HEADER OXIDOREDUCTASE 27-MAR-14 4CVI TITLE NEUTRON STRUCTURE OF FERRIC CYTOCHROME C PEROXIDASE - DEUTERIUM TITLE 2 EXCHANGED AT ROOM TEMPERATURE COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYTOCHROME C PEROXIDASE, MITOCHONDRIAL; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: CCP, CYTOCHROME C PEROXIDASE; COMPND 5 EC: 1.11.1.5; COMPND 6 ENGINEERED: 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 ORGAN: MITOCHONDRION; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; 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: PLEICS03 KEYWDS OXIDOREDUCTASE, HEME PEROXIDASE, REDOX, ELECTRON TRANSPORT, FERRIC, KEYWDS 2 HEME, NEUTRON EXPDTA X-RAY DIFFRACTION; NEUTRON DIFFRACTION AUTHOR C.M.CASADEI,A.GUMIERO,M.P.BLAKELEY,A.OSTERMANN,E.L.RAVEN,P.C.E.MOODY REVDAT 8 08-MAY-24 4CVI 1 REMARK REVDAT 7 06-JUN-18 4CVI 1 REMARK REVDAT 6 13-SEP-17 4CVI 1 REMARK REVDAT 5 05-JUL-17 4CVI 1 REMARK REVDAT 4 28-JUN-17 4CVI 1 REMARK ATOM REVDAT 3 25-JAN-17 4CVI 1 REMARK REVDAT 2 22-OCT-14 4CVI 1 JRNL REVDAT 1 16-JUL-14 4CVI 0 JRNL AUTH C.M.CASADEI,A.GUMIERO,C.L.METCALFE,E.J.MURPHY,J.BASRAN, JRNL AUTH 2 M.G.CONCILIO,S.C.M.TEIXEIRA,T.E.SCHRADER,A.J.FIELDING, JRNL AUTH 3 A.OSTERMANN,M.P.BLAKELEY,E.L.RAVEN,P.C.E.MOODY JRNL TITL NEUTRON CRYO-CRYSTALLOGRAPHY CAPTURES THE PROTONATION STATE JRNL TITL 2 OF FERRYL HEME IN A PEROXIDASE JRNL REF SCIENCE V. 345 193 2014 JRNL REFN ISSN 0036-8075 JRNL PMID 25013070 JRNL DOI 10.1126/SCIENCE.1254398 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE: 1.7.3_928) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 X-RAY DATA. REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 14.77 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.370 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.9 REMARK 3 NUMBER OF REFLECTIONS : 24307 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.138 REMARK 3 R VALUE (WORKING SET) : 0.134 REMARK 3 FREE R VALUE : 0.177 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2430 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 14.7702 - 5.3194 0.82 1207 134 0.1512 0.1683 REMARK 3 2 5.3194 - 4.2554 0.91 1259 139 0.1114 0.1275 REMARK 3 3 4.2554 - 3.7273 0.92 1278 141 0.1018 0.1486 REMARK 3 4 3.7273 - 3.3911 0.94 1279 143 0.1214 0.1462 REMARK 3 5 3.3911 - 3.1505 0.94 1293 143 0.1281 0.2012 REMARK 3 6 3.1505 - 2.9664 0.95 1296 144 0.1359 0.1855 REMARK 3 7 2.9664 - 2.8189 0.96 1279 143 0.1465 0.1849 REMARK 3 8 2.8189 - 2.6969 0.96 1294 144 0.1468 0.2227 REMARK 3 9 2.6969 - 2.5937 0.96 1289 143 0.1400 0.1944 REMARK 3 10 2.5937 - 2.5046 0.97 1312 146 0.1375 0.1903 REMARK 3 11 2.5046 - 2.4267 0.97 1294 144 0.1489 0.1866 REMARK 3 12 2.4267 - 2.3576 0.97 1293 143 0.1467 0.2273 REMARK 3 13 2.3576 - 2.2958 0.98 1301 145 0.1415 0.1893 REMARK 3 14 2.2958 - 2.2399 0.98 1309 146 0.1501 0.2088 REMARK 3 15 2.2399 - 2.1892 0.98 1299 144 0.1539 0.2010 REMARK 3 16 2.1892 - 2.1427 0.97 1285 142 0.1638 0.2195 REMARK 3 17 2.1427 - 2.1000 0.98 1310 146 0.1580 0.1901 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.00 REMARK 3 SHRINKAGE RADIUS : 0.73 REMARK 3 K_SOL : 0.41 REMARK 3 B_SOL : 35.27 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.170 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 16.620 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 2.17780 REMARK 3 B22 (A**2) : 5.98210 REMARK 3 B33 (A**2) : -8.15990 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 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.012 5325 REMARK 3 ANGLE : 1.349 9106 REMARK 3 CHIRALITY : 0.089 329 REMARK 3 PLANARITY : 0.008 915 REMARK 3 DIHEDRAL : 17.659 1373 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 3 NEUTRON DATA. REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.41 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.84 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.580 REMARK 3 COMPLETENESS FOR RANGE (%) : 73.8 REMARK 3 NUMBER OF REFLECTIONS : 12695 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.183 REMARK 3 R VALUE (WORKING SET) : 0.176 REMARK 3 FREE R VALUE : 0.243 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1270 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 39.8451 - 5.0035 0.91 1685 188 0.1759 0.2288 REMARK 3 2 5.0035 - 3.9726 0.94 1631 181 0.1434 0.2231 REMARK 3 3 3.9726 - 3.4708 0.90 1553 171 0.1484 0.2254 REMARK 3 4 3.4708 - 3.1536 0.83 1432 162 0.1649 0.2152 REMARK 3 5 3.1536 - 2.9276 0.75 1279 141 0.1758 0.2301 REMARK 3 6 2.9276 - 2.7551 0.69 1156 129 0.1867 0.2819 REMARK 3 7 2.7551 - 2.6171 0.60 1015 112 0.2249 0.3176 REMARK 3 8 2.6171 - 2.5032 0.54 906 102 0.2694 0.3258 REMARK 3 9 2.5032 - 2.4069 0.46 768 84 0.2964 0.3492 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.00 REMARK 3 SHRINKAGE RADIUS : 0.73 REMARK 3 K_SOL : 0.47 REMARK 3 B_SOL : 41.44 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.320 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 22.400 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.53520 REMARK 3 B22 (A**2) : 9.99900 REMARK 3 B33 (A**2) : -7.46380 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 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.012 5325 REMARK 3 ANGLE : 1.349 9106 REMARK 3 CHIRALITY : 0.089 329 REMARK 3 PLANARITY : 0.008 915 REMARK 3 DIHEDRAL : 17.659 1373 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 4CVI COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 27-MAR-14. REMARK 100 THE DEPOSITION ID IS D_1290060126. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-OCT-13 REMARK 200 TEMPERATURE (KELVIN) : 290.000 REMARK 200 PH : 6.00 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : SEALED TUBE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : XENOCS GENIX 3D CU HF REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : XENOCS MULTILAYER REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 345 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : LAUEGEN REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 24307 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 14.800 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 94.7 REMARK 200 DATA REDUNDANCY : 3.500 REMARK 200 R MERGE (I) : 0.06100 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 14.6000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.15 REMARK 200 COMPLETENESS FOR SHELL (%) : 97.3 REMARK 200 DATA REDUNDANCY IN SHELL : 2.40 REMARK 200 R MERGE FOR SHELL (I) : 0.24300 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 4.600 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: PHENIX, PHENIX, PHENIX REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 230 REMARK 230 EXPERIMENTAL DETAILS REMARK 230 EXPERIMENT TYPE : NEUTRON DIFFRACTION REMARK 230 DATE OF DATA COLLECTION : 01-AUG-13 REMARK 230 TEMPERATURE (KELVIN) : 290.0 REMARK 230 PH : 6.00 REMARK 230 NUMBER OF CRYSTALS USED : 1 REMARK 230 REMARK 230 NEUTRON SOURCE : NUCLEAR REACTOR REMARK 230 BEAMLINE : LADI III REMARK 230 WAVELENGTH OR RANGE (A) : 3.2-4.2 REMARK 230 MONOCHROMATOR : MULTILAYER NI-TI REMARK 230 OPTICS : NULL REMARK 230 REMARK 230 DETECTOR TYPE : IMAGE PLATE REMARK 230 DETECTOR MANUFACTURER : NULL REMARK 230 INTENSITY-INTEGRATION SOFTWARE : LAUEGEN REMARK 230 DATA SCALING SOFTWARE : SCALA REMARK 230 REMARK 230 NUMBER OF UNIQUE REFLECTIONS : 12695 REMARK 230 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 230 RESOLUTION RANGE LOW (A) : 39.700 REMARK 230 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 230 REMARK 230 OVERALL. REMARK 230 COMPLETENESS FOR RANGE (%) : 73.8 REMARK 230 DATA REDUNDANCY : 3.800 REMARK 230 R MERGE (I) : 0.15100 REMARK 230 R SYM (I) : NULL REMARK 230 <I/SIGMA(I)> FOR THE DATA SET : 7.6000 REMARK 230 REMARK 230 IN THE HIGHEST RESOLUTION SHELL. REMARK 230 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.40 REMARK 230 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.53 REMARK 230 COMPLETENESS FOR SHELL (%) : 48.0 REMARK 230 DATA REDUNDANCY IN SHELL : 2.40 REMARK 230 R MERGE FOR SHELL (I) : 0.19400 REMARK 230 R SYM FOR SHELL (I) : NULL REMARK 230 <I/SIGMA(I)> FOR SHELL : 4.400 REMARK 230 REMARK 230 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 230 SOFTWARE USED : PHENIX, PHENIX, PHENIX REMARK 230 STARTING MODEL: NULL REMARK 230 REMARK 230 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 61.27 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.18 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 6.0, PH 6.00 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 25.85000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 53.80000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 38.40000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 53.80000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 25.85000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 38.40000 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 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 LYS A 2 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 PRO A 3 N CG CD REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 D LYS A 226 O DOD A 2151 1.58 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 48 NE - CZ - NH1 ANGL. DEV. = 4.7 DEGREES REMARK 500 ARG A 48 NE - CZ - NH2 ANGL. DEV. = -3.7 DEGREES REMARK 500 ARG A 143 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 ARG A 143 NE - CZ - NH2 ANGL. DEV. = -3.0 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 ALA A 194 79.92 -104.90 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 DOD A2072 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 HEM A1295 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 175 NE2 REMARK 620 2 HEM A1295 NA 98.6 REMARK 620 3 HEM A1295 NB 93.6 85.8 REMARK 620 4 HEM A1295 NC 90.8 170.2 91.1 REMARK 620 5 HEM A1295 ND 97.1 92.9 169.3 88.5 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 HEM A 1295 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 4CVJ RELATED DB: PDB REMARK 900 NEUTRON STRUCTURE OF COMPOUND I INTERMEDIATE OF CYTOCHROME C REMARK 900 PEROXIDASE - DEUTERIUM EXCHANGED 100 K DBREF 4CVI A 3 294 UNP D6VXC7 CCPR_YEAST 70 361 SEQADV 4CVI MET A 1 UNP D6VXC7 EXPRESSION TAG SEQADV 4CVI LYS A 2 UNP D6VXC7 EXPRESSION TAG SEQRES 1 A 294 MET LYS 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 HET HEM A1295 73 HETNAM HEM PROTOPORPHYRIN IX CONTAINING FE HETSYN HEM HEME FORMUL 2 HEM C34 H32 FE N4 O4 FORMUL 3 DOD *198(D2 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 3 TYR A 42 GLY A 55 1 14 HELIX 4 4 GLY A 69 ARG A 72 5 4 HELIX 5 5 PHE A 73 ASN A 78 1 6 HELIX 6 6 ASP A 79 ALA A 83 5 5 HELIX 7 7 LEU A 85 PHE A 99 1 15 HELIX 8 8 SER A 103 MET A 119 1 17 HELIX 9 9 PRO A 134 THR A 138 5 5 HELIX 10 10 ASP A 150 ARG A 160 1 11 HELIX 11 11 ASN A 164 GLY A 173 1 10 HELIX 12 12 ALA A 174 LEU A 177 5 4 HELIX 13 13 HIS A 181 GLY A 186 1 6 HELIX 14 14 ASN A 200 GLU A 209 1 10 HELIX 15 15 LEU A 232 ASN A 253 1 22 HELIX 16 16 ASP A 254 ASN A 272 1 19 HELIX 17 17 LEU A 289 GLY A 293 5 5 SHEET 1 AA 2 LYS A 179 THR A 180 0 SHEET 2 AA 2 GLY A 189 PRO A 190 -1 O GLY A 189 N THR A 180 SHEET 1 AB 3 TRP A 211 LYS A 215 0 SHEET 2 AB 3 GLU A 221 SER A 225 -1 O GLN A 222 N GLU A 214 SHEET 3 AB 3 MET A 230 MET A 231 -1 O MET A 231 N TRP A 223 LINK NE2 HIS A 175 FE HEM A1295 1555 1555 2.02 SITE 1 AC1 21 PRO A 44 TRP A 51 PRO A 145 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 THR A 180 HIS A 181 SITE 4 AC1 21 ASN A 184 SER A 185 TRP A 191 LEU A 232 SITE 5 AC1 21 THR A 234 DOD A2031 DOD A2033 DOD A2042 SITE 6 AC1 21 DOD A2045 CRYST1 51.700 76.800 107.600 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 0.019342 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013021 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009294 0.00000