HEADER SUGAR BINDING PROTEIN 05-SEP-07 2R61 TITLE CRYSTAL STRUCTURE OF THE STAPHYLOCOCCAL SUPERANTIGEN-LIKE PROTEIN SSL5 TITLE 2 IN COMPLEX WITH SIALYL-LEWIS X AT PH 7.4 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_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET32A.3C KEYWDS SSL5, SUPERANTIGEN-LIKE, SIALYL LEWIS X, SIALIC ACID BINDING, CHIPS, KEYWDS 2 SUGAR BINDING PROTEIN EXPDTA X-RAY DIFFRACTION AUTHOR H.M.BAKER REVDAT 7 25-OCT-23 2R61 1 REMARK HETSYN REVDAT 6 29-JUL-20 2R61 1 COMPND REMARK SEQADV HETNAM REVDAT 6 2 1 LINK SITE ATOM REVDAT 5 10-JUL-19 2R61 1 REMARK LINK ATOM REVDAT 4 13-JUL-11 2R61 1 VERSN REVDAT 3 24-FEB-09 2R61 1 VERSN REVDAT 2 11-DEC-07 2R61 1 JRNL REVDAT 1 27-NOV-07 2R61 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. 2.75 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) : 2.75 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 35.07 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 8789 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) : 0.212 REMARK 3 R VALUE (WORKING SET) : 0.209 REMARK 3 FREE R VALUE : 0.269 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 439 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) : 2.75 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.82 REMARK 3 REFLECTION IN BIN (WORKING SET) : 604 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 100.0 REMARK 3 BIN R VALUE (WORKING SET) : 0.2810 REMARK 3 BIN FREE R VALUE SET COUNT : 28 REMARK 3 BIN FREE R VALUE : 0.3590 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1629 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 73 REMARK 3 SOLVENT ATOMS : 59 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) : 16.54 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.01000 REMARK 3 B22 (A**2) : -0.01000 REMARK 3 B33 (A**2) : 0.02000 REMARK 3 B12 (A**2) : 0.00000 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): 0.586 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.336 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.250 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 22.525 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.926 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.868 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 1733 ; 0.017 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 2317 ; 1.744 ; 2.002 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 193 ; 7.650 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 85 ;36.676 ;23.647 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 320 ;19.933 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 11 ;25.588 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 250 ; 0.115 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1271 ; 0.005 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 631 ; 0.226 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1122 ; 0.329 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 84 ; 0.137 ; 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): 26 ; 0.195 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 8 ; 0.107 ; 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): 990 ; 0.628 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 1554 ; 1.064 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 831 ; 1.852 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 763 ; 2.881 ; 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 : 4 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 8 A 36 REMARK 3 ORIGIN FOR THE GROUP (A): 5.3300 1.3970 30.7560 REMARK 3 T TENSOR REMARK 3 T11: 0.3730 T22: 0.4032 REMARK 3 T33: 0.1191 T12: 0.1331 REMARK 3 T13: 0.0292 T23: 0.1559 REMARK 3 L TENSOR REMARK 3 L11: 2.1932 L22: 7.3972 REMARK 3 L33: 9.1837 L12: 2.1944 REMARK 3 L13: 1.9455 L23: 6.5135 REMARK 3 S TENSOR REMARK 3 S11: 0.0439 S12: 0.0545 S13: 0.4121 REMARK 3 S21: 0.1487 S22: -0.4436 S23: 0.4456 REMARK 3 S31: -0.6143 S32: -0.4818 S33: 0.3997 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 37 A 53 REMARK 3 ORIGIN FOR THE GROUP (A): 7.3070 -5.0090 12.5790 REMARK 3 T TENSOR REMARK 3 T11: 0.4143 T22: 0.6577 REMARK 3 T33: 0.1085 T12: -0.0091 REMARK 3 T13: 0.0133 T23: 0.0325 REMARK 3 L TENSOR REMARK 3 L11: 7.0195 L22: 15.7255 REMARK 3 L33: 2.1128 L12: -3.7469 REMARK 3 L13: -2.0353 L23: 0.0385 REMARK 3 S TENSOR REMARK 3 S11: -0.4269 S12: 1.1273 S13: 0.4364 REMARK 3 S21: -0.6081 S22: 0.4184 S23: -0.8834 REMARK 3 S31: -0.5446 S32: -0.0872 S33: 0.0085 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 54 A 84 REMARK 3 ORIGIN FOR THE GROUP (A): 11.1330 -7.3620 18.7320 REMARK 3 T TENSOR REMARK 3 T11: 0.3227 T22: 0.6012 REMARK 3 T33: 0.0222 T12: 0.0158 REMARK 3 T13: -0.0374 T23: 0.0631 REMARK 3 L TENSOR REMARK 3 L11: 5.7776 L22: 4.3649 REMARK 3 L33: 5.7002 L12: 2.2649 REMARK 3 L13: -2.1521 L23: 0.5575 REMARK 3 S TENSOR REMARK 3 S11: 0.0888 S12: 0.8523 S13: 0.5128 REMARK 3 S21: -0.8875 S22: 0.0387 S23: -0.0519 REMARK 3 S31: -0.3797 S32: 0.3168 S33: -0.1275 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 87 A 204 REMARK 3 ORIGIN FOR THE GROUP (A): 8.6120 -8.3280 39.6300 REMARK 3 T TENSOR REMARK 3 T11: 0.2589 T22: 0.3652 REMARK 3 T33: -0.0342 T12: 0.0203 REMARK 3 T13: -0.0097 T23: 0.0476 REMARK 3 L TENSOR REMARK 3 L11: 2.2706 L22: 3.3822 REMARK 3 L33: 1.8701 L12: 0.1375 REMARK 3 L13: -0.1987 L23: 0.5418 REMARK 3 S TENSOR REMARK 3 S11: 0.1185 S12: -0.0816 S13: 0.1485 REMARK 3 S21: 0.1397 S22: 0.0603 S23: -0.0833 REMARK 3 S31: -0.1378 S32: -0.0376 S33: -0.1788 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : 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 2R61 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_1000044469. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-NOV-06 REMARK 200 TEMPERATURE (KELVIN) : 110 REMARK 200 PH : 7.4 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU MICROMAX-007 HF REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : VARIMAX-HF MIRROR REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : MAR SCANNER 345 MM PLATE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : MOSFLM REMARK 200 DATA SCALING SOFTWARE : SCALA REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 9300 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.750 REMARK 200 RESOLUTION RANGE LOW (A) : 59.164 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 7.400 REMARK 200 R MERGE (I) : 0.12900 REMARK 200 R SYM (I) : 0.12900 REMARK 200 FOR THE DATA SET : 5.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.75 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.90 REMARK 200 COMPLETENESS FOR SHELL (%) : 100.0 REMARK 200 DATA REDUNDANCY IN SHELL : 7.80 REMARK 200 R MERGE FOR SHELL (I) : 0.48400 REMARK 200 R SYM FOR SHELL (I) : 0.48400 REMARK 200 FOR SHELL : 1.500 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 (%): 62.85 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.31 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 20% PEG 3340, 0.2M DISODIUM TARTRATE, REMARK 280 PH 7.4, VAPOR DIFFUSION, SITTING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 118.32850 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 26.11150 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 26.11150 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 177.49275 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 26.11150 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 26.11150 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 59.16425 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 26.11150 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 26.11150 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 177.49275 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 26.11150 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 26.11150 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 59.16425 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 118.32850 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 ASN A 85 REMARK 465 GLY A 86 REMARK 480 REMARK 480 ZERO OCCUPANCY ATOM REMARK 480 THE FOLLOWING RESIDUES HAVE ATOMS MODELED WITH ZERO REMARK 480 OCCUPANCY. THE LOCATION AND PROPERTIES OF THESE ATOMS REMARK 480 MAY NOT BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 480 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 480 M RES C SSEQI ATOMS REMARK 480 LYS A 38 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 LYS A 38 CG LYS A 38 CD -0.215 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 ASN A 9 64.42 -105.89 REMARK 500 ASN A 30 42.19 38.23 REMARK 500 PHE A 46 -87.53 -112.75 REMARK 500 ALA A 67 -47.82 -23.64 REMARK 500 ARG A 68 -68.97 -149.97 REMARK 500 ALA A 81 160.31 103.46 REMARK 500 ASN A 83 -99.64 -94.66 REMARK 500 ASP A 104 -100.38 -133.61 REMARK 500 VAL A 117 -151.54 -141.12 REMARK 500 ASP A 118 72.26 -53.40 REMARK 500 LYS A 160 -127.34 44.98 REMARK 500 ASP A 161 23.08 -77.41 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: 2Z8L RELATED DB: PDB REMARK 900 SSL5 COMPLEXED WITH SIALYL LEWIS X AT PH 4.6 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 2R61 A 1 204 UNP Q9ZFS6 Q9ZFS6_STAAU 31 234 SEQADV 2R61 GLY A -3 UNP Q9ZFS6 EXPRESSION TAG SEQADV 2R61 PRO A -2 UNP Q9ZFS6 EXPRESSION TAG SEQADV 2R61 GLY A -1 UNP Q9ZFS6 EXPRESSION TAG SEQADV 2R61 SER A 0 UNP Q9ZFS6 EXPRESSION TAG SEQADV 2R61 LYS A 4 UNP Q9ZFS6 GLU 34 SEE REMARK 999 SEQADV 2R61 ALA A 5 UNP Q9ZFS6 SER 35 SEE REMARK 999 SEQADV 2R61 GLY A 23 UNP Q9ZFS6 ARG 53 SEE REMARK 999 SEQADV 2R61 ALA A 48 UNP Q9ZFS6 LYS 78 SEE REMARK 999 SEQADV 2R61 HIS A 49 UNP Q9ZFS6 ASN 79 SEE REMARK 999 SEQADV 2R61 GLN A 50 UNP Q9ZFS6 ARG 80 SEE REMARK 999 SEQADV 2R61 ALA A 51 UNP Q9ZFS6 LYS 81 SEE REMARK 999 SEQADV 2R61 LEU A 65 UNP Q9ZFS6 ILE 95 SEE REMARK 999 SEQADV 2R61 ALA A 67 UNP Q9ZFS6 LYS 97 SEE REMARK 999 SEQADV 2R61 PHE A 89 UNP Q9ZFS6 TYR 119 SEE REMARK 999 SEQADV 2R61 ASN A 107 UNP Q9ZFS6 SER 137 SEE REMARK 999 SEQADV 2R61 LYS A 110 UNP Q9ZFS6 ARG 140 SEE REMARK 999 SEQADV 2R61 ASP A 118 UNP Q9ZFS6 GLY 148 SEE REMARK 999 SEQADV 2R61 TYR A 122 UNP Q9ZFS6 SER 152 SEE REMARK 999 SEQADV 2R61 THR A 123 UNP Q9ZFS6 VAL 153 SEE REMARK 999 SEQADV 2R61 HIS A 128 UNP Q9ZFS6 TYR 158 SEE REMARK 999 SEQADV 2R61 VAL A 135 UNP Q9ZFS6 ILE 165 SEE REMARK 999 SEQADV 2R61 ASN A 151 UNP Q9ZFS6 ASP 181 SEE REMARK 999 SEQADV 2R61 ASP A 161 UNP Q9ZFS6 ALA 191 SEE REMARK 999 SEQADV 2R61 ILE A 167 UNP Q9ZFS6 THR 197 SEE REMARK 999 SEQADV 2R61 PRO A 184 UNP Q9ZFS6 THR 214 SEE REMARK 999 SEQADV 2R61 HIS A 185 UNP Q9ZFS6 ASN 215 SEE REMARK 999 SEQADV 2R61 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 ALA SEQRES 5 A 208 HIS GLN ALA PHE THR ARG ILE GLN ILE PHE GLY LYS ASP SEQRES 6 A 208 ILE GLU ARG LEU LYS ALA 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 CL A 205 1 HET SRT A 206 10 HET GOL A 207 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 CL CHLORIDE ION HETNAM SRT S,R MESO-TARTARIC ACID 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 CL CL 1- FORMUL 4 SRT C4 H6 O6 FORMUL 5 GOL C3 H8 O3 FORMUL 6 HOH *59(H2 O) HELIX 1 1 THR A 11 SER A 22 1 12 HELIX 2 2 PHE A 58 GLU A 63 1 6 HELIX 3 3 LEU A 137 ASP A 153 1 17 HELIX 4 4 GLN A 183 MET A 187 5 5 SHEET 1 A 6 PHE A 89 TYR A 91 0 SHEET 2 A 6 ARG A 54 ILE A 57 1 N GLN A 56 O SER A 90 SHEET 3 A 6 HIS A 42 ILE A 45 -1 N HIS A 42 O ILE A 57 SHEET 4 A 6 LYS A 26 SER A 37 -1 N TYR A 34 O ILE A 45 SHEET 5 A 6 LYS A 69 VAL A 77 -1 O ILE A 75 N LEU A 28 SHEET 6 A 6 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 PHE A 111 O LYS A 126 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 LYS A 165 O GLU A 200 SHEET 5 B 5 TYR A 173 GLU A 177 -1 O TYR A 174 N VAL A 166 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 1.34 LINK O3 NAG B 1 C1 FUC B 4 1555 1555 1.33 LINK O3 GAL B 2 C2 SIA B 3 1555 1555 1.38 CRYST1 52.223 52.223 236.657 90.00 90.00 90.00 P 43 21 2 8 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 0.019149 0.000000 0.000000 0.00000 SCALE2 0.000000 0.019149 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004226 0.00000