HEADER OXIDOREDUCTASE 01-SEP-11 3VHR TITLE CRYSTAL STRUCTURE OF CAPSULAR POLYSACCHARIDE ASSEMBLING PROTEIN CAPF TITLE 2 FROM STAPHYLOCOCCUS AUREUS IN SPACE GROUP C2221 COMPND MOL_ID: 1; COMPND 2 MOLECULE: CAPSULAR POLYSACCHARIDE SYNTHESIS ENZYME CAP5F; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STAPHYLOCOCCUS AUREUS; SOURCE 3 ORGANISM_TAXID: 158878; SOURCE 4 STRAIN: STRAIN MU50 / ATCC 700699; SOURCE 5 GENE: CAPF, SAV0154; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: ROSSETTA 2 (DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET26 KEYWDS ROSSMANN FOLD, CUPIN DOMAIN, SHORT-CHAIN DEHYDROGENASE/REDUCTASE, KEYWDS 2 NADPH-DEPENDENT UDP-4-HEXULOSE REDUCTASE, ZN2+, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR T.MIYAFUSA,T.YOSHIKAZU,J.M.M.CAAVEIRO,K.TSUMOTO REVDAT 6 06-DEC-23 3VHR 1 REMARK REVDAT 5 08-NOV-23 3VHR 1 REMARK LINK REVDAT 4 22-NOV-17 3VHR 1 REMARK REVDAT 3 13-JUN-12 3VHR 1 JRNL REVDAT 2 11-APR-12 3VHR 1 JRNL REVDAT 1 15-FEB-12 3VHR 0 JRNL AUTH T.MIYAFUSA,J.M.CAAVEIRO,Y.TANAKA,K.TSUMOTO JRNL TITL CRYSTAL STRUCTURE OF THE ENZYME CAPF OF STAPHYLOCOCCUS JRNL TITL 2 AUREUS REVEALS A UNIQUE ARCHITECTURE COMPOSED OF TWO JRNL TITL 3 FUNCTIONAL DOMAINS. JRNL REF BIOCHEM.J. V. 443 671 2012 JRNL REFN ISSN 0264-6021 JRNL PMID 22320426 JRNL DOI 10.1042/BJ20112049 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH T.MIYAFUSA,Y.TANAKA,M.KURODA,T.OHTA,K.TSUMOTO REMARK 1 TITL EXPRESSION, PURIFICATION, CRYSTALLIZATION AND PRELIMINARY REMARK 1 TITL 2 DIFFRACTION ANALYSIS OF CAPF, A CAPSULAR REMARK 1 TITL 3 POLYSACCHARIDE-SYNTHESIS ENZYME FROM STAPHYLOCOCCUS AUREUS. REMARK 1 REF ACTA CRYSTALLOGR.,SECT.F V. 64 512 2008 REMARK 1 REFN ESSN 1744-3091 REMARK 1 PMID 18540063 REMARK 1 DOI 10.1107/S174430910801213X REMARK 2 REMARK 2 RESOLUTION. 2.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0117 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) : 2.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 48.47 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 12910 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) : 0.198 REMARK 3 FREE R VALUE : 0.259 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 630 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) : 2.70 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.77 REMARK 3 REFLECTION IN BIN (WORKING SET) : 785 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.3410 REMARK 3 BIN FREE R VALUE SET COUNT : 48 REMARK 3 BIN FREE R VALUE : 0.4760 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2776 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 7 REMARK 3 SOLVENT ATOMS : 28 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 47.12 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -2.12000 REMARK 3 B22 (A**2) : 4.49000 REMARK 3 B33 (A**2) : -2.37000 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): 0.341 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.233 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 24.825 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.937 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.896 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2841 ; 0.008 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3855 ; 1.318 ; 1.963 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 340 ; 5.817 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 138 ;40.957 ;24.783 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 477 ;20.251 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 13 ;17.755 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 437 ; 0.095 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2142 ; 0.005 ; 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 : 1 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 369 REMARK 3 ORIGIN FOR THE GROUP (A): 6.7871 23.6366 19.1372 REMARK 3 T TENSOR REMARK 3 T11: 0.0655 T22: 0.0470 REMARK 3 T33: 0.1445 T12: 0.0007 REMARK 3 T13: -0.0039 T23: -0.0406 REMARK 3 L TENSOR REMARK 3 L11: 1.7826 L22: 0.6574 REMARK 3 L33: 5.1305 L12: 0.2330 REMARK 3 L13: -1.6826 L23: -1.0847 REMARK 3 S TENSOR REMARK 3 S11: 0.0904 S12: 0.0591 S13: 0.0100 REMARK 3 S21: 0.0405 S22: -0.0901 S23: -0.0320 REMARK 3 S31: -0.1529 S32: 0.2764 S33: -0.0003 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 USED IF PRESENT IN REMARK 3 THE INPUT U VALUES: WITH TLS ADDED REMARK 4 REMARK 4 3VHR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 16-SEP-11. REMARK 100 THE DEPOSITION ID IS D_1000095059. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-NOV-05 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 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-5A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9793 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 315 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 12933 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.700 REMARK 200 RESOLUTION RANGE LOW (A) : 65.760 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 6.900 REMARK 200 R MERGE (I) : 0.09900 REMARK 200 R SYM (I) : 0.09900 REMARK 200 FOR THE DATA SET : 13.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.85 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 7.00 REMARK 200 R MERGE FOR SHELL (I) : 0.46700 REMARK 200 R SYM FOR SHELL (I) : 0.46700 REMARK 200 FOR SHELL : 4.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: 3ST7 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 54.10 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.68 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 17.5% PEG 3350, SODIUM MALONATE 0.2M, REMARK 280 PH 8.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 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 65.76500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 65.76500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 0.000000 -1.000000 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 33.03000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 52.50500 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 33.03000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 52.50500 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 65.76500 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 33.03000 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 52.50500 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 65.76500 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 33.03000 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 52.50500 REMARK 290 SMTRY3 8 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7820 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 31400 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -113.0 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 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 65.76500 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 GLY A 55 REMARK 465 VAL A 56 REMARK 465 ASN A 57 REMARK 465 ARG A 58 REMARK 465 PRO A 59 REMARK 465 GLU A 60 REMARK 465 HIS A 61 REMARK 465 ASP A 62 REMARK 465 LYS A 63 REMARK 465 GLU A 64 REMARK 465 PHE A 65 REMARK 465 ILE A 95 REMARK 465 GLN A 96 REMARK 465 ALA A 97 REMARK 465 THR A 98 REMARK 465 GLN A 99 REMARK 465 ASP A 100 REMARK 465 ASN A 101 REMARK 465 PRO A 102 REMARK 465 TYR A 103 REMARK 465 GLY A 104 REMARK 465 GLU A 105 REMARK 465 SER A 106 REMARK 465 LYS A 107 REMARK 465 LEU A 108 REMARK 465 GLN A 109 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 LEU A 90 CA - CB - CG ANGL. DEV. = 16.2 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 PRO A 131 -168.50 -78.31 REMARK 500 PHE A 265 -66.18 -120.12 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 ZN A 400 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 290 NE2 REMARK 620 2 GLU A 295 OE1 97.6 REMARK 620 3 HIS A 337 NE2 107.5 97.9 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 400 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FMT A 370 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE FMT A 371 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3ST7 RELATED DB: PDB REMARK 900 CAPF CRYSTALLIZED IN SPACE GROUP P 32 2 1 DBREF 3VHR A 1 369 UNP Q99X63 Q99X63_STAAM 1 369 SEQRES 1 A 369 MSE ASN ILE VAL ILE THR GLY ALA LYS GLY PHE VAL GLY SEQRES 2 A 369 LYS ASN LEU LYS ALA ASP LEU THR SER THR THR ASP HIS SEQRES 3 A 369 HIS ILE PHE GLU VAL HIS ARG GLN THR LYS GLU GLU GLU SEQRES 4 A 369 LEU GLU SER ALA LEU LEU LYS ALA ASP PHE ILE VAL HIS SEQRES 5 A 369 LEU ALA GLY VAL ASN ARG PRO GLU HIS ASP LYS GLU PHE SEQRES 6 A 369 SER LEU GLY ASN VAL SER TYR LEU ASP HIS VAL LEU ASP SEQRES 7 A 369 ILE LEU THR ARG ASN THR LYS LYS PRO ALA ILE LEU LEU SEQRES 8 A 369 SER SER SER ILE GLN ALA THR GLN ASP ASN PRO TYR GLY SEQRES 9 A 369 GLU SER LYS LEU GLN GLY GLU GLN LEU LEU ARG GLU TYR SEQRES 10 A 369 ALA GLU GLU TYR GLY ASN THR VAL TYR ILE TYR ARG TRP SEQRES 11 A 369 PRO ASN LEU PHE GLY LYS TRP CYS LYS PRO ASN TYR ASN SEQRES 12 A 369 SER VAL ILE ALA THR PHE CYS TYR LYS ILE ALA ARG ASN SEQRES 13 A 369 GLU GLU ILE GLN VAL ASN ASP ARG ASN VAL GLU LEU THR SEQRES 14 A 369 LEU ASN TYR VAL ASP ASP ILE VAL ALA GLU ILE LYS ARG SEQRES 15 A 369 ALA ILE GLU GLY THR PRO THR ILE GLU ASN GLY VAL PRO SEQRES 16 A 369 THR VAL PRO ASN VAL PHE LYS VAL THR LEU GLY GLU ILE SEQRES 17 A 369 VAL ASP LEU LEU TYR LYS PHE LYS GLN SER ARG LEU ASP SEQRES 18 A 369 ARG THR LEU PRO LYS LEU ASP ASN LEU PHE GLU LYS ASP SEQRES 19 A 369 LEU TYR SER THR TYR LEU SER TYR LEU PRO SER THR ASP SEQRES 20 A 369 PHE SER TYR PRO LEU LEU MSE ASN VAL ASP ASP ARG GLY SEQRES 21 A 369 SER PHE THR GLU PHE ILE LYS THR PRO ASP ARG GLY GLN SEQRES 22 A 369 VAL SER VAL ASN ILE SER LYS PRO GLY ILE THR LYS GLY SEQRES 23 A 369 ASN HIS TRP HIS HIS THR LYS ASN GLU LYS PHE LEU VAL SEQRES 24 A 369 VAL SER GLY LYS GLY VAL ILE ARG PHE ARG HIS VAL ASN SEQRES 25 A 369 ASP ASP GLU ILE ILE GLU TYR TYR VAL SER GLY ASP LYS SEQRES 26 A 369 LEU GLU VAL VAL ASP ILE PRO VAL GLY TYR THR HIS ASN SEQRES 27 A 369 ILE GLU ASN LEU GLY ASP THR ASP MSE VAL THR ILE MSE SEQRES 28 A 369 TRP VAL ASN GLU MSE PHE ASP PRO ASN GLN PRO ASP THR SEQRES 29 A 369 TYR PHE LEU GLU VAL MODRES 3VHR MSE A 1 MET SELENOMETHIONINE MODRES 3VHR MSE A 254 MET SELENOMETHIONINE MODRES 3VHR MSE A 347 MET SELENOMETHIONINE MODRES 3VHR MSE A 351 MET SELENOMETHIONINE MODRES 3VHR MSE A 356 MET SELENOMETHIONINE HET MSE A 1 8 HET MSE A 254 8 HET MSE A 347 8 HET MSE A 351 8 HET MSE A 356 8 HET ZN A 400 1 HET FMT A 370 3 HET FMT A 371 3 HETNAM MSE SELENOMETHIONINE HETNAM ZN ZINC ION HETNAM FMT FORMIC ACID FORMUL 1 MSE 5(C5 H11 N O2 SE) FORMUL 2 ZN ZN 2+ FORMUL 3 FMT 2(C H2 O2) FORMUL 5 HOH *28(H2 O) HELIX 1 1 GLY A 10 THR A 24 1 15 HELIX 2 2 LYS A 36 ALA A 47 1 12 HELIX 3 3 SER A 71 THR A 81 1 11 HELIX 4 4 GLU A 111 GLY A 122 1 12 HELIX 5 5 SER A 144 ARG A 155 1 12 HELIX 6 6 VAL A 173 GLU A 185 1 13 HELIX 7 7 LEU A 205 ARG A 222 1 18 HELIX 8 8 ASN A 229 SER A 241 1 13 SHEET 1 A 5 HIS A 27 GLU A 30 0 SHEET 2 A 5 ASN A 2 THR A 6 1 N ILE A 3 O PHE A 29 SHEET 3 A 5 PHE A 49 HIS A 52 1 O VAL A 51 N VAL A 4 SHEET 4 A 5 ALA A 88 SER A 92 1 O LEU A 90 N HIS A 52 SHEET 5 A 5 VAL A 125 TYR A 128 1 O TYR A 128 N LEU A 91 SHEET 1 B 3 ASN A 132 PHE A 134 0 SHEET 2 B 3 GLU A 167 TYR A 172 1 O ASN A 171 N ASN A 132 SHEET 3 B 3 PHE A 201 THR A 204 -1 O PHE A 201 N LEU A 170 SHEET 1 C 2 ILE A 190 GLU A 191 0 SHEET 2 C 2 VAL A 194 PRO A 195 -1 O VAL A 194 N GLU A 191 SHEET 1 D 6 MSE A 254 VAL A 256 0 SHEET 2 D 6 GLY A 260 LYS A 267 -1 O PHE A 262 N ASN A 255 SHEET 3 D 6 GLN A 273 SER A 279 -1 O VAL A 276 N THR A 263 SHEET 4 D 6 MSE A 347 VAL A 353 -1 O MSE A 347 N SER A 279 SHEET 5 D 6 GLU A 295 SER A 301 -1 N LEU A 298 O ILE A 350 SHEET 6 D 6 VAL A 328 ILE A 331 -1 O VAL A 329 N PHE A 297 SHEET 1 E 5 ILE A 316 SER A 322 0 SHEET 2 E 5 LYS A 303 HIS A 310 -1 N PHE A 308 O ILE A 317 SHEET 3 E 5 TYR A 335 ASN A 341 -1 O ASN A 338 N ARG A 307 SHEET 4 E 5 THR A 284 TRP A 289 -1 N LYS A 285 O ILE A 339 SHEET 5 E 5 TYR A 365 PHE A 366 -1 O TYR A 365 N TRP A 289 LINK C MSE A 1 N ASN A 2 1555 1555 1.33 LINK C LEU A 253 N MSE A 254 1555 1555 1.34 LINK C MSE A 254 N ASN A 255 1555 1555 1.33 LINK C ASP A 346 N MSE A 347 1555 1555 1.33 LINK C MSE A 347 N VAL A 348 1555 1555 1.33 LINK C ILE A 350 N MSE A 351 1555 1555 1.33 LINK C MSE A 351 N TRP A 352 1555 1555 1.32 LINK C GLU A 355 N MSE A 356 1555 1555 1.32 LINK C MSE A 356 N PHE A 357 1555 1555 1.33 LINK NE2 HIS A 290 ZN ZN A 400 1555 1555 2.10 LINK OE1 GLU A 295 ZN ZN A 400 1555 1555 2.20 LINK NE2 HIS A 337 ZN ZN A 400 1555 1555 2.07 SITE 1 AC1 4 HIS A 288 HIS A 290 GLU A 295 HIS A 337 SITE 1 AC2 5 PHE A 215 ARG A 219 TYR A 236 LYS A 296 SITE 2 AC2 5 ASP A 330 SITE 1 AC3 2 ARG A 271 GLY A 272 CRYST1 66.060 105.010 131.530 90.00 90.00 90.00 C 2 2 21 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 0.015138 0.000000 0.000000 0.00000 SCALE2 0.000000 0.009523 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007603 0.00000 HETATM 1 N MSE A 1 -2.141 23.104 -9.624 1.00 54.23 N ANISOU 1 N MSE A 1 4832 11423 4348 -411 -340 -162 N HETATM 2 CA MSE A 1 -1.327 24.232 -10.173 1.00 53.63 C ANISOU 2 CA MSE A 1 4740 11282 4354 -112 -278 30 C HETATM 3 C MSE A 1 0.122 23.836 -10.255 1.00 51.58 C ANISOU 3 C MSE A 1 4730 10616 4251 -108 -215 -132 C HETATM 4 O MSE A 1 0.636 23.139 -9.372 1.00 50.71 O ANISOU 4 O MSE A 1 4818 10136 4315 -183 -193 -300 O HETATM 5 CB MSE A 1 -1.425 25.412 -9.212 1.00 52.92 C ANISOU 5 CB MSE A 1 4618 11011 4476 179 -231 269 C HETATM 6 CG MSE A 1 -1.769 26.715 -9.917 1.00 55.22 C ANISOU 6 CG MSE A 1 4725 11590 4665 451 -192 581 C HETATM 7 SE MSE A 1 -1.362 28.235 -8.723 1.00 54.50 SE ANISOU 7 SE MSE A 1 4762 11057 4889 821 -65 830 SE HETATM 8 CE MSE A 1 -2.922 29.342 -9.232 1.00 58.29 C ANISOU 8 CE MSE A 1 4925 12103 5117 1098 -37 1220 C