HEADER TOXIN, HYDROLASE 17-JAN-00 1DUA TITLE CRYSTAL STRUCTURE OF EXFOLIATIVE TOXIN A COMPND MOL_ID: 1; COMPND 2 MOLECULE: EXFOLIATIVE TOXIN A; COMPND 3 CHAIN: A; COMPND 4 EC: 3.4.21.-; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STAPHYLOCOCCUS AUREUS; SOURCE 3 ORGANISM_TAXID: 1280; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 EXPRESSION_SYSTEM_PLASMID: PET15B; SOURCE 7 OTHER_DETAILS: CHROMOSOMAL DNA OF S. AUREUS ISOLATED FROM A PATIENT SOURCE 8 WITH STAPHYLOCOCCAL SCALDED SKIN DISEASE KEYWDS SUPERANTIGENS, EPIDERMIS, PROTEASE, TOXIN, HYDROLASE EXPDTA X-RAY DIFFRACTION AUTHOR A.C.PAPAGEORGIOU,L.R.W.PLANO,C.M.COLLINS,K.R.ACHARYA REVDAT 3 07-FEB-24 1DUA 1 REMARK REVDAT 2 24-FEB-09 1DUA 1 VERSN REVDAT 1 21-JAN-03 1DUA 0 JRNL AUTH A.C.PAPAGEORGIOU,L.R.PLANO,C.M.COLLINS,K.R.ACHARYA JRNL TITL STRUCTURAL SIMILARITIES AND DIFFERENCES IN STAPHYLOCOCCUS JRNL TITL 2 AUREUS EXFOLIATIVE TOXINS A AND B AS REVEALED BY THEIR JRNL TITL 3 CRYSTAL STRUCTURES. JRNL REF PROTEIN SCI. V. 9 610 2000 JRNL REFN ISSN 0961-8368 JRNL PMID 10752623 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH AND HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 20.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 16234 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : 5% REMARK 3 R VALUE (WORKING SET) : 0.214 REMARK 3 FREE R VALUE : 0.252 REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 FREE R VALUE TEST SET COUNT : 789 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1905 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 45 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 45.70 REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.010 REMARK 3 BOND ANGLES (DEGREES) : NULL REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : NULL REMARK 3 KSOL : NULL REMARK 3 BSOL : NULL REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1DUA COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 24-JAN-00. REMARK 100 THE DEPOSITION ID IS D_1000010375. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-JAN-97 REMARK 200 TEMPERATURE (KELVIN) : 293.0 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 4 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SRS REMARK 200 BEAMLINE : PX9.6 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.87 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 16248 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.000 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 92.0 REMARK 200 DATA REDUNDANCY : 7.500 REMARK 200 R MERGE (I) : 0.11100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 13.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.10 REMARK 200 COMPLETENESS FOR SHELL (%) : 61.5 REMARK 200 DATA REDUNDANCY IN SHELL : 6.00 REMARK 200 R MERGE FOR SHELL (I) : 0.45700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 50.51 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.49 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG 8000 (23-26%), AMMONIUM SULPHATE REMARK 280 0.2 M , PH 6.5, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 289K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 1 21 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,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 33.61400 REMARK 290 SMTRY3 2 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 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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 NE2 HIS A 216 O HOH A 262 2.14 REMARK 500 O LYS A 166 O HOH A 261 2.17 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 52 120.68 -39.16 REMARK 500 GLN A 54 -51.52 -139.63 REMARK 500 ALA A 57 -153.41 -130.37 REMARK 500 GLU A 113 56.08 -150.56 REMARK 500 ASP A 129 -175.09 -69.06 REMARK 500 THR A 179 85.51 -22.63 REMARK 500 SER A 212 -159.79 -173.00 REMARK 500 LEU A 217 -64.24 75.81 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1DT2 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF EXFOLIATIVE TOXIN B REMARK 900 RELATED ID: 1DUE RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF EXFOLIATIVE TOXIN A S195A MUTANT DBREF 1DUA A 1 242 UNP P09331 ETA_STAAU 39 280 SEQRES 1 A 242 GLU VAL SER ALA GLU GLU ILE LYS LYS HIS GLU GLU LYS SEQRES 2 A 242 TRP ASN LYS TYR TYR GLY VAL ASN ALA PHE ASN LEU PRO SEQRES 3 A 242 LYS GLU LEU PHE SER LYS VAL ASP GLU LYS ASP ARG GLN SEQRES 4 A 242 LYS TYR PRO TYR ASN THR ILE GLY ASN VAL PHE VAL LYS SEQRES 5 A 242 GLY GLN THR SER ALA THR GLY VAL LEU ILE GLY LYS ASN SEQRES 6 A 242 THR VAL LEU THR ASN ARG HIS ILE ALA LYS PHE ALA ASN SEQRES 7 A 242 GLY ASP PRO SER LYS VAL SER PHE ARG PRO SER ILE ASN SEQRES 8 A 242 THR ASP ASP ASN GLY ASN THR GLU THR PRO TYR GLY GLU SEQRES 9 A 242 TYR GLU VAL LYS GLU ILE LEU GLN GLU PRO PHE GLY ALA SEQRES 10 A 242 GLY VAL ASP LEU ALA LEU ILE ARG LEU LYS PRO ASP GLN SEQRES 11 A 242 ASN GLY VAL SER LEU GLY ASP LYS ILE SER PRO ALA LYS SEQRES 12 A 242 ILE GLY THR SER ASN ASP LEU LYS ASP GLY ASP LYS LEU SEQRES 13 A 242 GLU LEU ILE GLY TYR PRO PHE ASP HIS LYS VAL ASN GLN SEQRES 14 A 242 MET HIS ARG SER GLU ILE GLU LEU THR THR LEU SER ARG SEQRES 15 A 242 GLY LEU ARG TYR TYR GLY PHE THR VAL PRO GLY ASN SER SEQRES 16 A 242 GLY SER GLY ILE PHE ASN SER ASN GLY GLU LEU VAL GLY SEQRES 17 A 242 ILE HIS SER SER LYS VAL SER HIS LEU ASP ARG GLU HIS SEQRES 18 A 242 GLN ILE ASN TYR GLY VAL GLY ILE GLY ASN TYR VAL LYS SEQRES 19 A 242 ARG ILE ILE ASN GLU LYS ASN GLU FORMUL 2 HOH *45(H2 O) HELIX 1 1 SER A 3 GLY A 19 1 17 HELIX 2 2 ASN A 21 LEU A 25 5 5 HELIX 3 3 ASP A 34 GLN A 39 1 6 HELIX 4 4 PRO A 42 ASN A 44 5 3 HELIX 5 5 ASN A 70 LYS A 75 1 6 HELIX 6 6 PHE A 76 ASN A 78 5 3 HELIX 7 7 ASP A 80 SER A 82 5 3 HELIX 8 8 SER A 134 ILE A 139 1 6 HELIX 9 9 THR A 179 GLY A 183 5 5 HELIX 10 10 VAL A 191 SER A 195 5 5 HELIX 11 11 GLY A 230 ASN A 241 1 12 SHEET 1 A10 PHE A 30 LYS A 32 0 SHEET 2 A10 HIS A 171 LEU A 177 -1 N ARG A 172 O SER A 31 SHEET 3 A10 LYS A 155 GLY A 160 -1 O LEU A 156 N ILE A 175 SHEET 4 A10 GLY A 198 PHE A 200 -1 O GLY A 198 N ILE A 159 SHEET 5 A10 GLU A 205 SER A 215 -1 N VAL A 207 O ILE A 199 SHEET 6 A10 LYS A 143 ILE A 144 1 O LYS A 143 N LEU A 206 SHEET 7 A10 GLU A 205 SER A 215 1 N LEU A 206 O LYS A 143 SHEET 8 A10 GLN A 222 GLY A 228 -1 O ILE A 223 N VAL A 214 SHEET 9 A10 LEU A 184 TYR A 187 -1 O LEU A 184 N GLY A 226 SHEET 10 A10 HIS A 171 LEU A 177 -1 N GLU A 176 O TYR A 187 SHEET 1 B 7 ILE A 46 VAL A 51 0 SHEET 2 B 7 THR A 55 LEU A 61 -1 O THR A 55 N VAL A 51 SHEET 3 B 7 THR A 66 THR A 69 -1 N LEU A 68 O VAL A 60 SHEET 4 B 7 ALA A 122 LEU A 126 -1 N ALA A 122 O THR A 69 SHEET 5 B 7 TYR A 105 LEU A 111 -1 N LYS A 108 O ARG A 125 SHEET 6 B 7 VAL A 84 PRO A 88 -1 O VAL A 84 N VAL A 107 SHEET 7 B 7 ILE A 46 VAL A 51 -1 O ASN A 48 N ARG A 87 SHEET 1 C 2 ASN A 91 THR A 92 0 SHEET 2 C 2 THR A 98 GLU A 99 -1 N GLU A 99 O ASN A 91 CISPEP 1 TYR A 41 PRO A 42 0 0.24 CRYST1 47.138 67.228 47.999 90.00 118.09 90.00 P 1 21 1 2 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 0.021214 0.000000 0.011323 0.00000 SCALE2 0.000000 0.014875 0.000000 0.00000 SCALE3 0.000000 0.000000 0.023615 0.00000