HEADER OXIDOREDUCTASE/ELECTRON TRANSPORT 15-SEP-05 2B12 TITLE CRYSTAL STRUCTURE OF THE PROTEIN-PROTEIN COMPLEX BETWEEN F82Y TITLE 2 CYTOCHROME C AND CYTOCHROME C PEROXIDASE COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYTOCHROME C PEROXIDASE, MITOCHONDRIAL; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: CCP; COMPND 5 EC: 1.11.1.5; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: CYTOCHROME C ISO-1; COMPND 9 CHAIN: B; COMPND 10 ENGINEERED: YES; COMPND 11 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 GENE: CCP1, CCP, CPO; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 10 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 11 ORGANISM_TAXID: 4932; SOURCE 12 GENE: CYC1; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS CYTOCHROME, ELECTRON TRANSFER, OXIDOREDUCTASE-ELECTRON TRANSPORT KEYWDS 2 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR S.A.KANG,B.R.CRANE REVDAT 7 20-OCT-21 2B12 1 SEQADV REVDAT 6 03-MAR-21 2B12 1 COMPND REMARK HET HETNAM REVDAT 6 2 1 HETSYN FORMUL LINK ATOM REVDAT 5 11-OCT-17 2B12 1 REMARK REVDAT 4 13-JUL-11 2B12 1 VERSN REVDAT 3 24-FEB-09 2B12 1 VERSN REVDAT 2 22-NOV-05 2B12 1 JRNL REVDAT 1 25-OCT-05 2B12 0 JRNL AUTH S.A.KANG,B.R.CRANE JRNL TITL EFFECTS OF INTERFACE MUTATIONS ON ASSOCIATION MODES AND JRNL TITL 2 ELECTRON-TRANSFER RATES BETWEEN PROTEINS JRNL REF PROC.NATL.ACAD.SCI.USA V. 102 15465 2005 JRNL REFN ISSN 0027-8424 JRNL PMID 16227441 JRNL DOI 10.1073/PNAS.0505176102 REMARK 2 REMARK 2 RESOLUTION. 3.02 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.1.9999 REMARK 3 AUTHORS : MURSHUDOV,SKUBAK,LEBEDEV,PANNU,STEINER, REMARK 3 : NICHOLLS,WINN,LONG,VAGIN REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 3.02 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 8258 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 + TEST SET) : 0.277 REMARK 3 R VALUE (WORKING SET) : 0.277 REMARK 3 FREE R VALUE : 0.268 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.400 REMARK 3 FREE R VALUE TEST SET COUNT : 449 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 3.02 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.10 REMARK 3 REFLECTION IN BIN (WORKING SET) : 478 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.4180 REMARK 3 BIN FREE R VALUE SET COUNT : 28 REMARK 3 BIN FREE R VALUE : 0.4680 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3218 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 86 REMARK 3 SOLVENT ATOMS : 24 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 5.50 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.52000 REMARK 3 B22 (A**2) : -1.16000 REMARK 3 B33 (A**2) : -0.36000 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 OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.538 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.507 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 66.260 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.885 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.862 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3411 ; 0.026 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4628 ; 2.571 ; 2.016 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 400 ; 1.705 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 165 ;44.049 ;24.848 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 563 ;25.192 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 13 ;25.386 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 452 ; 0.189 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2660 ; 0.023 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1343 ; 0.202 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 35 ; 0.217 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 25 ; 0.271 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 2 ; 0.603 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 2043 ; 1.331 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3193 ; 2.325 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1606 ; 4.033 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1431 ; 6.027 ; 4.500 REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 LONG RANGE B OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : 3 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B -4 B 103 REMARK 3 RESIDUE RANGE : B 109 B 109 REMARK 3 ORIGIN FOR THE GROUP (A): 14.2499 -2.1931 51.7945 REMARK 3 T TENSOR REMARK 3 T11: 0.2975 T22: -0.0973 REMARK 3 T33: 0.0886 T12: -0.0093 REMARK 3 T13: 0.1647 T23: -0.1201 REMARK 3 L TENSOR REMARK 3 L11: 10.2205 L22: 8.5515 REMARK 3 L33: 9.1557 L12: -0.6883 REMARK 3 L13: -1.8685 L23: 2.1717 REMARK 3 S TENSOR REMARK 3 S11: -0.5426 S12: 0.4908 S13: -0.9745 REMARK 3 S21: -0.5958 S22: 0.4870 S23: -0.8840 REMARK 3 S31: 1.0142 S32: 0.6224 S33: 0.0557 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 294 REMARK 3 RESIDUE RANGE : A 295 A 295 REMARK 3 ORIGIN FOR THE GROUP (A): 3.6245 21.1946 75.4088 REMARK 3 T TENSOR REMARK 3 T11: -0.1203 T22: -0.0961 REMARK 3 T33: -0.1148 T12: -0.1527 REMARK 3 T13: 0.1043 T23: -0.0928 REMARK 3 L TENSOR REMARK 3 L11: 5.1995 L22: 2.6734 REMARK 3 L33: 6.1341 L12: -0.7529 REMARK 3 L13: -2.3129 L23: -0.1559 REMARK 3 S TENSOR REMARK 3 S11: 0.4954 S12: -0.7529 S13: 0.7893 REMARK 3 S21: -0.1996 S22: 0.1023 S23: -0.1464 REMARK 3 S31: -0.9723 S32: 0.5928 S33: -0.5977 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 2 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 501 A 528 REMARK 3 RESIDUE RANGE : B 525 B 530 REMARK 3 ORIGIN FOR THE GROUP (A): 2.5511 14.1774 68.1526 REMARK 3 T TENSOR REMARK 3 T11: -0.2608 T22: 0.1330 REMARK 3 T33: -0.2483 T12: -0.2243 REMARK 3 T13: -0.0934 T23: 0.1825 REMARK 3 L TENSOR REMARK 3 L11: 2.7520 L22: 0.3450 REMARK 3 L33: 0.1326 L12: 0.3704 REMARK 3 L13: -0.3346 L23: 0.1197 REMARK 3 S TENSOR REMARK 3 S11: 0.2476 S12: -0.0969 S13: 0.0927 REMARK 3 S21: 0.0082 S22: 0.0299 S23: -0.2150 REMARK 3 S31: -0.0633 S32: 0.1200 S33: -0.2776 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2B12 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-SEP-05. REMARK 100 THE DEPOSITION ID IS D_1000034542. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-JUN-04 REMARK 200 TEMPERATURE (KELVIN) : 95 REMARK 200 PH : 7 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : CHESS REMARK 200 BEAMLINE : F2 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 : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 210 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO, HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 8319 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.000 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.5 REMARK 200 DATA REDUNDANCY : 4.300 REMARK 200 R MERGE (I) : 0.14700 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) : 3.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.11 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 3.90 REMARK 200 R MERGE FOR SHELL (I) : 0.37700 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: AMORE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 46.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.30 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 3350, NACL, BOG, PH 7, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 298K 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 21.89450 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 91.82250 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 25.91600 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 91.82250 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 21.89450 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 25.91600 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: DIMERIC 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 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 ASP A 152 CB CG OD1 OD2 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 GLY A 293 NE2 GLN B 42 3555 2.09 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 LYS A 278 CB LYS A 278 CG 0.257 REMARK 500 CYS B 102 CB CYS B 102 SG -0.393 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 THR A 2 N - CA - C ANGL. DEV. = 20.5 DEGREES REMARK 500 PRO A 139 CA - C - N ANGL. DEV. = -14.8 DEGREES REMARK 500 ASP A 140 CB - CG - OD1 ANGL. DEV. = -9.4 DEGREES REMARK 500 ASP A 140 CB - CG - OD2 ANGL. DEV. = 6.5 DEGREES REMARK 500 LEU A 213 CA - CB - CG ANGL. DEV. = 16.3 DEGREES REMARK 500 LEU A 232 CA - CB - CG ANGL. DEV. = 14.2 DEGREES REMARK 500 LEU A 245 CA - CB - CG ANGL. DEV. = 22.9 DEGREES REMARK 500 LEU A 269 CA - CB - CG ANGL. DEV. = 23.1 DEGREES REMARK 500 LYS A 278 N - CA - CB ANGL. DEV. = -11.4 DEGREES REMARK 500 ASP A 279 N - CA - C ANGL. DEV. = -16.8 DEGREES REMARK 500 PRO B 71 C - N - CA ANGL. DEV. = 10.6 DEGREES REMARK 500 LEU B 85 CB - CG - CD1 ANGL. DEV. = -13.6 DEGREES REMARK 500 LEU B 85 CB - CG - CD2 ANGL. DEV. = 10.3 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 THR A 2 155.96 -22.68 REMARK 500 LYS A 12 88.82 -15.66 REMARK 500 SER A 15 -166.06 -115.39 REMARK 500 TYR A 36 134.58 -35.82 REMARK 500 TYR A 67 -77.96 -61.63 REMARK 500 THR A 70 36.88 -85.69 REMARK 500 LYS A 74 -40.28 -25.92 REMARK 500 PRO A 134 165.74 -49.79 REMARK 500 ASP A 140 142.88 -33.55 REMARK 500 ASP A 150 -162.53 -116.93 REMARK 500 ALA A 194 78.55 -104.64 REMARK 500 LYS B -1 -121.36 -92.55 REMARK 500 ALA B 0 103.93 -170.28 REMARK 500 LYS B 27 -124.97 -104.54 REMARK 500 LEU B 32 7.57 -63.93 REMARK 500 ASN B 56 70.60 43.59 REMARK 500 GLU B 61 -36.57 -11.60 REMARK 500 ASN B 70 88.17 -160.09 REMARK 500 CYS B 102 46.12 -93.76 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 TYR A 71 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 ASP A 61 -11.58 REMARK 500 THR A 63 13.13 REMARK 500 ASP A 140 -10.15 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 A 521 DISTANCE = 5.98 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 ZNH A 295 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 175 NE2 REMARK 620 2 ZNH A 295 NA 114.1 REMARK 620 3 ZNH A 295 NB 100.3 82.5 REMARK 620 4 ZNH A 295 NC 100.1 145.0 84.3 REMARK 620 5 ZNH A 295 ND 113.7 85.0 145.9 88.2 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEC B 109 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 18 NE2 REMARK 620 2 HEC B 109 NA 103.5 REMARK 620 3 HEC B 109 NB 93.9 89.0 REMARK 620 4 HEC B 109 NC 81.4 174.9 89.3 REMARK 620 5 HEC B 109 ND 90.8 91.9 174.8 89.4 REMARK 620 6 MET B 80 SD 165.8 90.2 82.6 84.8 92.3 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 ZNH A 295 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HEC B 109 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2B0Z RELATED DB: PDB REMARK 900 RELATED ID: 2B10 RELATED DB: PDB REMARK 900 RELATED ID: 2B11 RELATED DB: PDB DBREF 2B12 A 1 294 UNP P00431 CCPR_YEAST 68 361 DBREF 2B12 B -4 103 UNP P00044 CYC1_YEAST 1 108 SEQADV 2B12 TYR B 82 UNP P00044 PHE 87 ENGINEERED MUTATION SEQRES 1 A 294 THR THR PRO LEU VAL HIS VAL ALA SER VAL GLU LYS GLY SEQRES 2 A 294 ARG SER TYR GLU ASP PHE GLN LYS VAL TYR ASN ALA ILE SEQRES 3 A 294 ALA LEU LYS LEU ARG GLU ASP ASP GLU TYR ASP ASN TYR SEQRES 4 A 294 ILE GLY TYR GLY PRO VAL LEU VAL ARG LEU ALA TRP HIS SEQRES 5 A 294 THR SER GLY THR TRP ASP LYS HIS ASP ASN THR GLY GLY SEQRES 6 A 294 SER TYR GLY GLY THR TYR ARG PHE LYS LYS GLU PHE ASN SEQRES 7 A 294 ASP PRO SER ASN ALA GLY LEU GLN ASN GLY PHE LYS PHE SEQRES 8 A 294 LEU GLU PRO ILE HIS LYS GLU PHE PRO TRP ILE SER SER SEQRES 9 A 294 GLY ASP LEU PHE SER LEU GLY GLY VAL THR ALA VAL GLN SEQRES 10 A 294 GLU MET GLN GLY PRO LYS ILE PRO TRP ARG CYS GLY ARG SEQRES 11 A 294 VAL ASP THR PRO GLU ASP THR THR PRO ASP ASN GLY ARG SEQRES 12 A 294 LEU PRO ASP ALA ASP LYS ASP ALA ASP TYR VAL ARG THR SEQRES 13 A 294 PHE PHE GLN ARG LEU ASN MET ASN ASP ARG GLU VAL VAL SEQRES 14 A 294 ALA LEU MET GLY ALA HIS ALA LEU GLY LYS THR HIS LEU SEQRES 15 A 294 LYS ASN SER GLY TYR GLU GLY PRO TRP GLY ALA ALA ASN SEQRES 16 A 294 ASN VAL PHE THR ASN GLU PHE TYR LEU ASN LEU LEU ASN SEQRES 17 A 294 GLU ASP TRP LYS LEU GLU LYS ASN ASP ALA ASN ASN GLU SEQRES 18 A 294 GLN TRP ASP SER LYS SER GLY TYR MET MET LEU PRO THR SEQRES 19 A 294 ASP TYR SER LEU ILE GLN ASP PRO LYS TYR LEU SER ILE SEQRES 20 A 294 VAL LYS GLU TYR ALA ASN ASP GLN ASP LYS PHE PHE LYS SEQRES 21 A 294 ASP PHE SER LYS ALA PHE GLU LYS LEU LEU GLU ASN GLY SEQRES 22 A 294 ILE THR PHE PRO LYS ASP ALA PRO SER PRO PHE ILE PHE SEQRES 23 A 294 LYS THR LEU GLU GLU GLN GLY LEU SEQRES 1 B 108 THR GLU PHE LYS ALA GLY SER ALA LYS LYS GLY ALA THR SEQRES 2 B 108 LEU PHE LYS THR ARG CYS LEU GLN CYS HIS THR VAL GLU SEQRES 3 B 108 LYS GLY GLY PRO HIS LYS VAL GLY PRO ASN LEU HIS GLY SEQRES 4 B 108 ILE PHE GLY ARG HIS SER GLY GLN ALA GLU GLY TYR SER SEQRES 5 B 108 TYR THR ASP ALA ASN ILE LYS LYS ASN VAL LEU TRP ASP SEQRES 6 B 108 GLU ASN ASN MET SER GLU TYR LEU THR ASN PRO LYS LYS SEQRES 7 B 108 TYR ILE PRO GLY THR LYS MET ALA TYR GLY GLY LEU LYS SEQRES 8 B 108 LYS GLU LYS ASP ARG ASN ASP LEU ILE THR TYR LEU LYS SEQRES 9 B 108 LYS ALA CYS GLU HET ZNH A 295 43 HET HEC B 109 43 HETNAM ZNH PROTOPORPHYRIN IX CONTAINING ZN HETNAM HEC HEME C FORMUL 3 ZNH C34 H32 N4 O4 ZN FORMUL 4 HEC C34 H34 FE N4 O4 FORMUL 5 HOH *24(H2 O) HELIX 1 1 SER A 15 ASP A 33 1 19 HELIX 2 2 GLU A 35 ILE A 40 1 6 HELIX 3 4 PHE A 73 ASN A 78 1 6 HELIX 4 5 ASP A 79 GLY A 84 5 6 HELIX 5 6 LEU A 85 GLU A 93 1 9 HELIX 6 7 SER A 103 MET A 119 1 17 HELIX 7 8 PRO A 134 THR A 138 5 5 HELIX 8 9 ASP A 150 GLN A 159 1 10 HELIX 9 10 ASN A 164 GLY A 173 1 10 HELIX 10 11 ALA A 174 LEU A 177 5 4 HELIX 11 12 ASN A 200 LEU A 207 1 8 HELIX 12 13 TYR A 236 ASP A 241 1 6 HELIX 13 14 ASP A 241 ASP A 254 1 14 HELIX 14 15 ASP A 254 ASN A 272 1 19 HELIX 15 16 GLY B 6 CYS B 14 1 9 HELIX 16 17 THR B 49 LYS B 55 1 7 HELIX 17 18 MET B 64 THR B 69 1 6 HELIX 18 19 ASN B 70 ILE B 75 1 6 SHEET 1 A 2 HIS A 6 VAL A 7 0 SHEET 2 A 2 ILE A 274 THR A 275 1 O THR A 275 N 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 LYS A 212 LYS A 215 0 SHEET 2 C 3 GLU A 221 ASP A 224 -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 SG CYS B 14 CAB HEC B 109 1555 1555 1.15 LINK SG CYS B 14 CBB HEC B 109 1555 1555 1.64 LINK SG CYS B 17 CAC HEC B 109 1555 1555 2.02 LINK NE2 HIS A 175 ZN ZNH A 295 1555 1555 1.91 LINK NE2 HIS B 18 FE HEC B 109 1555 1555 1.58 LINK SD MET B 80 FE HEC B 109 1555 1555 2.03 SITE 1 AC1 18 PRO A 44 VAL A 45 VAL A 47 ARG A 48 SITE 2 AC1 18 TRP A 51 PRO A 145 PHE A 158 LEU A 171 SITE 3 AC1 18 MET A 172 ALA A 174 HIS A 175 GLY A 178 SITE 4 AC1 18 LYS A 179 THR A 180 HIS A 181 SER A 185 SITE 5 AC1 18 TRP A 191 THR A 234 SITE 1 AC2 17 ARG B 13 CYS B 14 CYS B 17 HIS B 18 SITE 2 AC2 17 VAL B 28 GLY B 29 SER B 40 GLY B 41 SITE 3 AC2 17 GLN B 42 TYR B 46 TYR B 48 THR B 49 SITE 4 AC2 17 ASN B 52 TRP B 59 THR B 78 LYS B 79 SITE 5 AC2 17 MET B 80 CRYST1 43.789 51.832 183.645 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 0.022837 0.000000 0.000000 0.00000 SCALE2 0.000000 0.019293 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005445 0.00000