HEADER OXIDOREDUCTASE 04-FEB-13 4J20 TITLE X-RAY STRUCTURE OF THE CYTOCHROME C-554 FROM CHLOROBACULUM TEPIDUM COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYTOCHROME C-555; COMPND 3 CHAIN: A, B; COMPND 4 FRAGMENT: UNP RESIDUES 21-108; COMPND 5 SYNONYM: CYTOCHROME C555; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: CHLOROBIUM TEPIDUM; SOURCE 3 ORGANISM_TAXID: 194439; SOURCE 4 STRAIN: ATCC 49652 / DSM 12025 / TLS; SOURCE 5 GENE: CT0075; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS CYTOCROME C, ELECTRON TRANSFER, CYTOCHROME CZ, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR M.UNNO,L.J.YU,Z.Y.WANG-OTOMO REVDAT 3 08-NOV-23 4J20 1 REMARK SEQADV LINK REVDAT 2 27-NOV-13 4J20 1 JRNL REVDAT 1 02-OCT-13 4J20 0 JRNL AUTH L.J.YU,M.UNNO,Y.KIMURA,K.YANAGIMOTO,H.OH-OKA,Z.Y.WANG-OTOMO JRNL TITL STRUCTURE ANALYSIS AND CHARACTERIZATION OF THE CYTOCHROME JRNL TITL 2 C-554 FROM THERMOPHILIC GREEN SULFUR PHOTOSYNTHETIC JRNL TITL 3 BACTERIUM CHLOROBACULUM TEPIDUM JRNL REF PHOTOSYNTH.RES. V. 118 249 2013 JRNL REFN ISSN 0166-8595 JRNL PMID 24052268 JRNL DOI 10.1007/S11120-013-9922-2 REMARK 2 REMARK 2 RESOLUTION. 1.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0102 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) : 1.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.5 REMARK 3 NUMBER OF REFLECTIONS : 33493 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) : 0.151 REMARK 3 R VALUE (WORKING SET) : 0.150 REMARK 3 FREE R VALUE : 0.170 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1766 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) : 1.30 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.33 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2378 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 98.24 REMARK 3 BIN R VALUE (WORKING SET) : 0.1770 REMARK 3 BIN FREE R VALUE SET COUNT : 138 REMARK 3 BIN FREE R VALUE : 0.1780 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1242 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 120 REMARK 3 SOLVENT ATOMS : 219 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 18.26 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.33000 REMARK 3 B22 (A**2) : -0.31000 REMARK 3 B33 (A**2) : 0.05000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.11000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.049 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.050 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.028 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 1.406 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.975 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.967 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1464 ; 0.018 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2003 ; 1.599 ; 2.158 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 195 ; 5.569 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 36 ;32.986 ;25.278 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 245 ;13.915 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 2 ; 3.686 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 204 ; 0.093 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1074 ; 0.012 ; 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): 928 ; 1.795 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1450 ; 2.328 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 536 ; 3.467 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 546 ; 4.300 ; 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 : 5 REMARK 3 REMARK 3 TLS GROUP : 1 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 1 A 88 REMARK 3 ORIGIN FOR THE GROUP (A): 6.1660 1.4930 14.2730 REMARK 3 T TENSOR REMARK 3 T11: 0.0203 T22: 0.0705 REMARK 3 T33: 0.0145 T12: -0.0019 REMARK 3 T13: 0.0003 T23: -0.0019 REMARK 3 L TENSOR REMARK 3 L11: 0.9222 L22: 1.4524 REMARK 3 L33: 1.3256 L12: -0.1622 REMARK 3 L13: 0.2250 L23: 0.0608 REMARK 3 S TENSOR REMARK 3 S11: 0.0009 S12: -0.0069 S13: 0.0215 REMARK 3 S21: -0.0290 S22: -0.0038 S23: -0.0007 REMARK 3 S31: -0.0320 S32: -0.0211 S33: 0.0029 REMARK 3 REMARK 3 TLS GROUP : 2 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 1 B 88 REMARK 3 ORIGIN FOR THE GROUP (A): -14.3160 -15.0470 8.1680 REMARK 3 T TENSOR REMARK 3 T11: 0.0223 T22: 0.0656 REMARK 3 T33: 0.0310 T12: 0.0095 REMARK 3 T13: -0.0116 T23: -0.0185 REMARK 3 L TENSOR REMARK 3 L11: 1.3087 L22: 1.6231 REMARK 3 L33: 1.3788 L12: -0.5208 REMARK 3 L13: -0.4398 L23: -0.3515 REMARK 3 S TENSOR REMARK 3 S11: 0.0070 S12: 0.0500 S13: -0.1316 REMARK 3 S21: -0.0522 S22: -0.0003 S23: 0.1639 REMARK 3 S31: 0.0366 S32: -0.0358 S33: -0.0067 REMARK 3 REMARK 3 TLS GROUP : 3 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 107 A 107 REMARK 3 ORIGIN FOR THE GROUP (A): 10.6550 1.9340 16.5280 REMARK 3 T TENSOR REMARK 3 T11: 0.0394 T22: 0.0831 REMARK 3 T33: 0.0472 T12: -0.0110 REMARK 3 T13: -0.0080 T23: -0.0046 REMARK 3 L TENSOR REMARK 3 L11: 3.2794 L22: 2.7274 REMARK 3 L33: 3.5613 L12: -0.4011 REMARK 3 L13: 0.5451 L23: 0.6967 REMARK 3 S TENSOR REMARK 3 S11: 0.0477 S12: -0.0314 S13: 0.1229 REMARK 3 S21: 0.0195 S22: -0.0156 S23: -0.1809 REMARK 3 S31: -0.0713 S32: 0.0818 S33: -0.0321 REMARK 3 REMARK 3 TLS GROUP : 4 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : B 104 B 104 REMARK 3 ORIGIN FOR THE GROUP (A): -19.1790 -16.8110 8.5110 REMARK 3 T TENSOR REMARK 3 T11: 0.0514 T22: 0.1089 REMARK 3 T33: 0.1487 T12: 0.0033 REMARK 3 T13: -0.0149 T23: -0.0287 REMARK 3 L TENSOR REMARK 3 L11: 5.0905 L22: 3.7240 REMARK 3 L33: 5.4290 L12: 0.9101 REMARK 3 L13: -1.6104 L23: -2.1066 REMARK 3 S TENSOR REMARK 3 S11: 0.0610 S12: 0.1997 S13: -0.4759 REMARK 3 S21: -0.0400 S22: 0.0761 S23: 0.3371 REMARK 3 S31: 0.1639 S32: -0.1696 S33: -0.1371 REMARK 3 REMARK 3 TLS GROUP : 5 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 201 A 416 REMARK 3 ORIGIN FOR THE GROUP (A): -1.5840 -6.1290 11.4970 REMARK 3 T TENSOR REMARK 3 T11: 0.0452 T22: 0.0630 REMARK 3 T33: 0.0068 T12: 0.0146 REMARK 3 T13: 0.0057 T23: 0.0006 REMARK 3 L TENSOR REMARK 3 L11: 0.7485 L22: 0.4608 REMARK 3 L33: 0.3170 L12: 0.1701 REMARK 3 L13: -0.0218 L23: -0.0346 REMARK 3 S TENSOR REMARK 3 S11: -0.0189 S12: 0.0308 S13: -0.0290 REMARK 3 S21: -0.0060 S22: -0.0051 S23: -0.0073 REMARK 3 S31: -0.0036 S32: 0.0023 S33: 0.0240 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : 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 REMARK 4 REMARK 4 4J20 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 20-FEB-13. REMARK 100 THE DEPOSITION ID IS D_1000077495. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-OCT-10 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : PHOTON FACTORY REMARK 200 BEAMLINE : BL-17A 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 : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315R REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 35354 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.300 REMARK 200 RESOLUTION RANGE LOW (A) : 60.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.6 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) : 1.30 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.35 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.4 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: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP REMARK 200 STARTING MODEL: 2ZON REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 39.01 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.02 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 3.0M AMMONIUM SULFATE, 30MM ZINC REMARK 280 CHLORIDE, 10% ISOPROPANOL, 50MM PHOSPHATE BUFFER, PH 5.0, VAPOR REMARK 280 DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 47.41200 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 16.91300 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 47.41200 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 16.91300 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: 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 350 REMARK 350 BIOMOLECULE: 2 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: 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 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 B 16 CAB HEB B 104 1.83 REMARK 500 SG CYS A 16 CAB HEB A 107 1.83 REMARK 500 SG CYS A 19 CAC HEB A 107 1.89 REMARK 500 SG CYS B 19 CAC HEB B 104 1.96 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 MET A 61 CG - SD - CE ANGL. DEV. = -12.7 DEGREES REMARK 500 GLY B 23 N - CA - C ANGL. DEV. = 15.7 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 MET B 24 -3.07 -58.22 REMARK 500 MET B 24 -2.07 -58.22 REMARK 500 MET B 24 -5.92 -58.22 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 HEB A 107 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 20 NE2 REMARK 620 2 HEB A 107 NA 90.6 REMARK 620 3 HEB A 107 NB 88.9 89.5 REMARK 620 4 HEB A 107 NC 87.7 178.3 90.5 REMARK 620 5 HEB A 107 ND 89.7 90.2 178.6 89.7 REMARK 620 6 MET A 62 SD 174.2 95.2 90.7 86.5 90.7 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA A 106 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 SO4 A 101 O1 REMARK 620 2 SO4 A 101 O2 58.7 REMARK 620 3 SO4 A 101 O4 56.4 60.4 REMARK 620 4 HOH A 359 O 82.9 117.7 134.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 HEB B 104 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS B 20 NE2 REMARK 620 2 HEB B 104 NA 89.8 REMARK 620 3 HEB B 104 NB 89.3 90.5 REMARK 620 4 HEB B 104 NC 89.9 179.6 89.8 REMARK 620 5 HEB B 104 ND 90.5 88.7 179.1 91.1 REMARK 620 6 MET B 62 SD 175.5 94.5 89.0 85.8 91.2 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 SO4 A 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA A 102 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA A 103 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA A 104 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA A 105 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA A 106 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HEB A 107 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC8 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA B 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC9 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA B 102 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IPA B 103 REMARK 800 REMARK 800 SITE_IDENTIFIER: BC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE HEB B 104 DBREF 4J20 A 1 88 UNP Q8KG93 C555_CHLTE 21 108 DBREF 4J20 B 1 88 UNP Q8KG93 C555_CHLTE 21 108 SEQADV 4J20 SER A 1 UNP Q8KG93 PRO 21 ENGINEERED MUTATION SEQADV 4J20 THR A 2 UNP Q8KG93 ALA 22 ENGINEERED MUTATION SEQADV 4J20 SER B 1 UNP Q8KG93 PRO 21 ENGINEERED MUTATION SEQADV 4J20 THR B 2 UNP Q8KG93 ALA 22 ENGINEERED MUTATION SEQRES 1 A 88 SER THR TYR ASP ALA ALA ALA GLY LYS ALA THR TYR ASP SEQRES 2 A 88 ALA SER CYS ALA THR CYS HIS LYS THR GLY MET MET GLY SEQRES 3 A 88 ALA PRO LYS VAL GLY ASP LYS ALA ALA TRP ALA PRO ARG SEQRES 4 A 88 ILE ALA GLN GLY MET ASN THR LEU VAL SER LYS SER ILE SEQRES 5 A 88 LYS GLY TYR LYS GLY THR LYS GLY MET MET PRO ALA LYS SEQRES 6 A 88 GLY GLY ASN ALA LYS LEU THR ASP ALA GLN VAL GLY ASN SEQRES 7 A 88 ALA VAL ALA TYR MET VAL GLY GLN SER LYS SEQRES 1 B 88 SER THR TYR ASP ALA ALA ALA GLY LYS ALA THR TYR ASP SEQRES 2 B 88 ALA SER CYS ALA THR CYS HIS LYS THR GLY MET MET GLY SEQRES 3 B 88 ALA PRO LYS VAL GLY ASP LYS ALA ALA TRP ALA PRO ARG SEQRES 4 B 88 ILE ALA GLN GLY MET ASN THR LEU VAL SER LYS SER ILE SEQRES 5 B 88 LYS GLY TYR LYS GLY THR LYS GLY MET MET PRO ALA LYS SEQRES 6 B 88 GLY GLY ASN ALA LYS LEU THR ASP ALA GLN VAL GLY ASN SEQRES 7 B 88 ALA VAL ALA TYR MET VAL GLY GLN SER LYS HET SO4 A 101 5 HET IPA A 102 4 HET IPA A 103 4 HET IPA A 104 4 HET IPA A 105 4 HET NA A 106 1 HET HEB A 107 43 HET IPA B 101 4 HET IPA B 102 4 HET IPA B 103 4 HET HEB B 104 43 HETNAM SO4 SULFATE ION HETNAM IPA ISOPROPYL ALCOHOL HETNAM NA SODIUM ION HETNAM HEB HEME B/C HETSYN IPA 2-PROPANOL HETSYN HEB HYBRID BETWEEN B AND C TYPE HEMES (PROTOPORPHYRIN IX HETSYN 2 HEB CONTAINING FE) FORMUL 3 SO4 O4 S 2- FORMUL 4 IPA 7(C3 H8 O) FORMUL 8 NA NA 1+ FORMUL 9 HEB 2(C34 H34 FE N4 O4) FORMUL 14 HOH *219(H2 O) HELIX 1 1 ASP A 4 CYS A 16 1 13 HELIX 2 2 CYS A 16 LYS A 21 1 6 HELIX 3 3 GLY A 23 ALA A 27 5 5 HELIX 4 4 ASP A 32 ALA A 41 1 10 HELIX 5 5 GLY A 43 GLY A 54 1 12 HELIX 6 6 PRO A 63 ASN A 68 5 6 HELIX 7 7 THR A 72 GLN A 86 1 15 HELIX 8 8 ASP B 4 CYS B 16 1 13 HELIX 9 9 CYS B 16 LYS B 21 1 6 HELIX 10 10 ASP B 32 ALA B 41 1 10 HELIX 11 11 GLY B 43 GLY B 54 1 12 HELIX 12 12 PRO B 63 ASN B 68 5 6 HELIX 13 13 THR B 72 GLN B 86 1 15 SHEET 1 A 2 TYR A 55 LYS A 56 0 SHEET 2 A 2 MET A 61 MET A 62 -1 O MET A 62 N TYR A 55 SHEET 1 B 2 TYR B 55 LYS B 56 0 SHEET 2 B 2 MET B 61 MET B 62 -1 O MET B 62 N TYR B 55 LINK NE2 HIS A 20 FE HEB A 107 1555 1555 2.02 LINK SD MET A 62 FE HEB A 107 1555 1555 2.32 LINK O1 SO4 A 101 NA NA A 106 1555 1555 2.40 LINK O2 SO4 A 101 NA NA A 106 1555 1555 2.47 LINK O4 SO4 A 101 NA NA A 106 1555 1555 2.47 LINK NA NA A 106 O HOH A 359 1555 1555 2.84 LINK NE2 HIS B 20 FE HEB B 104 1555 1555 2.01 LINK SD MET B 62 FE HEB B 104 1555 1555 2.34 SITE 1 AC1 11 GLY A 43 MET A 44 ASN A 45 NA A 106 SITE 2 AC1 11 HOH A 246 HOH A 311 HOH A 322 HOH A 414 SITE 3 AC1 11 HOH A 418 GLY B 43 MET B 44 SITE 1 AC2 4 SER A 1 HOH A 310 HOH A 314 THR B 2 SITE 1 AC3 1 GLN A 86 SITE 1 AC4 5 MET A 61 HOH A 313 HOH A 331 HOH A 346 SITE 2 AC4 5 LYS B 59 SITE 1 AC5 5 ALA A 69 LYS A 70 LEU A 71 ILE B 52 SITE 2 AC5 5 LYS B 53 SITE 1 AC6 4 SO4 A 101 HOH A 271 HOH A 359 MET B 44 SITE 1 AC7 22 SER A 15 CYS A 16 CYS A 19 HIS A 20 SITE 2 AC7 22 ALA A 27 PRO A 28 ARG A 39 GLN A 42 SITE 3 AC7 22 LEU A 47 LYS A 50 SER A 51 TYR A 55 SITE 4 AC7 22 GLY A 57 THR A 58 LYS A 59 GLY A 60 SITE 5 AC7 22 MET A 61 MET A 62 GLY A 66 VAL A 80 SITE 6 AC7 22 MET A 83 HOH A 403 SITE 1 AC8 4 LYS A 59 HOH A 224 THR B 22 LYS B 29 SITE 1 AC9 3 ALA A 34 GLY B 31 GLN B 86 SITE 1 BC1 5 HOH A 276 HOH A 416 THR B 18 CYS B 19 SITE 2 BC1 5 MET B 25 SITE 1 BC2 24 HOH A 384 SER B 15 CYS B 16 CYS B 19 SITE 2 BC2 24 HIS B 20 GLY B 26 ALA B 27 PRO B 28 SITE 3 BC2 24 TRP B 36 ARG B 39 GLN B 42 LEU B 47 SITE 4 BC2 24 LYS B 50 SER B 51 TYR B 55 GLY B 57 SITE 5 BC2 24 THR B 58 LYS B 59 GLY B 60 MET B 61 SITE 6 BC2 24 MET B 62 LYS B 65 GLY B 66 MET B 83 CRYST1 94.824 33.826 47.333 90.00 107.83 90.00 C 1 2 1 8 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 0.010546 0.000000 0.003391 0.00000 SCALE2 0.000000 0.029563 0.000000 0.00000 SCALE3 0.000000 0.000000 0.022192 0.00000