HEADER IMMUNE SYSTEM 09-NOV-05 2EYS TITLE A STRUCTURAL BASIS FOR SELECTION AND CROSS-SPECIES REACTIVITY OF THE TITLE 2 SEMI-INVARIANT NKT CELL RECEPTOR IN CD1D/GLYCOLIPID RECOGNITION COMPND MOL_ID: 1; COMPND 2 MOLECULE: NKT15; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MUTATION: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: NKT15; COMPND 8 CHAIN: B; COMPND 9 ENGINEERED: YES; COMPND 10 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET30; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 12 ORGANISM_COMMON: HUMAN; SOURCE 13 ORGANISM_TAXID: 9606; SOURCE 14 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 15 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 16 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3); SOURCE 17 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 18 EXPRESSION_SYSTEM_PLASMID: PET30 KEYWDS NATURAL KILLER T CELL RECEPTOR, NKT CELL RECEPTOR, NKT15, IMMUNE KEYWDS 2 SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR L.KJER-NIELSEN,N.A.BORG REVDAT 4 25-OCT-23 2EYS 1 REMARK REVDAT 3 24-FEB-09 2EYS 1 VERSN REVDAT 2 04-APR-06 2EYS 1 JRNL REVDAT 1 21-MAR-06 2EYS 0 JRNL AUTH L.KJER-NIELSEN,N.A.BORG,D.G.PELLICCI,T.BEDDOE,L.KOSTENKO, JRNL AUTH 2 C.S.CLEMENTS,N.A.WILLIAMSON,M.J.SMYTH,G.S.BESRA,H.H.REID, JRNL AUTH 3 M.BHARADWAJ,D.I.GODFREY,J.ROSSJOHN,J.MCCLUSKEY JRNL TITL A STRUCTURAL BASIS FOR SELECTION AND CROSS-SPECIES JRNL TITL 2 REACTIVITY OF THE SEMI-INVARIANT NKT CELL RECEPTOR IN JRNL TITL 3 CD1D/GLYCOLIPID RECOGNITION JRNL REF J.EXP.MED. V. 203 661 2006 JRNL REFN ISSN 0022-1007 JRNL PMID 16505140 JRNL DOI 10.1084/JEM.20051777 REMARK 2 REMARK 2 RESOLUTION. 2.21 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.2.0005 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) : 2.21 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 65.51 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 97.4 REMARK 3 NUMBER OF REFLECTIONS : 21787 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) : 0.214 REMARK 3 R VALUE (WORKING SET) : 0.211 REMARK 3 FREE R VALUE : 0.278 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.200 REMARK 3 FREE R VALUE TEST SET COUNT : 1186 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) : 2.21 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.26 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1558 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 95.59 REMARK 3 BIN R VALUE (WORKING SET) : 0.2570 REMARK 3 BIN FREE R VALUE SET COUNT : 89 REMARK 3 BIN FREE R VALUE : 0.3820 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3527 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 8 REMARK 3 SOLVENT ATOMS : 123 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 29.46 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.26000 REMARK 3 B22 (A**2) : -0.52000 REMARK 3 B33 (A**2) : 1.78000 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): 0.343 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.259 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.203 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 15.858 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.939 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.896 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3638 ; 0.011 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4949 ; 1.250 ; 1.941 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 445 ; 6.066 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 177 ;37.122 ;24.350 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 590 ;17.998 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 22 ;18.119 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 538 ; 0.080 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2818 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1452 ; 0.199 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2401 ; 0.299 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 214 ; 0.145 ; 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): 61 ; 0.224 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 8 ; 0.189 ; 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): 2299 ; 1.440 ; 3.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3631 ; 2.405 ; 5.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1536 ; 3.714 ; 7.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1318 ; 5.036 ;10.000 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 : 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 2EYS COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 11-NOV-05. REMARK 100 THE DEPOSITION ID IS D_1000035259. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 04-APR-05 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.4 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : APS REMARK 200 BEAMLINE : 14-BM-C REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC QUANTUM 4 REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 22974 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.210 REMARK 200 RESOLUTION RANGE LOW (A) : 65.510 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : NULL REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : NULL 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: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: NULL REMARK 200 STARTING MODEL: PDB ENTRY 1MI5 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 44.30 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.20 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 9% PEG 3350, 0.1M CACODYLATE, 0.2M REMARK 280 AMMONIUM ACETATE, PH 6.4, VAPOR DIFFUSION, HANGING DROP, REMARK 280 TEMPERATURE 297K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 2 2 21 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 -X,Y,-Z+1/2 REMARK 290 4555 X,-Y,-Z REMARK 290 5555 X+1/2,Y+1/2,Z REMARK 290 6555 -X+1/2,-Y+1/2,Z+1/2 REMARK 290 7555 -X+1/2,Y+1/2,-Z+1/2 REMARK 290 8555 X+1/2,-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 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 58.42600 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 58.42600 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 0.00000 REMARK 290 SMTRY1 5 1.000000 0.000000 0.000000 29.91750 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 65.51700 REMARK 290 SMTRY3 5 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 6 -1.000000 0.000000 0.000000 29.91750 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 65.51700 REMARK 290 SMTRY3 6 0.000000 0.000000 1.000000 58.42600 REMARK 290 SMTRY1 7 -1.000000 0.000000 0.000000 29.91750 REMARK 290 SMTRY2 7 0.000000 1.000000 0.000000 65.51700 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 58.42600 REMARK 290 SMTRY1 8 1.000000 0.000000 0.000000 29.91750 REMARK 290 SMTRY2 8 0.000000 -1.000000 0.000000 65.51700 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 0.00000 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1, 2 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4340 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21150 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -22.0 KCAL/MOL 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 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 11610 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 39360 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -51.0 KCAL/MOL 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 350 BIOMT1 2 -1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 58.42600 REMARK 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH B1013 LIES ON A SPECIAL POSITION. 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 HIS A -2 REMARK 465 MET A -1 REMARK 465 LYS A 0 REMARK 465 SER A 206 REMARK 465 PRO A 207 REMARK 465 GLU A 208 REMARK 465 SER A 209 REMARK 465 SER A 210 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 ASN B 53 CG ASN B 53 OD1 0.238 REMARK 500 ASN B 53 CG ASN B 53 ND2 0.224 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 LEU A 166 CA - CB - CG ANGL. DEV. = 13.9 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 LEU A 46 -61.16 -102.55 REMARK 500 LYS A 132 -16.26 56.67 REMARK 500 ARG A 169 43.25 -72.39 REMARK 500 SER A 170 -56.95 -148.12 REMARK 500 VAL B 52 -27.45 -21.22 REMARK 500 ASN B 53 37.72 -147.87 REMARK 500 SER B 88 -161.62 176.60 REMARK 500 ARG B 98 -128.98 -93.10 REMARK 500 ALA B 246 0.59 -68.66 REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACY B 1001 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ACY B 1002 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2EYR RELATED DB: PDB REMARK 900 THE SEMI-INVARIANT NKT CELL RECEPTOR IN CD1D/GLYCOLIPID RECOGNITION REMARK 900 RELATED ID: 2EYT RELATED DB: PDB REMARK 900 THE SEMI-INVARIANT NKT CELL RECEPTOR IN CD1D/GLYCOLIPID RECOGNITION DBREF 2EYS A 20 210 UNP Q6PIZ8 Q6PIZ8_HUMAN 42 226 DBREF 2EYS B 29 247 UNP Q6GMR4 Q6GMR4_HUMAN 48 264 SEQRES 1 A 210 HIS MET LYS ASN GLN VAL GLU GLN SER PRO GLN SER LEU SEQRES 2 A 210 ILE ILE LEU GLU GLY LYS ASN CYS THR LEU GLN CYS ASN SEQRES 3 A 210 TYR THR VAL SER PRO PHE SER ASN LEU ARG TRP TYR LYS SEQRES 4 A 210 GLN ASP THR GLY ARG GLY PRO VAL SER LEU THR ILE MET SEQRES 5 A 210 THR PHE SER GLU ASN THR LYS SER ASN GLY ARG TYR THR SEQRES 6 A 210 ALA THR LEU ASP ALA ASP THR LYS GLN SER SER LEU HIS SEQRES 7 A 210 ILE THR ALA SER GLN LEU SER ASP SER ALA SER TYR ILE SEQRES 8 A 210 CYS VAL VAL SER ASP ARG GLY SER THR LEU GLY ARG LEU SEQRES 9 A 210 TYR PHE GLY ARG GLY THR GLN LEU THR VAL TRP PRO ASP SEQRES 10 A 210 ILE GLN ASN PRO ASP PRO ALA VAL TYR GLN LEU ARG ASP SEQRES 11 A 210 SER LYS SER SER ASP LYS SER VAL CYS LEU PHE THR ASP SEQRES 12 A 210 PHE ASP SER GLN THR ASN VAL SER GLN SER LYS ASP SER SEQRES 13 A 210 ASP VAL TYR ILE THR ASP LYS CYS VAL LEU ASP MET ARG SEQRES 14 A 210 SER MET ASP PHE LYS SER ASN SER ALA VAL ALA TRP SER SEQRES 15 A 210 ASN LYS SER ASP PHE ALA CYS ALA ASN ALA PHE ASN ASN SEQRES 16 A 210 SER ILE ILE PRO GLU ASP THR PHE PHE PRO SER PRO GLU SEQRES 17 A 210 SER SER SEQRES 1 B 243 ASP ILE TYR GLN THR PRO ARG TYR LEU VAL ILE GLY THR SEQRES 2 B 243 GLY LYS LYS ILE THR LEU GLU CYS SER GLN THR MET GLY SEQRES 3 B 243 HIS ASP LYS MET TYR TRP TYR GLN GLN ASP PRO GLY MET SEQRES 4 B 243 GLU LEU HIS LEU ILE HIS TYR SER TYR GLY VAL ASN SER SEQRES 5 B 243 THR GLU LYS GLY ASP LEU SER SER GLU SER THR VAL SER SEQRES 6 B 243 ARG ILE ARG THR GLU HIS PHE PRO LEU THR LEU GLU SER SEQRES 7 B 243 ALA ARG PRO SER HIS THR SER GLN TYR LEU CYS ALA SER SEQRES 8 B 243 SER GLY LEU ARG ASP ARG GLY LEU TYR GLU GLN TYR PHE SEQRES 9 B 243 GLY PRO GLY THR ARG LEU THR VAL THR GLU ASP LEU LYS SEQRES 10 B 243 ASN VAL PHE PRO PRO GLU VAL ALA VAL PHE GLU PRO SER SEQRES 11 B 243 GLU ALA GLU ILE SER HIS THR GLN LYS ALA THR LEU VAL SEQRES 12 B 243 CYS LEU ALA THR GLY PHE TYR PRO ASP HIS VAL GLU LEU SEQRES 13 B 243 SER TRP TRP VAL ASN GLY LYS GLU VAL HIS SER GLY VAL SEQRES 14 B 243 CYS THR ASP PRO GLN PRO LEU LYS GLU GLN PRO ALA LEU SEQRES 15 B 243 ASN ASP SER ARG TYR ALA LEU SER SER ARG LEU ARG VAL SEQRES 16 B 243 SER ALA THR PHE TRP GLN ASN PRO ARG ASN HIS PHE ARG SEQRES 17 B 243 CYS GLN VAL GLN PHE TYR GLY LEU SER GLU ASN ASP GLU SEQRES 18 B 243 TRP THR GLN ASP ARG ALA LYS PRO VAL THR GLN ILE VAL SEQRES 19 B 243 SER ALA GLU ALA TRP GLY ARG ALA ASP HET ACY B1001 4 HET ACY B1002 4 HETNAM ACY ACETIC ACID FORMUL 3 ACY 2(C2 H4 O2) FORMUL 5 HOH *123(H2 O) HELIX 1 1 GLN A 81 SER A 85 5 5 HELIX 2 2 ALA A 188 PHE A 193 1 6 HELIX 3 3 ARG B 83 THR B 87 5 5 HELIX 4 4 ASP B 119 VAL B 123 5 5 HELIX 5 5 SER B 134 GLN B 142 1 9 HELIX 6 6 ALA B 201 GLN B 205 1 5 SHEET 1 A 5 VAL A 3 SER A 6 0 SHEET 2 A 5 CYS A 18 TYR A 24 -1 O ASN A 23 N GLU A 4 SHEET 3 A 5 GLN A 72 ILE A 77 -1 O LEU A 75 N LEU A 20 SHEET 4 A 5 TYR A 62 ASP A 67 -1 N ASP A 67 O GLN A 72 SHEET 5 A 5 THR A 55 ASN A 58 -1 N ASN A 58 O TYR A 62 SHEET 1 B 5 SER A 9 LEU A 13 0 SHEET 2 B 5 THR A 110 TRP A 115 1 O TRP A 115 N ILE A 12 SHEET 3 B 5 ALA A 86 SER A 93 -1 N TYR A 88 O THR A 110 SHEET 4 B 5 ASN A 31 GLN A 37 -1 N GLN A 37 O SER A 87 SHEET 5 B 5 VAL A 44 THR A 50 -1 O LEU A 46 N TRP A 34 SHEET 1 C 4 SER A 9 LEU A 13 0 SHEET 2 C 4 THR A 110 TRP A 115 1 O TRP A 115 N ILE A 12 SHEET 3 C 4 ALA A 86 SER A 93 -1 N TYR A 88 O THR A 110 SHEET 4 C 4 LEU A 104 PHE A 106 -1 O TYR A 105 N VAL A 92 SHEET 1 D 4 ALA A 124 LEU A 128 0 SHEET 2 D 4 SER A 137 THR A 142 -1 O LEU A 140 N TYR A 126 SHEET 3 D 4 PHE A 173 SER A 182 -1 O ALA A 180 N CYS A 139 SHEET 4 D 4 VAL A 158 ILE A 160 -1 N TYR A 159 O TRP A 181 SHEET 1 E 4 ALA A 124 LEU A 128 0 SHEET 2 E 4 SER A 137 THR A 142 -1 O LEU A 140 N TYR A 126 SHEET 3 E 4 PHE A 173 SER A 182 -1 O ALA A 180 N CYS A 139 SHEET 4 E 4 CYS A 164 MET A 168 -1 N MET A 168 O PHE A 173 SHEET 1 F 4 ILE B 4 THR B 7 0 SHEET 2 F 4 ILE B 19 GLN B 25 -1 O SER B 24 N TYR B 5 SHEET 3 F 4 LEU B 77 LEU B 79 -1 O LEU B 79 N ILE B 19 SHEET 4 F 4 THR B 66 VAL B 67 -1 N THR B 66 O THR B 78 SHEET 1 G 6 TYR B 10 GLY B 14 0 SHEET 2 G 6 THR B 112 THR B 117 1 O ARG B 113 N LEU B 11 SHEET 3 G 6 SER B 88 LEU B 97 -1 N SER B 88 O LEU B 114 SHEET 4 G 6 LYS B 31 GLN B 37 -1 N TYR B 35 O LEU B 91 SHEET 5 G 6 HIS B 44 SER B 49 -1 O ILE B 46 N TRP B 34 SHEET 6 G 6 GLU B 56 LYS B 57 -1 O GLU B 56 N TYR B 48 SHEET 1 H 4 TYR B 10 GLY B 14 0 SHEET 2 H 4 THR B 112 THR B 117 1 O ARG B 113 N LEU B 11 SHEET 3 H 4 SER B 88 LEU B 97 -1 N SER B 88 O LEU B 114 SHEET 4 H 4 TYR B 103 PHE B 108 -1 O TYR B 107 N SER B 94 SHEET 1 I 4 GLU B 127 PHE B 131 0 SHEET 2 I 4 LYS B 143 PHE B 153 -1 O VAL B 147 N PHE B 131 SHEET 3 I 4 TYR B 191 SER B 200 -1 O LEU B 197 N LEU B 146 SHEET 4 I 4 VAL B 173 THR B 175 -1 N CYS B 174 O ARG B 196 SHEET 1 J 4 GLU B 127 PHE B 131 0 SHEET 2 J 4 LYS B 143 PHE B 153 -1 O VAL B 147 N PHE B 131 SHEET 3 J 4 TYR B 191 SER B 200 -1 O LEU B 197 N LEU B 146 SHEET 4 J 4 LEU B 180 LYS B 181 -1 N LEU B 180 O ALA B 192 SHEET 1 K 4 LYS B 167 VAL B 169 0 SHEET 2 K 4 VAL B 158 VAL B 164 -1 N VAL B 164 O LYS B 167 SHEET 3 K 4 HIS B 210 PHE B 217 -1 O GLN B 216 N GLU B 159 SHEET 4 K 4 GLN B 236 TRP B 243 -1 O ALA B 242 N PHE B 211 SSBOND 1 CYS A 22 CYS A 90 1555 1555 2.03 SSBOND 2 CYS A 139 CYS A 189 1555 1555 2.05 SSBOND 3 CYS A 164 CYS B 174 1555 1555 2.04 SSBOND 4 CYS B 23 CYS B 92 1555 1555 1.99 SSBOND 5 CYS B 148 CYS B 213 1555 1555 2.04 CISPEP 1 SER A 6 PRO A 7 0 -9.24 CISPEP 2 SER A 27 PRO A 28 0 4.35 CISPEP 3 THR B 7 PRO B 8 0 -6.57 CISPEP 4 TYR B 154 PRO B 155 0 0.32 SITE 1 AC1 3 ARG A 169 HIS B 170 SER B 171 SITE 1 AC2 5 ARG A 60 GLY B 166 ARG B 212 HOH B1018 SITE 2 AC2 5 HOH B1022 CRYST1 59.835 131.034 116.852 90.00 90.00 90.00 C 2 2 21 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 0.016713 0.000000 0.000000 0.00000 SCALE2 0.000000 0.007632 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008558 0.00000