HEADER SUGAR BINDING PROTEIN 06-SEP-07 2Z8L TITLE CRYSTAL STRUCTURE OF THE STAPHYLOCOCCAL SUPERANTIGEN-LIKE PROTEIN SSL5 TITLE 2 AT PH 4.6 COMPLEXED WITH SIALYL LEWIS X COMPND MOL_ID: 1; COMPND 2 MOLECULE: EXOTOXIN 3; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 31-234; COMPND 5 SYNONYM: SUPERANTIGEN-LIKE PROTEIN SSL5; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: STAPHYLOCOCCUS AUREUS; SOURCE 3 ORGANISM_TAXID: 1280; SOURCE 4 STRAIN: GL10; SOURCE 5 GENE: SSL5; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: AD494; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET32A.3C KEYWDS OB FOLD, B-GRASP, SUGAR BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR H.M.BAKER,I.BASU,M.C.CHUNG,T.CARADOC DAVIES,J.D.FRASER,E.N.BAKER REVDAT 6 01-NOV-23 2Z8L 1 HETSYN REVDAT 5 29-JUL-20 2Z8L 1 COMPND REMARK SEQADV HETNAM REVDAT 5 2 1 LINK SITE ATOM REVDAT 4 13-JUL-11 2Z8L 1 VERSN REVDAT 3 24-FEB-09 2Z8L 1 VERSN REVDAT 2 11-DEC-07 2Z8L 1 JRNL REVDAT 1 27-NOV-07 2Z8L 0 JRNL AUTH H.M.BAKER,I.BASU,M.C.CHUNG,T.CARADOC-DAVIES,J.D.FRASER, JRNL AUTH 2 E.N.BAKER JRNL TITL CRYSTAL STRUCTURES OF THE STAPHYLOCOCCAL TOXIN SSL5 IN JRNL TITL 2 COMPLEX WITH SIALYL LEWIS X REVEAL A CONSERVED BINDING SITE JRNL TITL 3 THAT SHARES COMMON FEATURES WITH VIRAL AND BACTERIAL SIALIC JRNL TITL 4 ACID BINDING PROTEINS JRNL REF J.MOL.BIOL. V. 374 1298 2007 JRNL REFN ISSN 0022-2836 JRNL PMID 17996251 JRNL DOI 10.1016/J.JMB.2007.09.091 REMARK 2 REMARK 2 RESOLUTION. 1.65 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.3.0037 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) : 1.65 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.05 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 3 NUMBER OF REFLECTIONS : 30702 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) : 0.181 REMARK 3 FREE R VALUE : 0.218 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1538 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) : 1.65 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.69 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2152 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2550 REMARK 3 BIN FREE R VALUE SET COUNT : 119 REMARK 3 BIN FREE R VALUE : 0.3000 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1607 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 67 REMARK 3 SOLVENT ATOMS : 111 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) : 16.92 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.31000 REMARK 3 B22 (A**2) : -0.22000 REMARK 3 B33 (A**2) : 0.35000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 0.37000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.087 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.091 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.061 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 3.434 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.969 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.952 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1720 ; 0.018 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): 1235 ; 0.001 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2306 ; 1.744 ; 2.002 REMARK 3 BOND ANGLES OTHERS (DEGREES): 2982 ; 0.910 ; 3.000 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 193 ; 6.175 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 85 ;33.736 ;23.529 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 321 ;13.459 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 11 ;15.319 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 245 ; 0.115 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1827 ; 0.008 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): 367 ; 0.001 ; 0.020 REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 278 ; 0.210 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): 1206 ; 0.194 ; 0.200 REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 839 ; 0.188 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): 952 ; 0.094 ; 0.200 REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 75 ; 0.153 ; 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): 9 ; 0.166 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): 23 ; 0.236 ; 0.200 REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 7 ; 0.143 ; 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): 1240 ; 1.866 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): 394 ; 0.358 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1537 ; 2.093 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 922 ; 3.517 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 768 ; 4.532 ; 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 : 3 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 13 A 60 REMARK 3 ORIGIN FOR THE GROUP (A): -0.6150 11.6900 2.8810 REMARK 3 T TENSOR REMARK 3 T11: 0.1852 T22: 0.1463 REMARK 3 T33: 0.1012 T12: -0.0058 REMARK 3 T13: 0.0097 T23: -0.0234 REMARK 3 L TENSOR REMARK 3 L11: 0.8082 L22: 6.4989 REMARK 3 L33: 1.4790 L12: -0.0623 REMARK 3 L13: -0.2962 L23: 1.6810 REMARK 3 S TENSOR REMARK 3 S11: -0.0086 S12: 0.2457 S13: -0.1155 REMARK 3 S21: -0.7340 S22: 0.0893 S23: -0.2822 REMARK 3 S31: -0.1177 S32: 0.0022 S33: -0.0807 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 61 A 125 REMARK 3 ORIGIN FOR THE GROUP (A): -7.7650 15.1180 12.6640 REMARK 3 T TENSOR REMARK 3 T11: 0.1248 T22: 0.1159 REMARK 3 T33: 0.1374 T12: -0.0040 REMARK 3 T13: -0.0187 T23: -0.0121 REMARK 3 L TENSOR REMARK 3 L11: 1.0639 L22: 2.8129 REMARK 3 L33: 0.6341 L12: 0.0898 REMARK 3 L13: -0.1361 L23: 0.2129 REMARK 3 S TENSOR REMARK 3 S11: -0.0163 S12: 0.1064 S13: -0.0406 REMARK 3 S21: -0.2766 S22: 0.0547 S23: 0.0099 REMARK 3 S31: -0.0023 S32: 0.0358 S33: -0.0384 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 126 A 204 REMARK 3 ORIGIN FOR THE GROUP (A): -5.9780 23.1560 17.3550 REMARK 3 T TENSOR REMARK 3 T11: 0.1346 T22: 0.1072 REMARK 3 T33: 0.1084 T12: 0.0049 REMARK 3 T13: -0.0068 T23: -0.0035 REMARK 3 L TENSOR REMARK 3 L11: 1.8852 L22: 3.1737 REMARK 3 L33: 1.0738 L12: 0.4755 REMARK 3 L13: -0.3913 L23: 0.3621 REMARK 3 S TENSOR REMARK 3 S11: 0.1307 S12: -0.0771 S13: 0.0597 REMARK 3 S21: 0.0278 S22: -0.0729 S23: 0.1363 REMARK 3 S31: -0.1488 S32: 0.0322 S33: -0.0578 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.40 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS REMARK 4 REMARK 4 2Z8L COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 11-SEP-07. REMARK 100 THE DEPOSITION ID IS D_1000027657. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-JUN-06 REMARK 200 TEMPERATURE (KELVIN) : 110 REMARK 200 PH : 4.6 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SSRL REMARK 200 BEAMLINE : BL9-2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.97892 REMARK 200 MONOCHROMATOR : DOUBLE CRYSTAL MONOCHROMATOR REMARK 200 OPTICS : MIRROR, MONOCHROMATOR REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARMOSAIC 325 MM CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 30702 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.650 REMARK 200 RESOLUTION RANGE LOW (A) : 30.040 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.8 REMARK 200 DATA REDUNDANCY : 7.400 REMARK 200 R MERGE (I) : 0.05100 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 25.6000 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) : 1.74 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 7.40 REMARK 200 R MERGE FOR SHELL (I) : 0.66700 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: PHASER REMARK 200 STARTING MODEL: PDB ENTRY 1M4V REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.58 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.65 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG 3350, 0.2M NAH2PO4, PH 4.6, REMARK 280 VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 291K 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 39.11850 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 SOFTWARE DETERMINED QUATERNARY STRUCTURE: MONOMERIC REMARK 350 SOFTWARE USED: PISA 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 -3 REMARK 465 PRO A -2 REMARK 465 GLY A -1 REMARK 465 SER A 0 REMARK 465 SER A 1 REMARK 465 GLU A 2 REMARK 465 HIS A 3 REMARK 465 LYS A 4 REMARK 465 ALA A 5 REMARK 465 LYS A 6 REMARK 465 TYR A 7 REMARK 465 GLU A 8 REMARK 465 ASN A 9 REMARK 465 VAL A 10 REMARK 465 THR A 11 REMARK 465 LYS A 12 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 41 CG CD CE NZ 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 ILE A 203 CB - CA - C ANGL. DEV. = -12.0 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 ALA A 119 11.01 81.39 REMARK 500 LYS A 160 -126.11 49.03 REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 THE TETRASACCHARIDE SIALYL-LEWIS X IS PRESENT AS A LIGAND REMARK 600 IN THIS STRUCTURE AND IS NOT COVALENTLY BOUND TO THE REMARK 600 PROTEIN MOLECULE. REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1M4V RELATED DB: PDB REMARK 900 SSL5 REMARK 900 RELATED ID: 2R61 RELATED DB: PDB REMARK 900 SSL5 COMPLEXED WITH SIALYL LEWIS X AT PH 7.4 REMARK 999 REMARK 999 SEQUENCE REMARK 999 THE CONFLICTS BETWEEN THE SEQUENCE FOR THIS STRUCTURE AND REMARK 999 THE DATABASE SEQUENCE ARISE FROM THE ALLELIC VARIATION REMARK 999 BETWEEN STAPHYLOCOCCUS AUREUS STRAINS SEEN FOR SOME OF REMARK 999 THESE SUPERANTIGEN-LIKE PROTEINS. DBREF 2Z8L A 1 204 UNP Q9ZFS6 Q9ZFS6_STAAU 31 234 SEQADV 2Z8L GLY A -3 UNP Q9ZFS6 EXPRESSION TAG SEQADV 2Z8L PRO A -2 UNP Q9ZFS6 EXPRESSION TAG SEQADV 2Z8L GLY A -1 UNP Q9ZFS6 EXPRESSION TAG SEQADV 2Z8L SER A 0 UNP Q9ZFS6 EXPRESSION TAG SEQADV 2Z8L LYS A 4 UNP Q9ZFS6 GLU 34 SEE REMARK 999 SEQADV 2Z8L ALA A 5 UNP Q9ZFS6 SER 35 SEE REMARK 999 SEQADV 2Z8L GLY A 23 UNP Q9ZFS6 ARG 53 SEE REMARK 999 SEQADV 2Z8L HIS A 49 UNP Q9ZFS6 ASN 79 SEE REMARK 999 SEQADV 2Z8L GLN A 50 UNP Q9ZFS6 ARG 80 SEE REMARK 999 SEQADV 2Z8L LEU A 65 UNP Q9ZFS6 ILE 95 SEE REMARK 999 SEQADV 2Z8L THR A 67 UNP Q9ZFS6 LYS 97 SEE REMARK 999 SEQADV 2Z8L PHE A 89 UNP Q9ZFS6 TYR 119 SEE REMARK 999 SEQADV 2Z8L ASN A 107 UNP Q9ZFS6 SER 137 SEE REMARK 999 SEQADV 2Z8L LYS A 110 UNP Q9ZFS6 ARG 140 SEE REMARK 999 SEQADV 2Z8L ASP A 118 UNP Q9ZFS6 GLY 148 SEE REMARK 999 SEQADV 2Z8L TYR A 122 UNP Q9ZFS6 SER 152 SEE REMARK 999 SEQADV 2Z8L THR A 123 UNP Q9ZFS6 VAL 153 SEE REMARK 999 SEQADV 2Z8L HIS A 128 UNP Q9ZFS6 TYR 158 SEE REMARK 999 SEQADV 2Z8L VAL A 135 UNP Q9ZFS6 ILE 165 SEE REMARK 999 SEQADV 2Z8L ASN A 151 UNP Q9ZFS6 ASP 181 SEE REMARK 999 SEQADV 2Z8L ASP A 161 UNP Q9ZFS6 ALA 191 SEE REMARK 999 SEQADV 2Z8L ILE A 167 UNP Q9ZFS6 THR 197 SEE REMARK 999 SEQADV 2Z8L PRO A 184 UNP Q9ZFS6 THR 214 SEE REMARK 999 SEQADV 2Z8L HIS A 185 UNP Q9ZFS6 ASN 215 SEE REMARK 999 SEQADV 2Z8L MET A 199 UNP Q9ZFS6 ILE 229 SEE REMARK 999 SEQRES 1 A 208 GLY PRO GLY SER SER GLU HIS LYS ALA LYS TYR GLU ASN SEQRES 2 A 208 VAL THR LYS ASP ILE PHE ASP LEU ARG ASP TYR TYR SER SEQRES 3 A 208 GLY ALA SER LYS GLU LEU LYS ASN VAL THR GLY TYR ARG SEQRES 4 A 208 TYR SER LYS GLY GLY LYS HIS TYR LEU ILE PHE ASP LYS SEQRES 5 A 208 HIS GLN LYS PHE THR ARG ILE GLN ILE PHE GLY LYS ASP SEQRES 6 A 208 ILE GLU ARG LEU LYS THR ARG LYS ASN PRO GLY LEU ASP SEQRES 7 A 208 ILE PHE VAL VAL LYS GLU ALA GLU ASN ARG ASN GLY THR SEQRES 8 A 208 VAL PHE SER TYR GLY GLY VAL THR LYS LYS ASN GLN GLY SEQRES 9 A 208 ALA TYR TYR ASP TYR LEU ASN ALA PRO LYS PHE VAL ILE SEQRES 10 A 208 LYS LYS GLU VAL ASP ALA GLY VAL TYR THR HIS VAL LYS SEQRES 11 A 208 ARG HIS TYR ILE TYR LYS GLU GLU VAL SER LEU LYS GLU SEQRES 12 A 208 LEU ASP PHE LYS LEU ARG GLN TYR LEU ILE GLN ASN PHE SEQRES 13 A 208 ASP LEU TYR LYS LYS PHE PRO LYS ASP SER LYS ILE LYS SEQRES 14 A 208 VAL ILE MET LYS ASP GLY GLY TYR TYR THR PHE GLU LEU SEQRES 15 A 208 ASN LYS LYS LEU GLN PRO HIS ARG MET SER ASP VAL ILE SEQRES 16 A 208 ASP GLY ARG ASN ILE GLU LYS MET GLU ALA ASN ILE ARG HET NAG B 1 15 HET GAL B 2 11 HET SIA B 3 20 HET FUC B 4 10 HET PO4 A 605 5 HET GOL A 606 6 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM GAL BETA-D-GALACTOPYRANOSE HETNAM SIA N-ACETYL-ALPHA-NEURAMINIC ACID HETNAM FUC ALPHA-L-FUCOPYRANOSE HETNAM PO4 PHOSPHATE ION HETNAM GOL GLYCEROL HETSYN NAG N-ACETYL-BETA-D-GLUCOSAMINE; 2-ACETAMIDO-2-DEOXY-BETA- HETSYN 2 NAG D-GLUCOSE; 2-ACETAMIDO-2-DEOXY-D-GLUCOSE; 2-ACETAMIDO- HETSYN 3 NAG 2-DEOXY-GLUCOSE; N-ACETYL-D-GLUCOSAMINE HETSYN GAL BETA-D-GALACTOSE; D-GALACTOSE; GALACTOSE HETSYN SIA N-ACETYLNEURAMINIC ACID; SIALIC ACID; ALPHA-SIALIC HETSYN 2 SIA ACID; O-SIALIC ACID HETSYN FUC ALPHA-L-FUCOSE; 6-DEOXY-ALPHA-L-GALACTOPYRANOSE; L- HETSYN 2 FUC FUCOSE; FUCOSE HETSYN GOL GLYCERIN; PROPANE-1,2,3-TRIOL FORMUL 2 NAG C8 H15 N O6 FORMUL 2 GAL C6 H12 O6 FORMUL 2 SIA C11 H19 N O9 FORMUL 2 FUC C6 H12 O5 FORMUL 3 PO4 O4 P 3- FORMUL 4 GOL C3 H8 O3 FORMUL 5 HOH *111(H2 O) HELIX 1 1 ASP A 13 SER A 22 1 10 HELIX 2 2 LYS A 60 LEU A 65 1 6 HELIX 3 3 LEU A 137 PHE A 152 1 16 HELIX 4 4 GLN A 183 MET A 187 5 5 SHEET 1 A 7 ALA A 81 GLU A 82 0 SHEET 2 A 7 VAL A 88 TYR A 91 -1 O PHE A 89 N ALA A 81 SHEET 3 A 7 LYS A 51 ILE A 57 1 N ARG A 54 O VAL A 88 SHEET 4 A 7 LYS A 41 LYS A 48 -1 N LEU A 44 O ILE A 55 SHEET 5 A 7 LYS A 26 LYS A 38 -1 N TYR A 36 O TYR A 43 SHEET 6 A 7 LYS A 69 VAL A 77 -1 O ILE A 75 N LEU A 28 SHEET 7 A 7 VAL A 94 LYS A 96 -1 O THR A 95 N ASP A 74 SHEET 1 B 5 GLY A 120 ARG A 127 0 SHEET 2 B 5 LYS A 110 VAL A 117 -1 N ILE A 113 O HIS A 124 SHEET 3 B 5 ILE A 196 ILE A 203 1 O ALA A 201 N LYS A 114 SHEET 4 B 5 LYS A 163 MET A 168 -1 N ILE A 167 O LYS A 198 SHEET 5 B 5 TYR A 173 GLU A 177 -1 O PHE A 176 N ILE A 164 SHEET 1 C 2 GLU A 134 SER A 136 0 SHEET 2 C 2 VAL A 190 ASP A 192 -1 O ILE A 191 N VAL A 135 LINK O4 NAG B 1 C1 GAL B 2 1555 1555 1.45 LINK O3 NAG B 1 C1 FUC B 4 1555 1555 1.45 LINK O3 GAL B 2 C2 SIA B 3 1555 1555 1.45 CRYST1 37.625 78.237 55.276 90.00 127.02 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 0.026578 0.000000 0.020046 0.00000 SCALE2 0.000000 0.012782 0.000000 0.00000 SCALE3 0.000000 0.000000 0.022660 0.00000