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 6 30-OCT-24 2QK7 1 REMARK REVDAT 5 30-AUG-23 2QK7 1 REMARK 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