HEADER RECEPTOR 23-JAN-06 2CDG TITLE STRUCTURE AND BINDING KINETICS OF THREE DIFFERENT HUMAN CD1D-ALPHA- TITLE 2 GALACTOSYLCERAMIDE-SPECIFIC T CELL RECEPTORS (TCR 5B) COMPND MOL_ID: 1; COMPND 2 MOLECULE: TCR 5E; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: NON CANONICAL HUMAN NATURAL KILLER (NK) T CELL COMPND 6 RECEPTOR 5E NON-VALPHA24 AND VBETA11; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: TCR 5E; COMPND 9 CHAIN: B; COMPND 10 ENGINEERED: YES; COMPND 11 OTHER_DETAILS: NON CANONICAL HUMAN NATURAL KILLER (NK) T CELL COMPND 12 RECEPTOR 5E NON-VALPHA24 AND VBETA11 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; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: HUMAN; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 13 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 14 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) KEYWDS RECEPTOR, CD1D, MHC CLASS I, TCR 5B EXPDTA X-RAY DIFFRACTION AUTHOR S.D.GADOLA,M.KOCH,J.MARLES-WRIGHT,N.M.LISSIN,D.SHEPERD,G.MATULIS, AUTHOR 2 K.HARLOS,P.M.VILLIGER,D.I.STUART,B.K.JAKOBSEN,V.CERUNDOLO,E.Y.JONES REVDAT 5 13-DEC-23 2CDG 1 REMARK REVDAT 4 13-JUL-11 2CDG 1 VERSN REVDAT 3 24-FEB-09 2CDG 1 VERSN REVDAT 2 22-MAR-06 2CDG 1 JRNL REVDAT 1 07-MAR-06 2CDG 0 JRNL AUTH S.D.GADOLA,M.KOCH,J.MARLES-WRIGHT,N.M.LISSIN,D.SHEPERD, JRNL AUTH 2 G.MATULIS,K.HARLOS,P.M.VILLIGER,D.I.STUART,B.K.JAKOBSEN, JRNL AUTH 3 V.CERUNDOLO,E.Y.JONES JRNL TITL STRUCTRUE AND BINDING KINETICS OF THREE DIFFERENT HUMAN JRNL TITL 2 CD1D-ALPHA-GALACTOSYLCERAMIDE-SPECIFIC T CELL RECEPTORS JRNL REF J.EXP.MED. V. 203 699 2006 JRNL REFN ISSN 0022-1007 JRNL PMID 16520393 JRNL DOI 10.1084/JEM.20052369 REMARK 2 REMARK 2 RESOLUTION. 2.60 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) : 2.60 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 61.66 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 96.0 REMARK 3 NUMBER OF REFLECTIONS : 13033 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) : 0.222 REMARK 3 R VALUE (WORKING SET) : 0.217 REMARK 3 FREE R VALUE : 0.318 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.800 REMARK 3 FREE R VALUE TEST SET COUNT : 656 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) : 2.60 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.67 REMARK 3 REFLECTION IN BIN (WORKING SET) : 871 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.3040 REMARK 3 BIN FREE R VALUE SET COUNT : 43 REMARK 3 BIN FREE R VALUE : 0.4570 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 3392 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 61 REMARK 3 REMARK 3 B VALUES. REMARK 3 B VALUE TYPE : UNVERIFIED REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 22.94 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.04000 REMARK 3 B22 (A**2) : -0.04000 REMARK 3 B33 (A**2) : 0.06000 REMARK 3 B12 (A**2) : -0.02000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.438 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.332 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 31.974 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.927 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.825 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 3475 ; 0.009 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 4720 ; 1.298 ; 1.935 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 426 ; 6.489 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 170 ;33.922 ;23.882 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 572 ;19.471 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 25 ;14.208 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 511 ; 0.086 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 2681 ; 0.004 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1253 ; 0.214 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 2283 ; 0.301 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 131 ; 0.157 ; 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): 54 ; 0.211 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 4 ; 0.205 ; 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): 2189 ; 2.495 ; 6.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 3450 ; 3.701 ; 8.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1476 ; 2.631 ; 6.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 1270 ; 3.515 ; 8.000 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 : 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 3 A 111 REMARK 3 ORIGIN FOR THE GROUP (A): -25.7657 10.4574 83.1174 REMARK 3 T TENSOR REMARK 3 T11: 0.1057 T22: 0.1308 REMARK 3 T33: 0.1475 T12: 0.0322 REMARK 3 T13: -0.0308 T23: 0.0689 REMARK 3 L TENSOR REMARK 3 L11: 7.8366 L22: 6.6547 REMARK 3 L33: 4.9974 L12: 2.7796 REMARK 3 L13: -0.9680 L23: -0.8430 REMARK 3 S TENSOR REMARK 3 S11: 0.0606 S12: -1.0276 S13: -0.8664 REMARK 3 S21: 0.5358 S22: -0.1447 S23: -0.5606 REMARK 3 S31: 0.6885 S32: 0.2710 S33: 0.0841 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 112 A 193 REMARK 3 ORIGIN FOR THE GROUP (A): -29.7496 43.2974 73.6072 REMARK 3 T TENSOR REMARK 3 T11: 0.1143 T22: -0.0521 REMARK 3 T33: -0.0653 T12: -0.0879 REMARK 3 T13: -0.0016 T23: -0.0470 REMARK 3 L TENSOR REMARK 3 L11: 6.2728 L22: 4.9318 REMARK 3 L33: 4.6921 L12: -0.8640 REMARK 3 L13: -1.5784 L23: 1.4516 REMARK 3 S TENSOR REMARK 3 S11: -0.2133 S12: -0.4681 S13: 0.4996 REMARK 3 S21: 0.4590 S22: 0.3575 S23: -0.2812 REMARK 3 S31: -0.3036 S32: 0.4047 S33: -0.1442 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 : B 3 B 105 REMARK 3 ORIGIN FOR THE GROUP (A): -47.8552 7.6975 79.6759 REMARK 3 T TENSOR REMARK 3 T11: 0.0165 T22: -0.0108 REMARK 3 T33: -0.0833 T12: -0.1477 REMARK 3 T13: -0.0492 T23: 0.0275 REMARK 3 L TENSOR REMARK 3 L11: 6.6442 L22: 11.2075 REMARK 3 L33: 4.3343 L12: -1.7979 REMARK 3 L13: 0.6749 L23: -1.6759 REMARK 3 S TENSOR REMARK 3 S11: -0.0570 S12: -0.1649 S13: -0.2778 REMARK 3 S21: 0.2516 S22: 0.2665 S23: -0.1738 REMARK 3 S31: 0.2132 S32: -0.0186 S33: -0.2095 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 : B 106 B 245 REMARK 3 ORIGIN FOR THE GROUP (A): -44.7353 36.1998 69.0820 REMARK 3 T TENSOR REMARK 3 T11: -0.0347 T22: -0.1162 REMARK 3 T33: -0.1536 T12: -0.0084 REMARK 3 T13: -0.0139 T23: -0.0248 REMARK 3 L TENSOR REMARK 3 L11: 2.3005 L22: 2.0225 REMARK 3 L33: 1.9809 L12: 0.7335 REMARK 3 L13: -0.0515 L23: 0.1415 REMARK 3 S TENSOR REMARK 3 S11: 0.0725 S12: -0.0337 S13: 0.1079 REMARK 3 S21: 0.0804 S22: -0.0639 S23: 0.0155 REMARK 3 S31: -0.2566 S32: -0.0451 S33: -0.0087 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 2CDG COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 23-JAN-06. REMARK 100 THE DEPOSITION ID IS D_1290027421. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-NOV-03 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : SRS REMARK 200 BEAMLINE : PX14.2 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9790 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : ADSC CCD REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 13750 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.600 REMARK 200 RESOLUTION RANGE LOW (A) : 18.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.500 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.6 REMARK 200 DATA REDUNDANCY : 5.400 REMARK 200 R MERGE (I) : 0.12000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 10.4000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.60 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.67 REMARK 200 COMPLETENESS FOR SHELL (%) : 87.4 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.55000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 2.200 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 2CDF REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 43.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.27 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 200 MM DI-AMMONIUM TARTRATE, 20 % REMARK 280 PEG3350 REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 31 2 1 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 Y,X,-Z REMARK 290 5555 X-Y,-Y,-Z+2/3 REMARK 290 6555 -X,-X+Y,-Z+1/3 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 61.66667 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 123.33333 REMARK 290 SMTRY1 4 -0.500000 0.866025 0.000000 0.00000 REMARK 290 SMTRY2 4 0.866025 0.500000 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 0.00000 REMARK 290 SMTRY2 5 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 123.33333 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 61.66667 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4210 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 21470 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 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 126 CA - CB - CG ANGL. DEV. = 14.5 DEGREES REMARK 500 LEU B 179 CA - CB - CG ANGL. DEV. = 18.3 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 27 -89.22 -83.49 REMARK 500 ILE A 30 -166.98 -129.24 REMARK 500 ASN A 32 124.42 -175.75 REMARK 500 ARG A 42 -107.13 -132.47 REMARK 500 LEU A 47 -60.12 -108.86 REMARK 500 ASN A 53 48.74 -106.29 REMARK 500 ALA A 79 74.60 49.02 REMARK 500 ALA A 86 -172.43 179.85 REMARK 500 SER A 97 -63.87 76.21 REMARK 500 LEU A 99 -165.20 -74.10 REMARK 500 SER A 131 97.23 -47.65 REMARK 500 GLN A 145 53.38 -109.77 REMARK 500 LYS A 152 52.97 -100.01 REMARK 500 ASP A 153 107.85 -164.66 REMARK 500 ASN A 189 -22.35 -141.31 REMARK 500 PHE A 191 -38.18 100.75 REMARK 500 ASN A 192 108.02 -44.05 REMARK 500 ASP B 4 177.37 81.80 REMARK 500 MET B 42 -20.76 141.29 REMARK 500 SER B 85 -17.64 -45.00 REMARK 500 SER B 88 -177.27 -175.38 REMARK 500 TYR B 103 -166.58 66.76 REMARK 500 PRO B 154 -146.97 -79.39 REMARK 500 ASP B 187 40.88 -97.94 REMARK 500 TRP B 225 118.29 -166.09 REMARK 500 REMARK 500 REMARK: NULL REMARK 700 REMARK 700 SHEET REMARK 700 THE SHEET STRUCTURE OF THIS MOLECULE IS BIFURCATED. IN REMARK 700 ORDER TO REPRESENT THIS FEATURE IN THE SHEET RECORDS BELOW, REMARK 700 TWO SHEETS ARE DEFINED. REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1B88 RELATED DB: PDB REMARK 900 V-ALPHA 2.6 MOUSE T CELL RECEPTOR (TCR) DOMAIN REMARK 900 RELATED ID: 1BWM RELATED DB: PDB REMARK 900 A SINGLE-CHAIN T CELL RECEPTOR REMARK 900 RELATED ID: 1H5B RELATED DB: PDB REMARK 900 T CELL RECEPTOR VALPHA11 (AV11S5) DOMAIN REMARK 900 RELATED ID: 1HXM RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF A HUMAN VGAMMA9/VDELTA2 T CELL RECEPTOR REMARK 900 RELATED ID: 1KTK RELATED DB: PDB REMARK 900 COMPLEX OF STREPTOCOCCAL PYROGENIC ENTEROTOXIN C (SPEC)WITH A HUMAN REMARK 900 T CELL RECEPTOR BETA CHAIN (VBETA2.1) REMARK 900 RELATED ID: 1L0Y RELATED DB: PDB REMARK 900 T CELL RECEPTOR BETA CHAIN COMPLEXED WITH SUPERANTIGEN SPEASOAKED REMARK 900 WITH ZINC REMARK 900 RELATED ID: 1TVD RELATED DB: PDB REMARK 900 VARIABLE DOMAIN OF T CELL RECEPTOR DELTA CHAIN REMARK 900 RELATED ID: 2AXH RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURES OF T CELL RECEPTOR BETA CHAINS RELATEDTO REMARK 900 RHEUMATOID ARTHRITIS REMARK 900 RELATED ID: 2AXJ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURES OF T CELL RECEPTOR BETA CHAINS RELATEDTO REMARK 900 RHEUMATOID ARTHRITIS REMARK 900 RELATED ID: 2CDE RELATED DB: PDB REMARK 900 STRUCTURE AND BINDING KINETICS OF THREE DIFFERENT HUMAN CD1D-ALPHA- REMARK 900 GALACTOSYLCERAMIDE SPECIFIC T CELL RECEPTORS - INKT-TCR REMARK 900 RELATED ID: 2CDF RELATED DB: PDB REMARK 900 STRUCTURE AND BINDING KINETICS OF THREE DIFFERENT HUMAN CD1D-ALPHA- REMARK 900 GALACTOSYLCERAMIDE- SPECIFIC T CELL RECEPTORS (TCR 5E) REMARK 900 RELATED ID: 1CD1 RELATED DB: PDB REMARK 900 CD1(MOUSE) ANTIGEN PRESENTING MOLECULE REMARK 900 RELATED ID: 1AO7 RELATED DB: PDB REMARK 900 COMPLEX BETWEEN HUMAN T-CELL RECEPTOR, VIRAL PEPTIDE (TAX), AND HLA- REMARK 900 A 0201 REMARK 900 RELATED ID: 1QRN RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN A6 TCR COMPLEXED WITH HLA-A2 BOUND TO REMARK 900 ALTERED HTLV-1 TAX PEPTIDE P6A REMARK 900 RELATED ID: 1QSE RELATED DB: PDB REMARK 900 STRUCTURE OF HUMAN A6-TCR BOUND TO HLA- A2 COMPLEXED WITH ALTERED REMARK 900 HTLV-1 TAX PEPTIDE V7R REMARK 900 RELATED ID: 1QSF RELATED DB: PDB REMARK 900 STRUCTURE OF A6-TCR BOUND TO HLA-A2 COMPLEXED WITH ALTERED HTLV-1 REMARK 900 TAX PEPTIDE Y8A REMARK 900 RELATED ID: 1BD2 RELATED DB: PDB REMARK 900 COMPLEX BETWEEN HUMAN T-CELL RECEPTOR B7, VIRAL PEPTIDE (TAX) AND REMARK 900 MHC CLASS I MOLECULE HLA-A 0201 REMARK 900 RELATED ID: 1LP9 RELATED DB: PDB REMARK 900 XENOREACTIVE COMPLEX AHIII 12.2 TCR BOUND TO P1049/HLA-A2.1 REMARK 900 RELATED ID: 1MI5 RELATED DB: PDB REMARK 900 THE CRYSTAL STRUCTURE OF LC13 TCR IN COMPLEX WITH HLAB8-EBVPEPTIDE REMARK 900 COMPLEX REMARK 900 RELATED ID: 2BNQ RELATED DB: PDB REMARK 900 STRUCTURAL AND KINETIC BASIS FOR HIGHTENED IMMUNOGENICITY OF T CELL REMARK 900 VACCINES REMARK 900 RELATED ID: 2BNR RELATED DB: PDB REMARK 900 STRUCTURAL AND KINETIC BASIS FOR HIGHTENED IMMUNOGENICITY OF T CELL REMARK 900 VACCINES REMARK 900 RELATED ID: 2BNU RELATED DB: PDB REMARK 900 STRUCTURAL AND KINETIC BASIS FOR HIGHTENED IMMUNOGENICITY OF T CELL REMARK 900 VACCINES REMARK 900 RELATED ID: 1KGC RELATED DB: PDB REMARK 900 IMMUNE RECEPTOR REMARK 900 RELATED ID: 1FO0 RELATED DB: PDB REMARK 900 MURINE ALLOREACTIVE SCFV TCR-PEPTIDE-MHC CLASS I MOLECULECOMPLEX REMARK 900 RELATED ID: 1KJ2 RELATED DB: PDB REMARK 900 MURINE ALLOREACTIVE SCFV TCR-PEPTIDE-MHC CLASS I MOLECULECOMPLEX REMARK 900 RELATED ID: 1NAM RELATED DB: PDB REMARK 900 MURINE ALLOREACTIVE SCFV TCR-PEPTIDE-MHC CLASS I MOLECULECOMPLEX REMARK 900 RELATED ID: 2CKB RELATED DB: PDB REMARK 900 STRUCTURE OF THE 2C/KB/DEV8 COMPLEX REMARK 900 RELATED ID: 1G6R RELATED DB: PDB REMARK 900 A FUNCTIONAL HOT SPOT FOR ANTIGEN RECOGNITION IN ASUPERAGONIST TCR/ REMARK 900 MHC COMPLEX REMARK 900 RELATED ID: 1MWA RELATED DB: PDB REMARK 900 2C/H-2KBM3/DEV8 ALLOGENEIC COMPLEX REMARK 900 RELATED ID: 1KB5 RELATED DB: PDB REMARK 900 MURINE T-CELL RECEPTOR VARIABLE DOMAIN/FAB COMPLEX REMARK 900 RELATED ID: 1NFD RELATED DB: PDB REMARK 900 AN ALPHA-BETA T CELL RECEPTOR (TCR) HETERODIMER IN COMPLEX WITH AN REMARK 900 ANTI-TCR FAB FRAGMENT DERIVED FROM A MITOGENIC ANTIBODY REMARK 900 RELATED ID: 1TCR RELATED DB: PDB REMARK 900 MURINE T-CELL ANTIGEN RECEPTOR 2C CLONE REMARK 900 RELATED ID: 1FYT RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF A COMPLEX OF A HUMAN ALPHA/BETA-T CELLRECEPTOR, REMARK 900 INFLUENZA HA ANTIGEN PEPTIDE, AND MHC CLASS IIMOLECULE, HLA-DR1 REMARK 900 RELATED ID: 1J8H RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF A COMPLEX OF A HUMAN ALPHA/BETA-T CELLRECEPTOR, REMARK 900 INFLUENZA HA ANTIGEN PEPTIDE, AND MHC CLASS IIMOLECULE, HLA-DR4 REMARK 900 RELATED ID: 1D9K RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF COMPLEX BETWEEN D10 TCR AND PMHC I- AK/CA REMARK 900 RELATED ID: 1YMM RELATED DB: PDB REMARK 900 TCR/HLA-DR2B/MBP-PEPTIDE COMPLEX REMARK 900 RELATED ID: 1YPZ RELATED DB: PDB REMARK 900 IMMUNE RECEPTOR REMARK 900 RELATED ID: 1ZT4 RELATED DB: PDB REMARK 900 THE CRYSTAL STRUCTURE OF HUMAN CD1D WITH AND WITHOUT ALPHA- REMARK 900 GALACTOSYLCERAMIDE REMARK 900 RELATED ID: 1Z5L RELATED DB: PDB REMARK 900 STRUCTURE OF A HIGHLY POTENT SHORT-CHAIN GALACTOSYLCERAMIDE AGONIST REMARK 900 BOUND TO CD1D REMARK 900 RELATED ID: 1ZHN RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF MOUSE CD1D BOUND TO THE SELF REMARK 900 LIGANDPHOSPHATIDYLCHOLINE REMARK 900 RELATED ID: 2AKR RELATED DB: PDB REMARK 900 STRUCTURAL BASIS OF SULFATIDE PRESENTATION BY MOUSE CD1D DBREF 2CDG A 10 193 PDB 2CDG 2CDG 10 193 DBREF 2CDG B 3 246 PDB 2CDG 2CDG 3 246 SEQRES 1 A 184 GLN ALA LEU SER ILE GLN GLU GLY GLU ASN ALA THR MET SEQRES 2 A 184 ASN CYS SER TYR LYS THR SER ILE ASN ASN LEU GLN TRP SEQRES 3 A 184 TYR ARG GLN ASN SER GLY ARG GLY LEU VAL HIS LEU ILE SEQRES 4 A 184 LEU ILE ARG SER ASN GLU ARG GLU LYS HIS SER GLY ARG SEQRES 5 A 184 LEU ARG VAL THR LEU ASP THR SER LYS LYS SER SER SER SEQRES 6 A 184 LEU LEU ILE THR ALA SER ARG ALA ALA ASP THR ALA SER SEQRES 7 A 184 TYR PHE CYS ALA PRO PHE ASP ARG GLY SER THR LEU GLY SEQRES 8 A 184 ARG LEU TYR PHE GLY ARG GLY THR GLN LEU THR VAL TRP SEQRES 9 A 184 PRO ASP ILE GLN ASN PRO ASP PRO ALA VAL TYR GLN LEU SEQRES 10 A 184 ARG ASP SER LYS SER SER ASP LYS SER VAL CYS LEU PHE SEQRES 11 A 184 THR ASP PHE ASP SER GLN THR ASN VAL SER GLN SER LYS SEQRES 12 A 184 ASP SER ASP VAL TYR ILE THR ASP LYS CYS VAL LEU ASP SEQRES 13 A 184 MET ARG SER MET ASP PHE LYS SER ASN SER ALA VAL ALA SEQRES 14 A 184 TRP SER ASN LYS SER ASP PHE ALA CYS ALA ASN ALA PHE SEQRES 15 A 184 ASN ASN SEQRES 1 B 244 ALA ASP ILE TYR GLN THR PRO ARG TYR LEU VAL ILE GLY SEQRES 2 B 244 THR GLY LYS LYS ILE THR LEU GLU CYS SER GLN THR MET SEQRES 3 B 244 GLY HIS ASP LYS MET TYR TRP TYR GLN GLN ASP PRO GLY SEQRES 4 B 244 MET GLU LEU HIS LEU ILE HIS TYR SER TYR GLY VAL ASN SEQRES 5 B 244 SER THR GLU LYS GLY ASP LEU SER SER GLU SER THR VAL SEQRES 6 B 244 SER ARG ILE ARG THR GLU HIS PHE PRO LEU THR LEU GLU SEQRES 7 B 244 SER ALA ARG PRO SER HIS THR SER GLN TYR LEU CYS ALA SEQRES 8 B 244 SER SER GLU SER ARG THR GLY ILE ASN TYR GLY TYR THR SEQRES 9 B 244 PHE GLY SER GLY THR ARG LEU THR VAL VAL GLU ASP LEU SEQRES 10 B 244 ASN LYS VAL PHE PRO PRO GLU VAL ALA VAL PHE GLU PRO SEQRES 11 B 244 SER GLU ALA GLU ILE SER HIS THR GLN LYS ALA THR LEU SEQRES 12 B 244 VAL CYS LEU ALA THR GLY PHE TYR PRO ASP HIS VAL GLU SEQRES 13 B 244 LEU SER TRP TRP VAL ASN GLY LYS GLU VAL HIS SER GLY SEQRES 14 B 244 VAL CYS THR ASP PRO GLN PRO LEU LYS GLU GLN PRO ALA SEQRES 15 B 244 LEU ASN ASP SER ARG TYR ALA LEU SER SER ARG LEU ARG SEQRES 16 B 244 VAL SER ALA THR PHE TRP GLN ASP PRO ARG ASN HIS PHE SEQRES 17 B 244 ARG CYS GLN VAL GLN PHE TYR GLY LEU SER GLU ASN ASP SEQRES 18 B 244 GLU TRP THR GLN ASP ARG ALA LYS PRO VAL THR GLN ILE SEQRES 19 B 244 VAL SER ALA GLU ALA TRP GLY ARG ALA ASP FORMUL 3 HOH *61(H2 O) HELIX 1 1 ARG A 81 THR A 85 5 5 HELIX 2 2 ARG A 167 ASP A 170 5 4 HELIX 3 3 ARG B 83 THR B 87 5 5 HELIX 4 4 ASP B 118 VAL B 122 5 5 HELIX 5 5 SER B 133 GLN B 141 1 9 HELIX 6 6 ALA B 200 GLN B 204 1 5 SHEET 1 A 5 LEU A 12 GLN A 15 0 SHEET 2 A 5 THR A 108 TRP A 113 1 O GLN A 109 N LEU A 12 SHEET 3 A 5 ALA A 86 ASP A 94 -1 N ALA A 86 O LEU A 110 SHEET 4 A 5 ASN A 32 GLN A 38 -1 N GLN A 38 O SER A 87 SHEET 5 A 5 LEU A 44 ARG A 51 -1 O ILE A 50 N LEU A 33 SHEET 1 B 4 LEU A 12 GLN A 15 0 SHEET 2 B 4 THR A 108 TRP A 113 1 O GLN A 109 N LEU A 12 SHEET 3 B 4 ALA A 86 ASP A 94 -1 N ALA A 86 O LEU A 110 SHEET 4 B 4 ARG A 101 LEU A 102 -1 O ARG A 101 N ASP A 94 SHEET 1 C 4 ALA A 20 SER A 25 0 SHEET 2 C 4 SER A 72 ILE A 77 -1 O LEU A 75 N MET A 22 SHEET 3 C 4 LEU A 62 ASP A 67 -1 N ARG A 63 O LEU A 76 SHEET 4 C 4 GLU A 56 SER A 59 -1 N LYS A 57 O VAL A 64 SHEET 1 D 4 ALA A 122 ARG A 127 0 SHEET 2 D 4 SER A 135 THR A 140 -1 O LEU A 138 N TYR A 124 SHEET 3 D 4 PHE A 171 SER A 180 -1 O ALA A 178 N CYS A 137 SHEET 4 D 4 VAL A 156 ILE A 158 -1 N TYR A 157 O TRP A 179 SHEET 1 E 4 ALA A 122 ARG A 127 0 SHEET 2 E 4 SER A 135 THR A 140 -1 O LEU A 138 N TYR A 124 SHEET 3 E 4 PHE A 171 SER A 180 -1 O ALA A 178 N CYS A 137 SHEET 4 E 4 CYS A 162 MET A 166 -1 N MET A 166 O PHE A 171 SHEET 1 F 4 ILE B 5 THR B 8 0 SHEET 2 F 4 ILE B 20 GLN B 26 -1 O SER B 25 N TYR B 6 SHEET 3 F 4 LEU B 77 LEU B 79 -1 O LEU B 77 N LEU B 22 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 11 GLY B 15 0 SHEET 2 G 6 THR B 111 VAL B 116 1 O THR B 114 N LEU B 12 SHEET 3 G 6 SER B 88 SER B 95 -1 N TYR B 90 O THR B 111 SHEET 4 G 6 LYS B 32 GLN B 38 -1 N TYR B 36 O LEU B 91 SHEET 5 G 6 LEU B 44 GLY B 52 -1 O HIS B 48 N TRP B 35 SHEET 6 G 6 SER B 55 LYS B 58 -1 O SER B 55 N GLY B 52 SHEET 1 H 4 TYR B 11 GLY B 15 0 SHEET 2 H 4 THR B 111 VAL B 116 1 O THR B 114 N LEU B 12 SHEET 3 H 4 SER B 88 SER B 95 -1 N TYR B 90 O THR B 111 SHEET 4 H 4 THR B 106 PHE B 107 -1 O THR B 106 N SER B 94 SHEET 1 I 4 GLU B 126 PHE B 130 0 SHEET 2 I 4 LYS B 142 PHE B 152 -1 O VAL B 146 N PHE B 130 SHEET 3 I 4 TYR B 190 SER B 199 -1 O VAL B 198 N ALA B 143 SHEET 4 I 4 VAL B 172 THR B 174 -1 N CYS B 173 O ARG B 195 SHEET 1 J 4 GLU B 126 PHE B 130 0 SHEET 2 J 4 LYS B 142 PHE B 152 -1 O VAL B 146 N PHE B 130 SHEET 3 J 4 TYR B 190 SER B 199 -1 O VAL B 198 N ALA B 143 SHEET 4 J 4 LEU B 179 LYS B 180 -1 N LEU B 179 O ALA B 191 SHEET 1 K 4 LYS B 166 GLU B 167 0 SHEET 2 K 4 VAL B 157 VAL B 163 -1 N VAL B 163 O LYS B 166 SHEET 3 K 4 HIS B 209 PHE B 216 -1 O GLN B 213 N SER B 160 SHEET 4 K 4 GLN B 235 TRP B 242 -1 O ALA B 241 N PHE B 210 SSBOND 1 CYS A 24 CYS A 90 1555 1555 2.03 SSBOND 2 CYS A 137 CYS A 187 1555 1555 2.03 SSBOND 3 CYS A 162 CYS B 173 1555 1555 2.05 SSBOND 4 CYS B 24 CYS B 92 1555 1555 2.01 SSBOND 5 CYS B 147 CYS B 212 1555 1555 2.02 CISPEP 1 THR B 8 PRO B 9 0 -9.52 CISPEP 2 TYR B 153 PRO B 154 0 1.11 CRYST1 64.062 64.062 185.000 90.00 90.00 120.00 P 31 2 1 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 0.015610 0.009012 0.000000 0.00000 SCALE2 0.000000 0.018025 0.000000 0.00000 SCALE3 0.000000 0.000000 0.005405 0.00000