HEADER OXIDOREDUCTASE 09-JUL-11 3ST7 TITLE CRYSTAL STRUCTURE OF CAPSULAR POLYSACCHARIDE ASSEMBLING PROTEIN CAPF TITLE 2 FROM STAPHYLOCOCCUS AUREUS 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: 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: ROSETTA2(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET26 KEYWDS ROSSMANN FOLD, CUPID DOMAIN, SHORT-CHAIN DEHYDROGENASE/REDUCTASE, KEYWDS 2 NADPH, UDP-4-HEXULOSE REDUCTASE, OXIDOREDUCTASE EXPDTA X-RAY DIFFRACTION AUTHOR T.MIYAFUSA,Y.TANAKA,M.KURODA,M.YAO,M.WATANABE,T.OHTA,I.TANAKA, AUTHOR 2 J.M.M.CAAVEIRO,K.TSUMOTO REVDAT 6 06-DEC-23 3ST7 1 REMARK REVDAT 5 01-NOV-23 3ST7 1 REMARK LINK REVDAT 4 08-NOV-17 3ST7 1 REMARK REVDAT 3 13-JUN-12 3ST7 1 JRNL REVDAT 2 11-APR-12 3ST7 1 JRNL REVDAT 1 15-FEB-12 3ST7 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. 2.45 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 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) : 2.45 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 103.52 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.7 REMARK 3 NUMBER OF REFLECTIONS : 39636 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) : 0.193 REMARK 3 R VALUE (WORKING SET) : 0.192 REMARK 3 FREE R VALUE : 0.214 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1597 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) : 2.45 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.51 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2788 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2960 REMARK 3 BIN FREE R VALUE SET COUNT : 118 REMARK 3 BIN FREE R VALUE : 0.3630 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2987 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 13 REMARK 3 SOLVENT ATOMS : 60 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 70.46 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.65000 REMARK 3 B22 (A**2) : -0.65000 REMARK 3 B33 (A**2) : 0.98000 REMARK 3 B12 (A**2) : -0.33000 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): 0.151 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.122 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 12.193 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.958 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.945 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3065 ; 0.012 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4161 ; 1.465 ; 1.958 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 368 ; 6.424 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 152 ;41.377 ;24.934 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 529 ;19.956 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;21.205 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 465 ; 0.121 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2328 ; 0.006 ; 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): 1840 ; 0.702 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3007 ; 1.388 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1225 ; 2.253 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1154 ; 3.617 ; 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 : 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): -55.1956 12.3416 9.6808 REMARK 3 T TENSOR REMARK 3 T11: 0.1055 T22: 0.0319 REMARK 3 T33: 0.0658 T12: -0.0291 REMARK 3 T13: -0.0587 T23: 0.0217 REMARK 3 L TENSOR REMARK 3 L11: 1.8013 L22: 3.1108 REMARK 3 L33: 2.5041 L12: 1.3859 REMARK 3 L13: -1.3306 L23: -1.7620 REMARK 3 S TENSOR REMARK 3 S11: -0.2068 S12: 0.2057 S13: 0.1014 REMARK 3 S21: -0.2614 S22: 0.2257 S23: 0.0407 REMARK 3 S31: -0.0424 S32: -0.1869 S33: -0.0189 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 REMARK 4 REMARK 4 3ST7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 22-JUL-11. REMARK 100 THE DEPOSITION ID IS D_1000066621. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 22-APR-07 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 7.1 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) : 1.000 REMARK 200 MONOCHROMATOR : SI(111) REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.16 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 39695 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.450 REMARK 200 RESOLUTION RANGE LOW (A) : 103.520 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 8.900 REMARK 200 R MERGE (I) : 0.07000 REMARK 200 R SYM (I) : 0.07000 REMARK 200 FOR THE DATA SET : 20.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.45 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.58 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 9.00 REMARK 200 R MERGE FOR SHELL (I) : 0.85800 REMARK 200 R SYM FOR SHELL (I) : 0.85800 REMARK 200 FOR SHELL : 0.900 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: PDB ENTRY 2ZKL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): NULL REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): NULL REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 300MM NACL, 100MM AMMONIUM SULFATE, REMARK 280 100MM MES, 3.9M SODIUM FORMATE, PH 7.1, VAPOR DIFFUSION, HANGING REMARK 280 DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 32 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+2/3 REMARK 290 3555 -X+Y,-X,Z+1/3 REMARK 290 4555 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+1/3 REMARK 290 6555 -X,-X+Y,-Z+2/3 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 86.30000 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 43.15000 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 43.15000 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 86.30000 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: 6880 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 34200 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -42.0 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 43.15000 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. = 14.4 DEGREES REMARK 500 LEU A 170 CA - CB - CG ANGL. DEV. = 14.3 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 PRO A 59 -33.21 -39.72 REMARK 500 LYS A 86 78.75 -103.05 REMARK 500 TRP A 137 -7.56 83.39 REMARK 500 TYR A 142 76.44 -155.18 REMARK 500 PHE A 265 -64.04 -109.24 REMARK 500 GLN A 361 78.17 -117.60 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 GLU A 368 VAL A 369 149.56 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 ZN A 400 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS A 290 NE2 REMARK 620 2 GLU A 295 OE1 89.7 REMARK 620 3 HIS A 337 NE2 98.4 98.8 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 GOL A 370 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE GOL A 371 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2ZKL RELATED DB: PDB DBREF 3ST7 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 3ST7 MSE A 1 MET SELENOMETHIONINE MODRES 3ST7 MSE A 254 MET SELENOMETHIONINE MODRES 3ST7 MSE A 347 MET SELENOMETHIONINE MODRES 3ST7 MSE A 351 MET SELENOMETHIONINE MODRES 3ST7 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 GOL A 370 6 HET GOL A 371 6 HETNAM MSE SELENOMETHIONINE HETNAM ZN ZINC ION HETNAM GOL GLYCEROL HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 1 MSE 5(C5 H11 N O2 SE) FORMUL 2 ZN ZN 2+ FORMUL 3 GOL 2(C3 H8 O3) FORMUL 5 HOH *60(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 GLN A 96 GLN A 99 5 4 HELIX 5 5 ASN A 101 GLY A 122 1 22 HELIX 6 6 SER A 144 ARG A 155 1 12 HELIX 7 7 VAL A 173 GLY A 186 1 14 HELIX 8 8 LEU A 205 ARG A 222 1 18 HELIX 9 9 ASN A 229 TYR A 242 1 14 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 94 1 O ALA A 88 N ILE A 50 SHEET 5 A 5 VAL A 125 TRP A 130 1 O TYR A 126 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 VAL A 203 N LEU A 168 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 ASP A 257 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 THR A 349 N ASN A 277 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 317 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 1.34 LINK C LEU A 253 N MSE A 254 1555 1555 1.32 LINK C MSE A 254 N ASN A 255 1555 1555 1.33 LINK C ASP A 346 N MSE A 347 1555 1555 1.32 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 1.33 LINK C GLU A 355 N MSE A 356 1555 1555 1.32 LINK C MSE A 356 N PHE A 357 1555 1555 1.32 LINK NE2 HIS A 290 ZN ZN A 400 1555 1555 2.20 LINK OE1 GLU A 295 ZN ZN A 400 1555 1555 1.96 LINK NE2 HIS A 337 ZN ZN A 400 1555 1555 2.21 SITE 1 AC1 4 HIS A 288 HIS A 290 GLU A 295 HIS A 337 SITE 1 AC2 7 PHE A 215 LYS A 216 SER A 218 ARG A 219 SITE 2 AC2 7 TYR A 236 LYS A 296 ASP A 330 SITE 1 AC3 4 THR A 246 GLU A 318 HOH A 395 HOH A 411 CRYST1 119.530 119.530 129.450 90.00 90.00 120.00 P 32 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 0.008366 0.004830 0.000000 0.00000 SCALE2 0.000000 0.009660 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007725 0.00000 HETATM 1 N MSE A 1 -57.627 42.104 11.192 1.00100.11 N ANISOU 1 N MSE A 1 15868 7647 14522 1191 2539 1424 N HETATM 2 CA MSE A 1 -56.354 42.120 10.416 1.00 98.59 C ANISOU 2 CA MSE A 1 15693 7609 14158 920 2268 1345 C HETATM 3 C MSE A 1 -56.604 41.520 9.036 1.00 94.77 C ANISOU 3 C MSE A 1 14820 7461 13726 1005 1970 1619 C HETATM 4 O MSE A 1 -57.239 40.465 8.924 1.00 92.95 O ANISOU 4 O MSE A 1 14305 7510 13502 1097 1801 1705 O HETATM 5 CB MSE A 1 -55.281 41.315 11.155 1.00 97.60 C ANISOU 5 CB MSE A 1 15668 7668 13748 602 2066 1009 C HETATM 6 CG MSE A 1 -53.846 41.817 10.973 1.00104.38 C ANISOU 6 CG MSE A 1 16733 8485 14438 283 1968 840 C HETATM 7 SE MSE A 1 -52.428 40.422 11.075 1.00118.63 SE ANISOU 7 SE MSE A 1 18391 10734 15949 -70 1535 609 SE HETATM 8 CE MSE A 1 -52.602 39.839 12.963 1.00114.38 C ANISOU 8 CE MSE A 1 18054 10148 15257 -166 1634 322 C