HEADER LYASE 25-MAY-07 2Z2N TITLE CRYSTAL STRUCTURE OF SELENOMETHIONINE SUBSTITUTED VIRGINIAMYCIN B TITLE 2 LYASE FROM STAPHYLOCOCCUS AUREUS COMPND MOL_ID: 1; COMPND 2 MOLECULE: VIRGINIAMYCIN B LYASE; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: VGH PROTEIN, HYDROLASE VGB; COMPND 5 EC: 4.2.99.-, 5.5.1.-; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STAPHYLOCOCCUS AUREUS; SOURCE 3 ORGANISM_TAXID: 1280; SOURCE 4 STRAIN: BM30002/PIP524; SOURCE 5 GENE: VGB, VGH; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET15B KEYWDS LYASE, SEVEN-BLADED BETA-PROPELLER, ANTIBIOTIC RESISTANCE, ENZYME KEYWDS 2 MECHANISM, VIRGINIAMYCIN B LYASE, VIRGINIAMYCIN B HYDROLASE, KEYWDS 3 STREPTOGRAMIN EXPDTA X-RAY DIFFRACTION AUTHOR M.KORCZYNSKA,A.M.BERGHUIS REVDAT 5 13-JUL-11 2Z2N 1 VERSN REVDAT 4 24-FEB-09 2Z2N 1 VERSN REVDAT 3 06-MAY-08 2Z2N 1 COMPND REVDAT 2 27-NOV-07 2Z2N 1 JRNL REVDAT 1 19-JUN-07 2Z2N 0 JRNL AUTH M.KORCZYNSKA,T.A.MUKHTAR,G.D.WRIGHT,A.M.BERGHUIS JRNL TITL STRUCTURAL BASIS FOR STREPTOGRAMIN B RESISTANCE IN JRNL TITL 2 STAPHYLOCOCCUS AUREUS BY VIRGINIAMYCIN B LYASE JRNL REF PROC.NATL.ACAD.SCI.USA V. 104 10388 2007 JRNL REFN ISSN 0027-8424 JRNL PMID 17563376 JRNL DOI 10.1073/PNAS.0701809104 REMARK 2 REMARK 2 RESOLUTION. 1.65 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.65 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 93.3 REMARK 3 NUMBER OF REFLECTIONS : 25084 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) : 0.161 REMARK 3 R VALUE (WORKING SET) : 0.156 REMARK 3 FREE R VALUE : 0.203 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 9.900 REMARK 3 FREE R VALUE TEST SET COUNT : 2747 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 10 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.65 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.74 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2930 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 74.56 REMARK 3 BIN R VALUE (WORKING SET) : 0.1950 REMARK 3 BIN FREE R VALUE SET COUNT : 265 REMARK 3 BIN FREE R VALUE : 0.2370 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2272 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 1 REMARK 3 SOLVENT ATOMS : 210 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : LIKELY RESIDUAL REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 20.20 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.18000 REMARK 3 B22 (A**2) : -1.43000 REMARK 3 B33 (A**2) : -0.04000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -1.77000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.112 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.113 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.080 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.765 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.973 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.953 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2376 ; 0.025 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 2118 ; 0.002 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3248 ; 2.271 ; 1.952 REMARK 3 BOND ANGLES OTHERS (DEGREES): 4985 ; 1.125 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 312 ; 9.109 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 102 ;37.671 ;25.588 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 404 ;17.132 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 8 ;20.475 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 363 ; 0.165 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2663 ; 0.010 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 445 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 509 ; 0.254 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 2343 ; 0.216 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1139 ; 0.192 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 1448 ; 0.095 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 157 ; 0.252 ; 0.200 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): 30 ; 0.207 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 53 ; 0.255 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 15 ; 0.380 ; 0.200 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): 1598 ; 1.656 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 610 ; 0.449 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2423 ; 2.100 ; 2.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1008 ; 3.291 ; 3.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 815 ; 4.239 ; 4.500 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 : 8 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 2 A 8 REMARK 3 ORIGIN FOR THE GROUP (A): 33.3802 2.0270 16.9445 REMARK 3 T TENSOR REMARK 3 T11: -0.1395 T22: 0.1092 REMARK 3 T33: 0.1763 T12: 0.1012 REMARK 3 T13: -0.0972 T23: 0.1415 REMARK 3 L TENSOR REMARK 3 L11: 18.5046 L22: 7.1429 REMARK 3 L33: 58.0334 L12: 0.2294 REMARK 3 L13: -23.4391 L23: 6.4781 REMARK 3 S TENSOR REMARK 3 S11: -0.1622 S12: 0.9529 S13: -0.3165 REMARK 3 S21: -0.2220 S22: -0.0971 S23: -1.1203 REMARK 3 S31: 0.4050 S32: -0.3492 S33: 0.2594 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 17 A 59 REMARK 3 ORIGIN FOR THE GROUP (A): 20.1597 10.1026 31.1317 REMARK 3 T TENSOR REMARK 3 T11: 0.1057 T22: -0.2625 REMARK 3 T33: -0.4120 T12: -0.1071 REMARK 3 T13: -0.2532 T23: 0.1313 REMARK 3 L TENSOR REMARK 3 L11: 6.8367 L22: 3.4721 REMARK 3 L33: 6.7237 L12: 0.1437 REMARK 3 L13: 0.4989 L23: 2.0112 REMARK 3 S TENSOR REMARK 3 S11: 0.1276 S12: -0.1311 S13: -0.1605 REMARK 3 S21: 0.6317 S22: -0.0730 S23: -0.6572 REMARK 3 S31: 0.2530 S32: 0.3406 S33: -0.0547 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 60 A 101 REMARK 3 ORIGIN FOR THE GROUP (A): 9.0711 16.0861 30.7058 REMARK 3 T TENSOR REMARK 3 T11: 0.1491 T22: -0.0628 REMARK 3 T33: -0.3561 T12: -0.1018 REMARK 3 T13: 0.0165 T23: -0.0423 REMARK 3 L TENSOR REMARK 3 L11: 5.3326 L22: 5.2274 REMARK 3 L33: 3.4458 L12: 1.1768 REMARK 3 L13: 2.0934 L23: 0.6838 REMARK 3 S TENSOR REMARK 3 S11: 0.1001 S12: -0.7485 S13: 0.2623 REMARK 3 S21: 1.1615 S22: -0.2888 S23: -0.1916 REMARK 3 S31: -0.2248 S32: -0.3155 S33: 0.1887 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 102 A 143 REMARK 3 ORIGIN FOR THE GROUP (A): 0.8567 15.9205 21.2423 REMARK 3 T TENSOR REMARK 3 T11: -0.0627 T22: 0.0449 REMARK 3 T33: -0.0672 T12: 0.0060 REMARK 3 T13: 0.1224 T23: -0.0441 REMARK 3 L TENSOR REMARK 3 L11: 2.8694 L22: 4.4909 REMARK 3 L33: 2.4480 L12: 1.3373 REMARK 3 L13: 1.0663 L23: 0.4174 REMARK 3 S TENSOR REMARK 3 S11: 0.0987 S12: -0.4615 S13: 0.2709 REMARK 3 S21: 0.5327 S22: -0.1958 S23: 0.4821 REMARK 3 S31: -0.1240 S32: -0.3947 S33: 0.0971 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 144 A 185 REMARK 3 ORIGIN FOR THE GROUP (A): 2.7058 11.3452 9.8820 REMARK 3 T TENSOR REMARK 3 T11: -0.0826 T22: -0.0117 REMARK 3 T33: 0.0119 T12: 0.0053 REMARK 3 T13: 0.0133 T23: 0.0048 REMARK 3 L TENSOR REMARK 3 L11: 0.7018 L22: 4.0264 REMARK 3 L33: 1.4554 L12: 0.5238 REMARK 3 L13: 0.4859 L23: 0.2525 REMARK 3 S TENSOR REMARK 3 S11: 0.0226 S12: -0.0629 S13: 0.0657 REMARK 3 S21: 0.0578 S22: -0.0405 S23: 0.3576 REMARK 3 S31: -0.0706 S32: -0.1400 S33: 0.0179 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 186 A 227 REMARK 3 ORIGIN FOR THE GROUP (A): 11.8294 4.4492 5.6950 REMARK 3 T TENSOR REMARK 3 T11: -0.0442 T22: -0.0151 REMARK 3 T33: -0.0258 T12: 0.0018 REMARK 3 T13: 0.0240 T23: -0.0122 REMARK 3 L TENSOR REMARK 3 L11: 0.9939 L22: 4.8808 REMARK 3 L33: 0.6755 L12: 0.2786 REMARK 3 L13: 0.0135 L23: -0.9501 REMARK 3 S TENSOR REMARK 3 S11: 0.0375 S12: 0.0740 S13: -0.0687 REMARK 3 S21: -0.2337 S22: -0.0156 S23: 0.0348 REMARK 3 S31: 0.0757 S32: 0.0510 S33: -0.0219 REMARK 3 REMARK 3 TLS GROUP : 7 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 228 A 269 REMARK 3 ORIGIN FOR THE GROUP (A): 22.2785 1.3576 10.3151 REMARK 3 T TENSOR REMARK 3 T11: -0.1052 T22: -0.0115 REMARK 3 T33: 0.0443 T12: 0.0230 REMARK 3 T13: 0.0195 T23: 0.0238 REMARK 3 L TENSOR REMARK 3 L11: 2.7705 L22: 6.7015 REMARK 3 L33: 3.2935 L12: 0.7700 REMARK 3 L13: -0.1192 L23: 0.1008 REMARK 3 S TENSOR REMARK 3 S11: 0.0857 S12: -0.0524 S13: -0.3450 REMARK 3 S21: 0.1174 S22: -0.1098 S23: -0.6701 REMARK 3 S31: 0.2131 S32: 0.2722 S33: 0.0241 REMARK 3 REMARK 3 TLS GROUP : 8 REMARK 3 NUMBER OF COMPONENTS GROUP : 1 REMARK 3 COMPONENTS C SSSEQI TO C SSSEQI REMARK 3 RESIDUE RANGE : A 270 A 294 REMARK 3 ORIGIN FOR THE GROUP (A): 26.6769 5.6578 18.5274 REMARK 3 T TENSOR REMARK 3 T11: -0.0671 T22: -0.0225 REMARK 3 T33: 0.0380 T12: -0.0048 REMARK 3 T13: -0.1237 T23: 0.0700 REMARK 3 L TENSOR REMARK 3 L11: 2.2452 L22: 4.7678 REMARK 3 L33: 9.0716 L12: 3.1295 REMARK 3 L13: -0.8112 L23: -1.9101 REMARK 3 S TENSOR REMARK 3 S11: 0.0851 S12: 0.1366 S13: -0.1531 REMARK 3 S21: 0.2749 S22: -0.1628 S23: -0.9076 REMARK 3 S31: 0.2806 S32: 0.9253 S33: 0.0777 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 : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURE WAS REFINED ALSO WITH CNS. REMARK 4 REMARK 4 2Z2N COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 28-MAY-07. REMARK 100 THE RCSB ID CODE IS RCSB027443. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-JAN-04 REMARK 200 TEMPERATURE (KELVIN) : 95 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X8C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9000, 0.9798, 1.0600 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : HKL-2000 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 29320 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.650 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.7 REMARK 200 DATA REDUNDANCY : 7.500 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.03800 REMARK 200 FOR THE DATA SET : 18.5000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.65 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.75 REMARK 200 COMPLETENESS FOR SHELL (%) : 78.2 REMARK 200 DATA REDUNDANCY IN SHELL : 6.00 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.38300 REMARK 200 FOR SHELL : 3.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: MAD REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MAD REMARK 200 SOFTWARE USED: SNB, BEAST REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 33.60 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.85 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 100MM PHOSPHATE CITRATE BUFFER (PH REMARK 280 4.2), 15%(W/V) PEG 8000, 10-17%(V/V) PEG 500MME, 175MM NACL, PH REMARK 280 7.5, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 295K 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 46.48500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 17.37600 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 46.48500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 17.37600 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: 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH A 418 LIES ON A SPECIAL POSITION. REMARK 375 HOH A 416 LIES ON A SPECIAL POSITION. 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 MSE A 1 REMARK 465 LYS A 295 REMARK 465 ASP A 296 REMARK 465 ASN A 297 REMARK 465 MSE A 298 REMARK 465 GLU A 299 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 LYS A 265 CG CD CE NZ 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 ARG A 121 CB ARG A 121 CG -0.183 REMARK 500 LYS A 190 CE LYS A 190 NZ 0.175 REMARK 500 VAL A 199 CB VAL A 199 CG2 -0.162 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 THR A 11 N - CA - C ANGL. DEV. = 20.2 DEGREES REMARK 500 ARG A 121 NE - CZ - NH1 ANGL. DEV. = 4.3 DEGREES REMARK 500 ARG A 121 NE - CZ - NH2 ANGL. DEV. = -4.0 DEGREES REMARK 500 ARG A 132 NE - CZ - NH1 ANGL. DEV. = 3.6 DEGREES REMARK 500 ARG A 166 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES REMARK 500 ARG A 166 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 TRP A 243 CA - CB - CG ANGL. DEV. = 14.7 DEGREES REMARK 500 SER A 253 C - N - CA ANGL. DEV. = -15.8 DEGREES REMARK 500 MSE A 283 CA - CB - CG ANGL. DEV. = 12.5 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 GLN A 13 -91.47 -167.34 REMARK 500 TYR A 18 -66.98 -141.39 REMARK 500 ASP A 44 4.74 -69.31 REMARK 500 MSE A 60 -79.18 -114.47 REMARK 500 TYR A 102 -89.81 -140.24 REMARK 500 SER A 144 -96.95 -118.90 REMARK 500 VAL A 186 -91.97 -132.06 REMARK 500 HIS A 228 -67.48 -132.16 REMARK 500 SER A 253 -52.35 108.19 REMARK 500 GLN A 263 90.55 -67.95 REMARK 500 ILE A 264 -170.10 168.56 REMARK 500 HIS A 270 -101.36 -113.27 REMARK 500 CYS A 285 48.83 -87.20 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 LEU A 10 THR A 11 -123.24 REMARK 500 THR A 252 SER A 253 116.87 REMARK 500 SER A 253 ASN A 254 143.84 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE REMARK 500 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,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 GLN A 13 22.6 L L OUTSIDE RANGE REMARK 500 ASN A 42 21.5 L L OUTSIDE RANGE REMARK 500 ILE A 264 24.5 L L OUTSIDE RANGE REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 490 DISTANCE = 5.50 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CL A 300 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2Z2O RELATED DB: PDB REMARK 900 RELATED ID: 2Z2P RELATED DB: PDB REMARK 999 REMARK 999 SEQUENCE REMARK 999 THIS SEQUENCE DERIVES FROM THE ORIGINAL GENE. DBREF 2Z2N A 1 299 UNP Q53744 Q53744_STAAU 1 299 SEQADV 2Z2N THR A 211 UNP Q53744 PRO 211 SEE REMARK 999 SEQADV 2Z2N SER A 212 UNP Q53744 LEU 212 SEE REMARK 999 SEQRES 1 A 299 MSE GLU PHE LYS LEU GLN GLU LEU ASN LEU THR ASN GLN SEQRES 2 A 299 ASP THR GLY PRO TYR GLY ILE THR VAL SER ASP LYS GLY SEQRES 3 A 299 LYS VAL TRP ILE THR GLN HIS LYS ALA ASN MSE ILE SER SEQRES 4 A 299 CYS ILE ASN LEU ASP GLY LYS ILE THR GLU TYR PRO LEU SEQRES 5 A 299 PRO THR PRO ASP ALA LYS VAL MSE CYS LEU THR ILE SER SEQRES 6 A 299 SER ASP GLY GLU VAL TRP PHE THR GLU ASN ALA ALA ASN SEQRES 7 A 299 LYS ILE GLY ARG ILE THR LYS LYS GLY ILE ILE LYS GLU SEQRES 8 A 299 TYR THR LEU PRO ASN PRO ASP SER ALA PRO TYR GLY ILE SEQRES 9 A 299 THR GLU GLY PRO ASN GLY ASP ILE TRP PHE THR GLU MSE SEQRES 10 A 299 ASN GLY ASN ARG ILE GLY ARG ILE THR ASP ASP GLY LYS SEQRES 11 A 299 ILE ARG GLU TYR GLU LEU PRO ASN LYS GLY SER TYR PRO SEQRES 12 A 299 SER PHE ILE THR LEU GLY SER ASP ASN ALA LEU TRP PHE SEQRES 13 A 299 THR GLU ASN GLN ASN ASN ALA ILE GLY ARG ILE THR GLU SEQRES 14 A 299 SER GLY ASP ILE THR GLU PHE LYS ILE PRO THR PRO ALA SEQRES 15 A 299 SER GLY PRO VAL GLY ILE THR LYS GLY ASN ASP ASP ALA SEQRES 16 A 299 LEU TRP PHE VAL GLU ILE ILE GLY ASN LYS ILE GLY ARG SEQRES 17 A 299 ILE THR THR SER GLY GLU ILE THR GLU PHE LYS ILE PRO SEQRES 18 A 299 THR PRO ASN ALA ARG PRO HIS ALA ILE THR ALA GLY ALA SEQRES 19 A 299 GLY ILE ASP LEU TRP PHE THR GLU TRP GLY ALA ASN LYS SEQRES 20 A 299 ILE GLY ARG LEU THR SER ASN ASN ILE ILE GLU GLU TYR SEQRES 21 A 299 PRO ILE GLN ILE LYS SER ALA GLU PRO HIS GLY ILE CYS SEQRES 22 A 299 PHE ASP GLY GLU THR ILE TRP PHE ALA MSE GLU CYS ASP SEQRES 23 A 299 LYS ILE GLY LYS LEU THR LEU ILE LYS ASP ASN MSE GLU MODRES 2Z2N MSE A 37 MET SELENOMETHIONINE MODRES 2Z2N MSE A 60 MET SELENOMETHIONINE MODRES 2Z2N MSE A 117 MET SELENOMETHIONINE MODRES 2Z2N MSE A 283 MET SELENOMETHIONINE HET MSE A 37 8 HET MSE A 60 8 HET MSE A 117 13 HET MSE A 283 8 HET CL A 300 1 HETNAM MSE SELENOMETHIONINE HETNAM CL CHLORIDE ION FORMUL 1 MSE 4(C5 H11 N O2 SE) FORMUL 2 CL CL 1- FORMUL 3 HOH *210(H2 O) SHEET 1 A 4 PHE A 3 ASN A 9 0 SHEET 2 A 4 LYS A 287 LEU A 293 -1 O THR A 292 N LYS A 4 SHEET 3 A 4 ILE A 279 MSE A 283 -1 N PHE A 281 O GLY A 289 SHEET 4 A 4 PRO A 269 PHE A 274 -1 N CYS A 273 O TRP A 280 SHEET 1 B 4 PRO A 17 VAL A 22 0 SHEET 2 B 4 VAL A 28 GLN A 32 -1 O TRP A 29 N THR A 21 SHEET 3 B 4 MSE A 37 ILE A 41 -1 O ILE A 41 N VAL A 28 SHEET 4 B 4 ILE A 47 PRO A 51 -1 O TYR A 50 N ILE A 38 SHEET 1 C 4 VAL A 59 ILE A 64 0 SHEET 2 C 4 VAL A 70 GLU A 74 -1 O TRP A 71 N THR A 63 SHEET 3 C 4 LYS A 79 ILE A 83 -1 O ILE A 83 N VAL A 70 SHEET 4 C 4 ILE A 89 THR A 93 -1 O TYR A 92 N ILE A 80 SHEET 1 D 4 PRO A 101 GLU A 106 0 SHEET 2 D 4 ILE A 112 GLU A 116 -1 O TRP A 113 N THR A 105 SHEET 3 D 4 ARG A 121 ILE A 125 -1 O GLY A 123 N PHE A 114 SHEET 4 D 4 ILE A 131 GLU A 135 -1 O ARG A 132 N ARG A 124 SHEET 1 E 4 PRO A 143 LEU A 148 0 SHEET 2 E 4 LEU A 154 GLU A 158 -1 O TRP A 155 N THR A 147 SHEET 3 E 4 ALA A 163 ILE A 167 -1 O GLY A 165 N PHE A 156 SHEET 4 E 4 ILE A 173 LYS A 177 -1 O PHE A 176 N ILE A 164 SHEET 1 F 4 PRO A 185 LYS A 190 0 SHEET 2 F 4 LEU A 196 GLU A 200 -1 O TRP A 197 N THR A 189 SHEET 3 F 4 LYS A 205 ILE A 209 -1 O ILE A 209 N LEU A 196 SHEET 4 F 4 ILE A 215 LYS A 219 -1 O THR A 216 N ARG A 208 SHEET 1 G 4 PRO A 227 ALA A 232 0 SHEET 2 G 4 LEU A 238 GLU A 242 -1 O TRP A 239 N THR A 231 SHEET 3 G 4 LYS A 247 THR A 252 -1 O GLY A 249 N PHE A 240 SHEET 4 G 4 ILE A 256 PRO A 261 -1 O TYR A 260 N ILE A 248 LINK C ASN A 36 N MSE A 37 1555 1555 1.33 LINK C MSE A 37 N ILE A 38 1555 1555 1.33 LINK C VAL A 59 N MSE A 60 1555 1555 1.32 LINK C MSE A 60 N CYS A 61 1555 1555 1.32 LINK C GLU A 116 N MSE A 117 1555 1555 1.32 LINK C MSE A 117 N ASN A 118 1555 1555 1.32 LINK C ALA A 282 N MSE A 283 1555 1555 1.32 LINK C MSE A 283 N GLU A 284 1555 1555 1.34 SITE 1 AC1 6 GLY A 107 PRO A 108 ASN A 109 GLY A 110 SITE 2 AC1 6 ASP A 111 TRP A 113 CRYST1 92.970 34.752 86.601 90.00 117.86 90.00 C 1 2 1 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 0.010756 0.000000 0.005685 0.00000 SCALE2 0.000000 0.028775 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013061 0.00000