREES REMARK 500 ASP A 58 CB - CG - OD2 ANGL. DEV. = -7.1 DEGREES REMARK 500 ASP A 61 CB - CG - OD1 ANGL. DEV. = 6.3 DEGREES REMARK 500 ASP A 61 CB - CG - OD2 ANGL. DEV. = -8.6 DEGREES REMARK 500 ASP A 79 CB - CG - OD2 ANGL. DEV. = -5.4 DEGREES REMARK 500 ASP A 106 CB - CG - OD2 ANGL. DEV. = -6.5 DEGREES REMARK 500 ARG A 127 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 ARG A 127 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 ASP A 146 CB - CG - OD1 ANGL. DEV. = 5.5 DEGREES REMARK 500 ASP A 146 CB - CG - OD2 ANGL. DEV. = -6.4 DEGREES REMARK 500 ASP A 150 CB - CG - OD2 ANGL. DEV. = -6.6 DEGREES REMARK 500 TYR A 187 N - CA - CB ANGL. DEV. = 12.1 DEGREES REMARK 500 PRO A 190 C - N - CA ANGL. DEV. = 9.3 DEGREES REMARK 500 TYR A 236 CB - CG - CD1 ANGL. DEV. = -4.2 DEGREES REMARK 500 TYR A 244 CB - CG - CD2 ANGL. DEV. = 3.7 DEGREES REMARK 500 ILE A 247 CB - CA - C ANGL. DEV. = 12.4 DEGREES REMARK 500 ASP A 254 CB - CG - OD2 ANGL. DEV. = -7.2 DEGREES REMARK 500 ASP A 256 CB - CG - OD2 ANGL. DEV. = -6.6 DEGREES REMARK 500 PRO A 283 C - N - CD ANGL. DEV. = -12.7 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 TYR A 67 -67.58 -28.14 REMARK 500 ASN A 195 33.35 -87.61 REMARK 500 ASN A 196 15.60 -157.34 REMARK 500 ASN A 219 10.80 81.54 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 100.5 REMARK 620 3 HEM A 296 NB 85.1 87.8 REMARK 620 4 HEM A 296 NC 82.3 175.3 88.8 REMARK 620 5 HEM A 296 ND 101.3 90.7 173.5 92.4 REMARK 620 6 HOH A 295 O 164.5 86.5 81.3 89.9 92.4 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 HEM A 296 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1CCP RELATED DB: PDB REMARK 900 NATIVE STRUCTURE 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 1CYF A 1 294 UNP P00431 CCPR_YEAST 68 361 SEQADV 1CYF ILE A 53 UNP P00431 THR 120 VARIANT SEQADV 1CYF ALA A 128 UNP P00431 CYS 195 ENGINEERED MUTATION SEQADV 1CYF GLY A 152 UNP P00431 ASP 219 VARIANT SEQADV 1CYF CYS A 193 UNP P00431 ALA 260 ENGINEERED MUTATION 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 ALA 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 TRP GLY CYS 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 HEM A 296 43 HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETSYN HEM HEME FORMUL 2 HEM C34 H32 FE N4 O4 FORMUL 3 HOH *152(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 HIS A 6 VAL A 7 0 SHEET 2 A 2 ILE A 274 THR A 275 1 N THR A 275 O HIS A 6 SHEET 1 B 2 LYS A 179 THR A 180 0 SHEET 2 B 2 GLY A 189 PRO A 190 -1 O GLY A 189 N THR A 180 SHEET 1 C 3 TRP A 211 LYS A 215 0 SHEET 2 C 3 GLU A 221 SER A 225 -1 O GLN A 222 N GLU A 214 SHEET 3 C 3 MET A 230 MET A 231 -1 O MET A 231 N TRP A 223 LINK NE2 HIS A 175 FE HEM A 296 1555 1555 2.13 LINK O HOH A 295 FE HEM A 296 1555 1555 1.80 SITE 1 AC1 21 PRO A 44 ARG A 48 TRP A 51 ASP A 146 SITE 2 AC1 21 LEU A 171 ALA A 174 HIS A 175 LEU A 177 SITE 3 AC1 21 GLY A 178 LYS A 179 HIS A 181 ASN A 184 SITE 4 AC1 21 SER A 185 TRP A 191 LEU A 232 THR A 234 SITE 5 AC1 21 HOH A 295 HOH A 348 HOH A 648 HOH A 895 SITE 6 AC1 21 HOH A 896 CRYST1 101.330 73.880 45.000 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 0.009869 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013535 0.000000 0.00000 SCALE3 0.000000 0.000000 0.022222 0.00000