HEADER ELECTRON TRANSPORT 20-MAR-10 3M97 TITLE STRUCTURE OF THE SOLUBLE DOMAIN OF CYTOCHROME C552 WITH ITS FLEXIBLE TITLE 2 LINKER SEGMENT FROM PARACOCCUS DENITRIFICANS COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYTOCHROME C-552; COMPND 3 CHAIN: X; COMPND 4 FRAGMENT: SOLUBLE DOMAIN WITH FLEXIBLE LINKER SEGMENT (UNP RESIDUES COMPND 5 38-176); COMPND 6 SYNONYM: CYTOCHROME C552; COMPND 7 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: PARACOCCUS DENITRIFICANS; SOURCE 3 ORGANISM_TAXID: 266; SOURCE 4 GENE: CYCM; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS ELECTRON TRANSPORT CHAIN (CYTOCHROME), ELECTRON TRANSFER, P. KEYWDS 2 DENITRIFICANS, ELECTRON DONOR, CELL MEMBRANE, ELECTRON TRANSPORT, KEYWDS 3 HEME, IRON, MEMBRANE, METAL-BINDING, TRANSMEMBRANE, TRANSPORT EXPDTA X-RAY DIFFRACTION AUTHOR C.RAJENDRAN,U.ERMLER,B.LUDWIG,H.MICHEL REVDAT 2 06-SEP-23 3M97 1 REMARK SEQADV LINK REVDAT 1 21-JUL-10 3M97 0 JRNL AUTH C.RAJENDRAN,U.ERMLER,B.LUDWIG,H.MICHEL JRNL TITL STRUCTURE AT 1.5 A RESOLUTION OF CYTOCHROME C(552) WITH ITS JRNL TITL 2 FLEXIBLE LINKER SEGMENT, A MEMBRANE-ANCHORED PROTEIN FROM JRNL TITL 3 PARACOCCUS DENITRIFICANS. JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 66 850 2010 JRNL REFN ISSN 0907-4449 JRNL PMID 20606266 JRNL DOI 10.1107/S0907444910019396 REMARK 2 REMARK 2 RESOLUTION. 1.33 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0072 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) : 1.33 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 29.13 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 30027 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) : 0.201 REMARK 3 R VALUE (WORKING SET) : 0.200 REMARK 3 FREE R VALUE : 0.229 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1583 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) : 1.33 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.37 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1986 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.4290 REMARK 3 BIN FREE R VALUE SET COUNT : 105 REMARK 3 BIN FREE R VALUE : 0.4680 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 866 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 47 REMARK 3 SOLVENT ATOMS : 227 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 17.77 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.01000 REMARK 3 B22 (A**2) : 0.02000 REMARK 3 B33 (A**2) : -0.01000 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): 0.057 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.061 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.047 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.210 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.960 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.944 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 943 ; 0.037 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 1287 ; 3.339 ; 2.093 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 117 ; 5.670 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 40 ;38.588 ;25.750 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 139 ;13.905 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 2 ;10.608 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 126 ; 0.195 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 741 ; 0.022 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 583 ; 1.711 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 915 ; 2.580 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 360 ; 3.297 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 372 ; 4.667 ; 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 : NULL 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 3M97 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 23-MAR-10. REMARK 100 THE DEPOSITION ID IS D_1000058266. 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 : 7.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SLS REMARK 200 BEAMLINE : X10SA REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 31610 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.330 REMARK 200 RESOLUTION RANGE LOW (A) : 29.130 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : 6.300 REMARK 200 R MERGE (I) : 0.11000 REMARK 200 R SYM (I) : 0.11000 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) : 1.33 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : 99.2 REMARK 200 DATA REDUNDANCY IN SHELL : 6.30 REMARK 200 R MERGE FOR SHELL (I) : 0.11000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 29.79 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: EPMR REMARK 200 STARTING MODEL: PDB ENTRY 1QL4 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 47.32 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.33 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20 % PEG 550 MME, 0.1 M ZINC SULFATE, REMARK 280 PH 7.0, VAPOR DIFFUSION, HANGING 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 18.68800 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 46.50700 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 19.49550 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 46.50700 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 18.68800 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 19.49550 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 APPLY THE FOLLOWING TO CHAINS: X 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 GLN X 12 REMARK 465 ALA X 13 REMARK 465 TYR X 14 REMARK 465 THR X 15 REMARK 465 TYR X 16 REMARK 465 PRO X 17 REMARK 465 VAL X 18 REMARK 465 GLU X 19 REMARK 465 SER X 20 REMARK 465 ALA X 21 REMARK 465 GLY X 22 REMARK 465 GLY X 23 REMARK 465 ALA X 24 REMARK 465 GLU X 25 REMARK 465 GLY X 26 REMARK 465 GLU X 27 REMARK 465 ALA X 28 REMARK 465 VAL X 29 REMARK 465 ASP X 30 REMARK 465 GLU X 31 REMARK 465 GLY X 32 REMARK 465 PRO X 33 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 SG CYS X 54 CAB HEC X 141 1.88 REMARK 500 O HOH X 314 O HOH X 338 1.97 REMARK 500 O HOH X 305 O HOH X 359 2.03 REMARK 500 N ASP X 34 O HOH X 203 2.09 REMARK 500 O HOH X 165 O HOH X 205 2.15 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 X 43 CB - CG - OD1 ANGL. DEV. = -5.8 DEGREES REMARK 500 CYS X 54 CA - CB - SG ANGL. DEV. = 9.9 DEGREES REMARK 500 ASP X 88 CB - CG - OD1 ANGL. DEV. = -5.6 DEGREES REMARK 500 ASP X 88 CB - CG - OD2 ANGL. DEV. = 6.3 DEGREES REMARK 500 LEU X 106 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 HIS X 3 52.46 -107.28 REMARK 500 ASN X 108 90.50 -166.22 REMARK 500 GLN X 139 67.07 -110.56 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 HEC X 141 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS X 58 NE2 REMARK 620 2 HEC X 141 NA 89.8 REMARK 620 3 HEC X 141 NB 89.5 86.7 REMARK 620 4 HEC X 141 NC 86.7 176.4 94.0 REMARK 620 5 HEC X 141 ND 88.4 93.7 177.9 85.5 REMARK 620 6 MET X 118 SD 174.0 86.0 94.4 97.5 87.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN X 142 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS X 69 NE2 REMARK 620 2 HOH X 199 O 108.7 REMARK 620 3 HOH X 334 O 90.3 80.0 REMARK 620 N 1 2 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN X 145 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS X 93 NE2 REMARK 620 2 HOH X 244 O 96.9 REMARK 620 N 1 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HEC X 141 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN X 142 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN X 143 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN X 144 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN X 145 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1QL4 RELATED DB: PDB REMARK 900 STRUCTURE OF THE SOLUBLE DOMAIN OF CYTOCHROME C(552) FROM REMARK 900 PARACOCCUS DENITRIFICANS IN THE OXIDIZED AND REDUCED STATES DBREF 3M97 X 2 140 UNP P54820 CY552_PARDE 38 176 SEQADV 3M97 MET X 1 UNP P54820 INITIATING METHIONINE SEQRES 1 X 140 MET GLY HIS GLY ALA GLU GLY GLU GLU HIS ALA GLN ALA SEQRES 2 X 140 TYR THR TYR PRO VAL GLU SER ALA GLY GLY ALA GLU GLY SEQRES 3 X 140 GLU ALA VAL ASP GLU GLY PRO ASP PHE ALA THR VAL LEU SEQRES 4 X 140 ALA SER ALA ASP PRO ALA ALA GLY GLU LYS VAL PHE GLY SEQRES 5 X 140 LYS CYS LYS ALA CYS HIS LYS LEU ASP GLY ASN ASP GLY SEQRES 6 X 140 VAL GLY PRO HIS LEU ASN GLY VAL VAL GLY ARG THR VAL SEQRES 7 X 140 ALA GLY VAL ASP GLY PHE ASN TYR SER ASP PRO MET LYS SEQRES 8 X 140 ALA HIS GLY GLY ASP TRP THR PRO GLU ALA LEU GLN GLU SEQRES 9 X 140 PHE LEU THR ASN PRO LYS ALA VAL VAL LYS GLY THR LYS SEQRES 10 X 140 MET ALA PHE ALA GLY LEU PRO LYS ILE GLU ASP ARG ALA SEQRES 11 X 140 ASN LEU ILE ALA TYR LEU GLU GLY GLN GLN HET HEC X 141 43 HET ZN X 142 1 HET ZN X 143 1 HET ZN X 144 1 HET ZN X 145 1 HETNAM HEC HEME C HETNAM ZN ZINC ION FORMUL 2 HEC C34 H34 FE N4 O4 FORMUL 3 ZN 4(ZN 2+) FORMUL 7 HOH *227(H2 O) HELIX 1 1 ASP X 34 SER X 41 1 8 HELIX 2 2 ASP X 43 PHE X 51 1 9 HELIX 3 3 GLY X 52 CYS X 54 5 3 HELIX 4 4 SER X 87 HIS X 93 1 7 HELIX 5 5 THR X 98 ASN X 108 1 11 HELIX 6 6 ASN X 108 VAL X 113 1 6 HELIX 7 7 LYS X 125 GLY X 138 1 14 LINK NE2 HIS X 58 FE HEC X 141 1555 1555 1.97 LINK NE2 HIS X 69 ZN ZN X 142 1555 1555 1.99 LINK OD2 ASP X 82 ZN ZN X 143 1555 1555 1.86 LINK OD1 ASP X 88 ZN ZN X 144 1555 1555 2.02 LINK NE2 HIS X 93 ZN ZN X 145 1555 1555 2.02 LINK SD MET X 118 FE HEC X 141 1555 1555 2.33 LINK ZN ZN X 142 O HOH X 199 1555 1555 2.21 LINK ZN ZN X 142 O HOH X 334 1555 1555 2.33 LINK ZN ZN X 145 O HOH X 244 1555 1555 2.03 SITE 1 AC1 20 LYS X 53 CYS X 54 CYS X 57 HIS X 58 SITE 2 AC1 20 VAL X 66 PRO X 68 ARG X 76 ALA X 79 SITE 3 AC1 20 PHE X 84 TYR X 86 SER X 87 TRP X 97 SITE 4 AC1 20 LEU X 102 THR X 116 LYS X 117 MET X 118 SITE 5 AC1 20 ALA X 119 PHE X 120 LEU X 132 HOH X 255 SITE 1 AC2 5 GLU X 9 HIS X 69 HOH X 199 HOH X 246 SITE 2 AC2 5 HOH X 334 SITE 1 AC3 4 GLU X 8 HIS X 10 ASP X 82 GLU X 127 SITE 1 AC4 4 HIS X 3 ASP X 88 GLU X 100 GLU X 104 SITE 1 AC5 4 MET X 1 GLU X 6 HIS X 93 HOH X 244 CRYST1 37.376 38.991 93.014 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 0.026755 0.000000 0.000000 0.00000 SCALE2 0.000000 0.025647 0.000000 0.00000 SCALE3 0.000000 0.000000 0.010751 0.00000