HEADER ELECTRON TRANSPORT 28-APR-15 4ZID TITLE DIMERIC HYDROGENOBACTER THERMOPHILUS CYTOCHROME C552 OBTAINED FROM TITLE 2 ESCHERICHIA COLI COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYTOCHROME C-552; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 19-98; COMPND 5 SYNONYM: CYTOCHROME C552; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HYDROGENOBACTER THERMOPHILUS (STRAIN DSM 6534 / SOURCE 3 IAM 12695 / TK-6); SOURCE 4 ORGANISM_TAXID: 608538; SOURCE 5 STRAIN: DSM 6534 / IAM 12695 / TK-6; SOURCE 6 GENE: HTH_0988, HYDTH_0984; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: JCB387; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PKO2 KEYWDS ELECTRON TRANSPORT EXPDTA X-RAY DIFFRACTION AUTHOR Y.HAYASHI,M.YAMANAKA,S.NAGAO,H.KOMORI,Y.HIGUCHI,S.HIROTA REVDAT 4 08-NOV-23 4ZID 1 REMARK REVDAT 3 19-FEB-20 4ZID 1 REMARK REVDAT 2 24-FEB-16 4ZID 1 JRNL REVDAT 1 10-FEB-16 4ZID 0 JRNL AUTH Y.HAYASHI,M.YAMANAKA,S.NAGAO,H.KOMORI,Y.HIGUCHI,S.HIROTA JRNL TITL DOMAIN SWAPPING OLIGOMERIZATION OF THERMOSTABLE C-TYPE JRNL TITL 2 CYTOCHROME IN E. COLI CELLS JRNL REF SCI REP V. 6 19334 2016 JRNL REFN ESSN 2045-2322 JRNL PMID 26838805 JRNL DOI 10.1038/SREP19334 REMARK 2 REMARK 2 RESOLUTION. 1.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.8.0107 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) : 1.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 39.67 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 98.7 REMARK 3 NUMBER OF REFLECTIONS : 8721 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) : 0.169 REMARK 3 R VALUE (WORKING SET) : 0.167 REMARK 3 FREE R VALUE : 0.204 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 440 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) : 1.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.85 REMARK 3 REFLECTION IN BIN (WORKING SET) : 586 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 91.94 REMARK 3 BIN R VALUE (WORKING SET) : 0.2560 REMARK 3 BIN FREE R VALUE SET COUNT : 30 REMARK 3 BIN FREE R VALUE : 0.2920 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 601 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 43 REMARK 3 SOLVENT ATOMS : 29 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 39.80 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 1.37000 REMARK 3 B22 (A**2) : 1.37000 REMARK 3 B33 (A**2) : -4.45000 REMARK 3 B12 (A**2) : 0.69000 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): 0.103 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.104 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.076 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.982 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.972 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.955 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 662 ; 0.032 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 650 ; 0.006 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 904 ; 2.847 ; 2.176 REMARK 3 BOND ANGLES OTHERS (DEGREES): 1501 ; 1.278 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 79 ; 6.136 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 21 ;37.829 ;26.190 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 116 ;15.757 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 1 ; 8.048 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 87 ; 0.177 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 742 ; 0.019 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 125 ; 0.002 ; 0.020 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): 319 ; 2.107 ; 2.110 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 318 ; 2.092 ; 2.104 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 397 ; 2.780 ; 3.142 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): 398 ; 2.785 ; 3.147 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 341 ; 3.113 ; 2.427 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): 337 ; 3.088 ; 2.425 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE OTHER ATOMS (A**2): 505 ; 4.476 ; 3.512 REMARK 3 LONG RANGE B REFINED ATOMS (A**2): 794 ; 6.127 ;18.303 REMARK 3 LONG RANGE B OTHER ATOMS (A**2): 793 ; 6.135 ;18.268 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 : 6 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 18 REMARK 3 ORIGIN FOR THE GROUP (A): -51.1133 16.7267 4.4051 REMARK 3 T TENSOR REMARK 3 T11: 0.0756 T22: 0.0910 REMARK 3 T33: 0.2188 T12: -0.0326 REMARK 3 T13: -0.0064 T23: 0.0928 REMARK 3 L TENSOR REMARK 3 L11: 11.0560 L22: 0.8433 REMARK 3 L33: 4.4426 L12: 0.1797 REMARK 3 L13: -1.1326 L23: 0.5198 REMARK 3 S TENSOR REMARK 3 S11: 0.0904 S12: -0.6666 S13: -0.7968 REMARK 3 S21: 0.0857 S22: 0.1017 S23: 0.2186 REMARK 3 S31: 0.4272 S32: -0.1897 S33: -0.1921 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 : A 19 A 33 REMARK 3 ORIGIN FOR THE GROUP (A): -29.6519 15.5012 -5.1844 REMARK 3 T TENSOR REMARK 3 T11: 0.1080 T22: 0.0949 REMARK 3 T33: 0.1573 T12: 0.0340 REMARK 3 T13: -0.0415 T23: -0.0256 REMARK 3 L TENSOR REMARK 3 L11: 7.2283 L22: 6.9424 REMARK 3 L33: 10.1763 L12: -1.0484 REMARK 3 L13: -0.1349 L23: -1.9663 REMARK 3 S TENSOR REMARK 3 S11: -0.0915 S12: 0.1496 S13: 0.2014 REMARK 3 S21: -0.1062 S22: 0.1350 S23: 0.2758 REMARK 3 S31: -0.4208 S32: -0.4194 S33: -0.0435 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 34 A 42 REMARK 3 ORIGIN FOR THE GROUP (A): -17.3925 18.0090 -11.3817 REMARK 3 T TENSOR REMARK 3 T11: 0.2151 T22: 0.2316 REMARK 3 T33: 0.4166 T12: -0.0776 REMARK 3 T13: -0.0077 T23: 0.1426 REMARK 3 L TENSOR REMARK 3 L11: 0.0517 L22: 2.8570 REMARK 3 L33: 24.3935 L12: 0.3110 REMARK 3 L13: -0.3480 L23: -6.2334 REMARK 3 S TENSOR REMARK 3 S11: -0.0563 S12: 0.0469 S13: 0.0405 REMARK 3 S21: -0.0208 S22: 0.0060 S23: 0.0342 REMARK 3 S31: -1.4031 S32: 0.1343 S33: 0.0503 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 : A 43 A 48 REMARK 3 ORIGIN FOR THE GROUP (A): -15.6537 11.2765 -1.9889 REMARK 3 T TENSOR REMARK 3 T11: 0.0749 T22: 0.0948 REMARK 3 T33: 0.1275 T12: -0.0133 REMARK 3 T13: 0.0111 T23: -0.0006 REMARK 3 L TENSOR REMARK 3 L11: 15.4406 L22: 8.9280 REMARK 3 L33: 33.0388 L12: 1.0489 REMARK 3 L13: 8.3696 L23: 0.6344 REMARK 3 S TENSOR REMARK 3 S11: -0.0861 S12: -0.0475 S13: 0.4141 REMARK 3 S21: 0.0569 S22: -0.0620 S23: -0.4791 REMARK 3 S31: -0.4739 S32: 0.6292 S33: 0.1481 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 49 A 70 REMARK 3 ORIGIN FOR THE GROUP (A): -19.5641 11.0206 0.0340 REMARK 3 T TENSOR REMARK 3 T11: 0.0703 T22: 0.0777 REMARK 3 T33: 0.1335 T12: -0.0359 REMARK 3 T13: 0.0194 T23: 0.0015 REMARK 3 L TENSOR REMARK 3 L11: 2.5075 L22: 4.7912 REMARK 3 L33: 6.0555 L12: -1.8609 REMARK 3 L13: 1.9896 L23: 1.1022 REMARK 3 S TENSOR REMARK 3 S11: -0.1285 S12: 0.0020 S13: 0.0207 REMARK 3 S21: 0.0994 S22: 0.1468 S23: -0.0726 REMARK 3 S31: -0.0875 S32: 0.3892 S33: -0.0183 REMARK 3 REMARK 3 TLS GROUP : 6 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 71 A 80 REMARK 3 ORIGIN FOR THE GROUP (A): -25.1051 9.1245 -12.4622 REMARK 3 T TENSOR REMARK 3 T11: 0.1081 T22: 0.1223 REMARK 3 T33: 0.0636 T12: -0.0041 REMARK 3 T13: 0.0114 T23: -0.0401 REMARK 3 L TENSOR REMARK 3 L11: 10.6222 L22: 8.2166 REMARK 3 L33: 9.7407 L12: -0.4295 REMARK 3 L13: -1.6579 L23: -2.6889 REMARK 3 S TENSOR REMARK 3 S11: 0.0779 S12: 0.5726 S13: -0.1079 REMARK 3 S21: -0.3288 S22: -0.0687 S23: 0.2881 REMARK 3 S31: 0.2601 S32: 0.0664 S33: -0.0092 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 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 4ZID COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 07-MAY-15. REMARK 100 THE DEPOSITION ID IS D_1000209340. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-JUN-13 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SPRING-8 REMARK 200 BEAMLINE : BL38B1 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0000 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : REFMAC 5.8.0107 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 9242 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.2 REMARK 200 DATA REDUNDANCY : 9.700 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 37.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.86 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.9 REMARK 200 DATA REDUNDANCY IN SHELL : 7.10 REMARK 200 R MERGE FOR SHELL (I) : 0.64900 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.200 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: 3VYM REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 55.47 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.76 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.6 M SODIUM CITRATE BUFFER, PH 6.5, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -Y,X-Y,Z+1/3 REMARK 290 3555 -X+Y,-X,Z+2/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 2 0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 26.10133 REMARK 290 SMTRY1 3 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 3 -0.866025 -0.500000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 52.20267 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 52.20267 REMARK 290 SMTRY1 6 -0.500000 -0.866025 0.000000 0.00000 REMARK 290 SMTRY2 6 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 26.10133 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5440 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 9290 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -64.0 KCAL/MOL 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 BIOMT1 2 -0.500000 0.866025 0.000000 -68.71200 REMARK 350 BIOMT2 2 0.866025 0.500000 0.000000 39.67089 REMARK 350 BIOMT3 2 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 A 13 CAC HEC A 101 2.12 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 VAL A 21 CB VAL A 21 CG1 -0.133 REMARK 500 TRP A 54 CZ3 TRP A 54 CH2 0.109 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 A 37 CB - CG - OD2 ANGL. DEV. = 6.3 DEGREES REMARK 500 ASP A 66 CB - CG - OD1 ANGL. DEV. = 6.1 DEGREES REMARK 500 ASP A 66 CB - CG - OD2 ANGL. DEV. = -5.6 DEGREES REMARK 500 SER A 78 CB - CA - C ANGL. DEV. = -12.3 DEGREES 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 A 101 FE REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 14 NE2 REMARK 620 2 HEC A 101 NA 88.3 REMARK 620 3 HEC A 101 NB 90.4 88.0 REMARK 620 4 HEC A 101 NC 91.0 179.0 92.7 REMARK 620 5 HEC A 101 ND 89.0 91.1 178.9 88.2 REMARK 620 6 MET A 59 SD 38.9 80.1 127.5 98.9 51.6 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 HEC A 101 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3VYM RELATED DB: PDB REMARK 900 THE SAMPLE WAS PREPARED WITH A DIFFERENT METHOD. DBREF 4ZID A 1 80 UNP P15452 CY552_HYDTT 19 98 SEQRES 1 A 80 ASN GLU GLN LEU ALA LYS GLN LYS GLY CYS MET ALA CYS SEQRES 2 A 80 HIS ASP LEU LYS ALA LYS LYS VAL GLY PRO ALA TYR ALA SEQRES 3 A 80 ASP VAL ALA LYS LYS TYR ALA GLY ARG LYS ASP ALA VAL SEQRES 4 A 80 ASP TYR LEU ALA GLY LYS ILE LYS LYS GLY GLY SER GLY SEQRES 5 A 80 VAL TRP GLY SER VAL PRO MET PRO PRO GLN ASN VAL THR SEQRES 6 A 80 ASP ALA GLU ALA LYS GLN LEU ALA GLN TRP ILE LEU SER SEQRES 7 A 80 ILE LYS HET HEC A 101 43 HETNAM HEC HEME C FORMUL 2 HEC C34 H34 FE N4 O4 FORMUL 3 HOH *29(H2 O) HELIX 1 AA1 ASN A 1 LYS A 8 1 8 HELIX 2 AA2 GLY A 9 CYS A 13 5 5 HELIX 3 AA3 ALA A 24 TYR A 32 1 9 HELIX 4 AA4 ASP A 37 GLY A 49 1 13 HELIX 5 AA5 THR A 65 SER A 78 1 14 LINK SG CYS A 10 CAB HEC A 101 1555 1555 1.80 LINK NE2 HIS A 14 FE HEC A 101 1555 1555 2.01 LINK SD MET A 59 FE HEC A 101 1555 4465 2.26 SITE 1 AC1 18 CYS A 10 CYS A 13 HIS A 14 PRO A 23 SITE 2 AC1 18 TYR A 25 TYR A 32 TYR A 41 GLY A 50 SITE 3 AC1 18 SER A 51 GLY A 52 VAL A 53 TRP A 54 SITE 4 AC1 18 GLY A 55 VAL A 57 MET A 59 GLN A 62 SITE 5 AC1 18 HOH A 208 HOH A 210 CRYST1 45.808 45.808 78.304 90.00 90.00 120.00 P 31 2 1 6 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 0.021830 0.012604 0.000000 0.00000 SCALE2 0.000000 0.025207 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012771 0.00000