HEADER TOXIN 10-JUL-07 2QK7 TITLE A COVALENT S-F HETERODIMER OF STAPHYLOCOCCAL GAMMA-HEMOLYSIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: GAMMA-HEMOLYSIN COMPONENT A; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: H-GAMMA-2, H-GAMMA-II; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: GAMMA-HEMOLYSIN COMPONENT B; COMPND 9 CHAIN: B; COMPND 10 SYNONYM: H-GAMMA-1, H-GAMMA-I; COMPND 11 ENGINEERED: YES; COMPND 12 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STAPHYLOCOCCUS AUREUS SUBSP. AUREUS; SOURCE 3 ORGANISM_TAXID: 196620; SOURCE 4 STRAIN: MW2; SOURCE 5 GENE: HLGA, HLG2; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PGEX-6P-1; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: STAPHYLOCOCCUS AUREUS SUBSP. AUREUS; SOURCE 13 ORGANISM_TAXID: 196620; SOURCE 14 STRAIN: MW2; SOURCE 15 GENE: HLGB; SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 18 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 19 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 20 EXPRESSION_SYSTEM_PLASMID: PGEX-6P-1 KEYWDS PORE-FORMING TOXIN, BETA-BARREL, PROTEIN-PROTEIN INTERACTION, KEYWDS 2 MOLECULAR PLASTICITY, COVALENT COMPLEX, CYTOLYSIS, HEMOLYSIS, KEYWDS 3 SECRETED, TOXIN EXPDTA X-RAY DIFFRACTION AUTHOR P.ROBLIN,V.GUILLET,L.MAVEYRAUD,L.MOUREY REVDAT 4 20-OCT-21 2QK7 1 SEQADV REVDAT 3 13-JUL-11 2QK7 1 VERSN REVDAT 2 24-FEB-09 2QK7 1 VERSN REVDAT 1 19-FEB-08 2QK7 0 JRNL AUTH P.ROBLIN,V.GUILLET,O.JOUBERT,D.KELLER,M.ERARD,L.MAVEYRAUD, JRNL AUTH 2 G.PREVOST,L.MOUREY JRNL TITL A COVALENT S-F HETERODIMER OF LEUCOTOXIN REVEALS MOLECULAR JRNL TITL 2 PLASTICITY OF BETA-BARREL PORE-FORMING TOXINS. JRNL REF PROTEINS V. 71 485 2008 JRNL REFN ISSN 0887-3585 JRNL PMID 18214982 JRNL DOI 10.1002/PROT.21900 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH O.JOUBERT,G.VIERO,D.KELLER,E.MARTINEZ,D.A.COLIN,H.MONTEIL, REMARK 1 AUTH 2 L.MOUREY,M.DALLA SERRA,G.PREVOST REMARK 1 TITL ENGINEERED COVALENT LEUCOTOXIN HETERODIMERS FORM FUNCTIONAL REMARK 1 TITL 2 PORES: INSIGHTS INTO S-F INTERACTIONS REMARK 1 REF BIOCHEM.J. V. 396 381 2006 REMARK 1 REFN ISSN 0264-6021 REMARK 1 PMID 16494579 REMARK 1 DOI 10.1042/BJ20051878 REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0019 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) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 30.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 30458 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) : 0.183 REMARK 3 R VALUE (WORKING SET) : 0.180 REMARK 3 FREE R VALUE : 0.239 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1625 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) : 2.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.46 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2222 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.96 REMARK 3 BIN R VALUE (WORKING SET) : 0.2070 REMARK 3 BIN FREE R VALUE SET COUNT : 127 REMARK 3 BIN FREE R VALUE : 0.2880 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 4303 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 173 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 46.12 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.40000 REMARK 3 B22 (A**2) : 0.40000 REMARK 3 B33 (A**2) : -0.60000 REMARK 3 B12 (A**2) : 0.20000 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): 0.262 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.224 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.147 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 6.109 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.946 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.903 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 4401 ; 0.024 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 5964 ; 2.028 ; 1.929 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 539 ; 7.849 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 212 ;39.239 ;25.047 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 717 ;17.366 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 14 ;17.234 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 645 ; 0.135 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 3373 ; 0.009 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1735 ; 0.225 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2865 ; 0.318 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 263 ; 0.154 ; 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): 38 ; 0.172 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 10 ; 0.135 ; 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): 2782 ; 1.257 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 4359 ; 2.153 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1899 ; 3.301 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1605 ; 4.861 ; 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 : NULL 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: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 2QK7 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 30-JUL-07. REMARK 100 THE DEPOSITION ID IS D_1000043701. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 16-FEB-05 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9330 REMARK 200 MONOCHROMATOR : DIAMOND (111), GE(220) REMARK 200 MONOCHROMATOR SAGITALLY FOCUSING REMARK 200 GE(220) AND A MULTILAYER REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 32122 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 50.500 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 7.000 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.07800 REMARK 200 FOR THE DATA SET : 8.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.53 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 6.60 REMARK 200 R MERGE FOR SHELL (I) : NULL REMARK 200 R SYM FOR SHELL (I) : 0.31800 REMARK 200 FOR SHELL : 2.300 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: MOLREP, PHASER REMARK 200 STARTING MODEL: PDB ENTRIES 1LKF, 1T5R REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 59.78 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.06 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: COVALENT COMPLEX CONCENTRATED TO 9 REMARK 280 MG/ML IN 50 MM MES-NAOH, 50 MM NACL, PH 6.5. NEEDLE AND ROD REMARK 280 SHAPE LIKE CRYSTALS OBTAINED IN DROPS PREPARED BY MIXING TWO REMARK 280 VOLUMES OF PROTEIN AND ONE VOLUME OF RESERVOIR SOLUTION REMARK 280 CONTAINING 10% POLYETHYLENE GLYCOL 8000, 0.05 M NA CITRATE, PH REMARK 280 5.5. RESERVOIR VOLUMES OF 500 MUL USED, VAPOR DIFFUSION, SITTING REMARK 280 DROP, TEMPERATURE 285K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 61 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 -X,-Y,Z+1/2 REMARK 290 5555 Y,-X+Y,Z+5/6 REMARK 290 6555 X-Y,X,Z+1/6 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 24.35933 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 48.71867 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 36.53900 REMARK 290 SMTRY1 5 0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 5 -0.866025 0.500000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 60.89833 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 12.17967 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 300 REMARK: THE DISULFIDE LINKED GAMMA-HEMOLYSIN HETERODIMER WAS REMARK 300 PREPARED FROM VARIANTS HLGA T28C AND HLGB N156C AS DESCRIBED IN REMARK 300 JOUBERT ET AL., BIOCHEM. J. (2006) 396, 381-389. THE ASYMMETRIC REMARK 300 UNIT CONTAINS THE HETERODIMER. 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: 1300 ANGSTROM**2 REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, 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 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 -7 REMARK 465 PRO A -6 REMARK 465 LEU A -5 REMARK 465 GLY A -4 REMARK 465 SER A -3 REMARK 465 PRO A -2 REMARK 465 GLU A -1 REMARK 465 PHE A 0 REMARK 465 GLU A 1 REMARK 465 ASN A 2 REMARK 465 LYS A 3 REMARK 465 ILE A 4 REMARK 465 GLU A 5 REMARK 465 ASP A 6 REMARK 465 ILE A 7 REMARK 465 GLY A 8 REMARK 465 GLN A 9 REMARK 465 GLY A 10 REMARK 465 LYS A 64 REMARK 465 LYS A 65 REMARK 465 TYR A 66 REMARK 465 PRO A 67 REMARK 465 TYR A 68 REMARK 465 ASN A 167 REMARK 465 GLY A 168 REMARK 465 ARG A 242 REMARK 465 HIS A 243 REMARK 465 PRO A 279 REMARK 465 LYS A 280 REMARK 465 GLY B -7 REMARK 465 PRO B -6 REMARK 465 LEU B -5 REMARK 465 GLY B -4 REMARK 465 SER B -3 REMARK 465 PRO B -2 REMARK 465 GLU B -1 REMARK 465 PHE B 0 REMARK 465 GLU B 1 REMARK 465 GLY B 2 REMARK 465 SER B 129 REMARK 465 GLY B 130 REMARK 465 GLY B 131 REMARK 465 LEU B 132 REMARK 465 ASN B 133 REMARK 465 GLY B 134 REMARK 465 ASN B 135 REMARK 465 GLN B 198 REMARK 465 SER B 199 REMARK 465 SER B 200 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 15 CD CE NZ REMARK 470 LYS A 23 CG CD CE NZ REMARK 470 ARG A 24 CG CD NE CZ NH1 NH2 REMARK 470 ASN A 42 CG OD1 ND2 REMARK 470 LYS A 43 NZ REMARK 470 LYS A 70 CG CD CE NZ REMARK 470 ILE A 73 CG1 CG2 CD1 REMARK 470 LYS A 83 CE NZ REMARK 470 VAL A 89 CG1 CG2 REMARK 470 GLN A 149 CG CD OE1 NE2 REMARK 470 ASN A 150 CG OD1 ND2 REMARK 470 LYS A 155 CG CD CE NZ REMARK 470 LYS A 159 CE NZ REMARK 470 VAL A 164 CG1 CG2 REMARK 470 GLU A 216 CG CD OE1 OE2 REMARK 470 LYS A 217 CE NZ REMARK 470 LYS A 222 CE NZ REMARK 470 ARG A 244 CG CD NE CZ NH1 NH2 REMARK 470 ASP A 248 OD1 OD2 REMARK 470 PHE A 254 CG CD1 CD2 CE1 CE2 CZ REMARK 470 ARG A 257 CG CD NE CZ NH1 NH2 REMARK 470 LYS A 262 CD CE NZ REMARK 470 LYS A 268 CD CE NZ REMARK 470 LYS A 273 CD CE NZ REMARK 470 ILE A 277 CD1 REMARK 470 LYS B 3 CG CD CE NZ REMARK 470 ILE B 4 CD1 REMARK 470 ASP B 14 CG OD1 OD2 REMARK 470 LYS B 29 NZ REMARK 470 LYS B 31 CD CE NZ REMARK 470 LYS B 145 CG CD CE NZ REMARK 470 ARG B 155 CG CD NE CZ NH1 NH2 REMARK 470 TYR B 159 CG CD1 CD2 CE1 CE2 CZ OH 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 ALA B 201 CA ALA B 201 CB 0.157 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 ARG A 188 NE - CZ - NH1 ANGL. DEV. = 3.4 DEGREES REMARK 500 LEU B 76 CB - CG - CD1 ANGL. DEV. = 14.2 DEGREES REMARK 500 ARG B 181 NE - CZ - NH1 ANGL. DEV. = 4.9 DEGREES REMARK 500 ARG B 181 NE - CZ - NH2 ANGL. DEV. = -5.8 DEGREES REMARK 500 LEU B 215 CA - CB - CG ANGL. DEV. = 16.4 DEGREES REMARK 500 ARG B 272 CG - CD - NE ANGL. DEV. = -16.2 DEGREES REMARK 500 ARG B 272 CD - NE - CZ ANGL. DEV. = 11.0 DEGREES REMARK 500 ARG B 272 NE - CZ - NH1 ANGL. DEV. = 5.7 DEGREES REMARK 500 ARG B 272 NE - CZ - NH2 ANGL. DEV. = -9.6 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 LYS A 99 138.94 -33.60 REMARK 500 ILE A 113 132.97 -36.15 REMARK 500 GLN A 139 35.37 -142.90 REMARK 500 VAL A 146 48.30 -107.88 REMARK 500 GLU A 147 -9.70 -26.18 REMARK 500 SER A 148 131.52 174.26 REMARK 500 ASN A 161 -59.54 -125.28 REMARK 500 PHE A 178 -17.08 79.16 REMARK 500 SER A 203 -59.63 -126.02 REMARK 500 ASP B 13 -167.83 -171.92 REMARK 500 ALA B 56 -155.64 -135.69 REMARK 500 TYR B 71 -67.03 -96.55 REMARK 500 SER B 93 52.17 -113.05 REMARK 500 PHE B 118 125.52 -35.18 REMARK 500 GLN B 146 42.95 -145.57 REMARK 500 ASN B 158 -157.35 -157.65 REMARK 500 HIS B 169 -63.42 -120.03 REMARK 500 ASN B 174 -122.59 46.14 REMARK 500 LEU B 192 -63.96 -26.86 REMARK 500 SER B 219 -112.30 -117.06 REMARK 500 PHE B 259 -31.16 -132.49 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1LKF RELATED DB: PDB REMARK 900 LEUKOCIDIN F (HLGB) FROM STAPHYLOCOCCUS AUREUS 1.9A REMARK 900 RELATED ID: 2LKF RELATED DB: PDB REMARK 900 LEUKOCIDIN F (HLGB) FROM STAPHYLOCOCCUS AUREUS 2.5A REMARK 900 RELATED ID: 3LKF RELATED DB: PDB REMARK 900 LEUKOCIDIN F (HLGB) FROM STAPHYLOCOCCUS AUREUS WITH 2 REMARK 900 PHOSPHOCHOLINE BOUND REMARK 900 RELATED ID: 1PVL RELATED DB: PDB REMARK 900 STRUCTURE OF THE PANTON-VALENTINE LEUCOCIDIN F COMPONENT FROM REMARK 900 STAPHYLOCOCCUS AUREUS REMARK 900 RELATED ID: 1T5R RELATED DB: PDB REMARK 900 STRUCTURE OF THE PANTON-VALENTINE LEUCOCIDIN S COMPONENT FROM REMARK 900 STAPHYLOCOCCUS AUREUS REMARK 999 REMARK 999 SEQUENCE REMARK 999 AUTHOR STATED THAT THESE RESIDUES ARE CONFLICTS BETWEEN REMARK 999 DIFFERENT SEQUENCE REFERENCES. DBREF 2QK7 A 1 280 UNP P0A074 HLGA_STAAU 30 309 DBREF 2QK7 B 1 299 UNP P0A077 HLGB_STAAU 27 325 SEQADV 2QK7 GLY A -7 UNP P0A074 EXPRESSION TAG SEQADV 2QK7 PRO A -6 UNP P0A074 EXPRESSION TAG SEQADV 2QK7 LEU A -5 UNP P0A074 EXPRESSION TAG SEQADV 2QK7 GLY A -4 UNP P0A074 EXPRESSION TAG SEQADV 2QK7 SER A -3 UNP P0A074 EXPRESSION TAG SEQADV 2QK7 PRO A -2 UNP P0A074 EXPRESSION TAG SEQADV 2QK7 GLU A -1 UNP P0A074 EXPRESSION TAG SEQADV 2QK7 PHE A 0 UNP P0A074 EXPRESSION TAG SEQADV 2QK7 CYS A 28 UNP P0A074 THR 57 ENGINEERED MUTATION SEQADV 2QK7 LYS A 217 UNP P0A074 ARG 246 SEE REMARK 999 SEQADV 2QK7 GLY B -7 UNP P0A077 EXPRESSION TAG SEQADV 2QK7 PRO B -6 UNP P0A077 EXPRESSION TAG SEQADV 2QK7 LEU B -5 UNP P0A077 EXPRESSION TAG SEQADV 2QK7 GLY B -4 UNP P0A077 EXPRESSION TAG SEQADV 2QK7 SER B -3 UNP P0A077 EXPRESSION TAG SEQADV 2QK7 PRO B -2 UNP P0A077 EXPRESSION TAG SEQADV 2QK7 GLU B -1 UNP P0A077 EXPRESSION TAG SEQADV 2QK7 PHE B 0 UNP P0A077 EXPRESSION TAG SEQADV 2QK7 ALA B 56 UNP P0A077 THR 82 SEE REMARK 999 SEQADV 2QK7 TYR B 63 UNP P0A077 PHE 89 SEE REMARK 999 SEQADV 2QK7 GLU B 64 UNP P0A077 VAL 90 SEE REMARK 999 SEQADV 2QK7 CYS B 156 UNP P0A077 ASN 182 ENGINEERED MUTATION SEQRES 1 A 288 GLY PRO LEU GLY SER PRO GLU PHE GLU ASN LYS ILE GLU SEQRES 2 A 288 ASP ILE GLY GLN GLY ALA GLU ILE ILE LYS ARG THR GLN SEQRES 3 A 288 ASP ILE THR SER LYS ARG LEU ALA ILE CYS GLN ASN ILE SEQRES 4 A 288 GLN PHE ASP PHE VAL LYS ASP LYS LYS TYR ASN LYS ASP SEQRES 5 A 288 ALA LEU VAL VAL LYS MET GLN GLY PHE ILE SER SER ARG SEQRES 6 A 288 THR THR TYR SER ASP LEU LYS LYS TYR PRO TYR ILE LYS SEQRES 7 A 288 ARG MET ILE TRP PRO PHE GLN TYR ASN ILE SER LEU LYS SEQRES 8 A 288 THR LYS ASP SER ASN VAL ASP LEU ILE ASN TYR LEU PRO SEQRES 9 A 288 LYS ASN LYS ILE ASP SER ALA ASP VAL SER GLN LYS LEU SEQRES 10 A 288 GLY TYR ASN ILE GLY GLY ASN PHE GLN SER ALA PRO SER SEQRES 11 A 288 ILE GLY GLY SER GLY SER PHE ASN TYR SER LYS THR ILE SEQRES 12 A 288 SER TYR ASN GLN LYS ASN TYR VAL THR GLU VAL GLU SER SEQRES 13 A 288 GLN ASN SER LYS GLY VAL LYS TRP GLY VAL LYS ALA ASN SEQRES 14 A 288 SER PHE VAL THR PRO ASN GLY GLN VAL SER ALA TYR ASP SEQRES 15 A 288 GLN TYR LEU PHE ALA GLN ASP PRO THR GLY PRO ALA ALA SEQRES 16 A 288 ARG ASP TYR PHE VAL PRO ASP ASN GLN LEU PRO PRO LEU SEQRES 17 A 288 ILE GLN SER GLY PHE ASN PRO SER PHE ILE THR THR LEU SEQRES 18 A 288 SER HIS GLU LYS GLY LYS GLY ASP LYS SER GLU PHE GLU SEQRES 19 A 288 ILE THR TYR GLY ARG ASN MET ASP ALA THR TYR ALA TYR SEQRES 20 A 288 VAL THR ARG HIS ARG LEU ALA VAL ASP ARG LYS HIS ASP SEQRES 21 A 288 ALA PHE LYS ASN ARG ASN VAL THR VAL LYS TYR GLU VAL SEQRES 22 A 288 ASN TRP LYS THR HIS GLU VAL LYS ILE LYS SER ILE THR SEQRES 23 A 288 PRO LYS SEQRES 1 B 307 GLY PRO LEU GLY SER PRO GLU PHE GLU GLY LYS ILE THR SEQRES 2 B 307 PRO VAL SER VAL LYS LYS VAL ASP ASP LYS VAL THR LEU SEQRES 3 B 307 TYR LYS THR THR ALA THR ALA ASP SER ASP LYS PHE LYS SEQRES 4 B 307 ILE SER GLN ILE LEU THR PHE ASN PHE ILE LYS ASP LYS SEQRES 5 B 307 SER TYR ASP LYS ASP THR LEU VAL LEU LYS ALA ALA GLY SEQRES 6 B 307 ASN ILE ASN SER GLY TYR GLU LYS PRO ASN PRO ASN ASP SEQRES 7 B 307 TYR ASP PHE SER LYS LEU TYR TRP GLY ALA LYS TYR ASN SEQRES 8 B 307 VAL SER ILE SER SER GLN SER ASN ASP SER VAL ASN VAL SEQRES 9 B 307 VAL ASP TYR ALA PRO LYS ASN GLN ASN GLU GLU PHE GLN SEQRES 10 B 307 VAL GLN ASN THR LEU GLY TYR THR PHE GLY GLY ASP ILE SEQRES 11 B 307 SER ILE SER ASN GLY LEU SER GLY GLY LEU ASN GLY ASN SEQRES 12 B 307 THR ALA PHE SER GLU THR ILE ASN TYR LYS GLN GLU SER SEQRES 13 B 307 TYR ARG THR THR LEU SER ARG CYS THR ASN TYR LYS ASN SEQRES 14 B 307 VAL GLY TRP GLY VAL GLU ALA HIS LYS ILE MET ASN ASN SEQRES 15 B 307 GLY TRP GLY PRO TYR GLY ARG ASP SER PHE HIS PRO THR SEQRES 16 B 307 TYR GLY ASN GLU LEU PHE LEU ALA GLY ARG GLN SER SER SEQRES 17 B 307 ALA TYR ALA GLY GLN ASN PHE ILE ALA GLN HIS GLN MET SEQRES 18 B 307 PRO LEU LEU SER ARG SER ASN PHE ASN PRO GLU PHE LEU SEQRES 19 B 307 SER VAL LEU SER HIS ARG GLN ASP GLY ALA LYS LYS SER SEQRES 20 B 307 LYS ILE THR VAL THR TYR GLN ARG GLU MET ASP LEU TYR SEQRES 21 B 307 GLN ILE ARG TRP ASN GLY PHE TYR TRP ALA GLY ALA ASN SEQRES 22 B 307 TYR LYS ASN PHE LYS THR ARG THR PHE LYS SER THR TYR SEQRES 23 B 307 GLU ILE ASP TRP GLU ASN HIS LYS VAL LYS LEU LEU ASP SEQRES 24 B 307 THR LYS GLU THR GLU ASN ASN LYS FORMUL 3 HOH *173(H2 O) HELIX 1 1 ALA A 186 PHE A 191 5 6 HELIX 2 2 PRO A 193 LEU A 197 5 5 HELIX 3 3 PRO A 198 SER A 203 1 6 HELIX 4 4 TYR B 202 ASN B 206 5 5 HELIX 5 5 ALA B 209 MET B 213 5 5 HELIX 6 6 PRO B 214 SER B 219 1 6 SHEET 1 A 5 GLU A 12 SER A 22 0 SHEET 2 A 5 ILE A 27 LYS A 37 -1 O PHE A 35 N ILE A 14 SHEET 3 A 5 LYS A 43 SER A 55 -1 O PHE A 53 N CYS A 28 SHEET 4 A 5 PHE A 209 GLU A 216 -1 O HIS A 215 N ASP A 44 SHEET 5 A 5 ASP A 90 LEU A 95 -1 N ASP A 90 O SER A 214 SHEET 1 B 4 GLU A 12 SER A 22 0 SHEET 2 B 4 ILE A 27 LYS A 37 -1 O PHE A 35 N ILE A 14 SHEET 3 B 4 LYS A 43 SER A 55 -1 O PHE A 53 N CYS A 28 SHEET 4 B 4 GLY A 204 PHE A 205 -1 O PHE A 205 N ILE A 54 SHEET 1 C 4 THR A 59 SER A 61 0 SHEET 2 C 4 LYS A 70 LYS A 83 -1 O ARG A 71 N SER A 61 SHEET 3 C 4 GLY A 153 ALA A 160 -1 O ALA A 160 N PHE A 76 SHEET 4 C 4 TYR A 142 GLN A 149 -1 N SER A 148 O LYS A 155 SHEET 1 D 5 THR A 59 SER A 61 0 SHEET 2 D 5 LYS A 70 LYS A 83 -1 O ARG A 71 N SER A 61 SHEET 3 D 5 LYS A 222 TYR A 239 -1 O ASN A 232 N PHE A 76 SHEET 4 D 5 ALA A 246 ASN A 266 -1 O PHE A 254 N MET A 233 SHEET 5 D 5 GLU A 271 THR A 278 -1 O GLU A 271 N ASN A 266 SHEET 1 E 3 ASN A 116 ALA A 120 0 SHEET 2 E 3 ASP A 104 ASN A 112 -1 N GLY A 110 O GLN A 118 SHEET 3 E 3 TYR A 131 ASN A 138 -1 O TYR A 137 N VAL A 105 SHEET 1 F 2 SER A 162 PHE A 163 0 SHEET 2 F 2 VAL A 170 SER A 171 -1 O VAL A 170 N PHE A 163 SHEET 1 G 6 SER B 8 LYS B 11 0 SHEET 2 G 6 VAL B 16 SER B 27 -1 O LYS B 20 N SER B 8 SHEET 3 G 6 ILE B 32 ASP B 43 -1 O PHE B 38 N THR B 21 SHEET 4 G 6 LYS B 48 ASN B 60 -1 O LYS B 54 N THR B 37 SHEET 5 G 6 PHE B 225 ARG B 232 -1 O PHE B 225 N ALA B 55 SHEET 6 G 6 VAL B 94 ALA B 100 -1 N ASP B 98 O VAL B 228 SHEET 1 H 5 SER B 8 LYS B 11 0 SHEET 2 H 5 VAL B 16 SER B 27 -1 O LYS B 20 N SER B 8 SHEET 3 H 5 ILE B 32 ASP B 43 -1 O PHE B 38 N THR B 21 SHEET 4 H 5 LYS B 48 ASN B 60 -1 O LYS B 54 N THR B 37 SHEET 5 H 5 ASN B 220 PHE B 221 -1 O PHE B 221 N ILE B 59 SHEET 1 I 6 TYR B 149 LEU B 153 0 SHEET 2 I 6 ASN B 161 ALA B 168 -1 O GLY B 165 N THR B 152 SHEET 3 I 6 PHE B 73 SER B 87 -1 N TYR B 82 O VAL B 166 SHEET 4 I 6 LYS B 238 TRP B 256 -1 O TYR B 252 N LEU B 76 SHEET 5 I 6 TRP B 261 ASP B 281 -1 O ILE B 280 N SER B 239 SHEET 6 I 6 LYS B 286 ASN B 298 -1 O LYS B 288 N GLU B 279 SHEET 1 J 3 ASP B 121 ASN B 126 0 SHEET 2 J 3 GLN B 109 THR B 117 -1 N THR B 113 O SER B 125 SHEET 3 J 3 PHE B 138 LYS B 145 -1 O TYR B 144 N VAL B 110 SHEET 1 K 2 ILE B 171 ASN B 173 0 SHEET 2 K 2 TRP B 176 TYR B 179 -1 O TRP B 176 N ASN B 173 SSBOND 1 CYS A 28 CYS B 156 1555 1555 2.06 CISPEP 1 LEU A 95 PRO A 96 0 -9.23 CISPEP 2 ALA B 100 PRO B 101 0 -2.35 CISPEP 3 GLY B 177 PRO B 178 0 4.48 CRYST1 140.000 140.000 73.078 90.00 90.00 120.00 P 61 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 0.007143 0.004124 0.000000 0.00000 SCALE2 0.000000 0.008248 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013684 0.00000 MASTER 464 0 0 6 45 0 0 6 0 0 0 47 END