HEADER IMMUNE SYSTEM 24-FEB-11 3QUK TITLE CRYSTAL STRUCTURES OF THE MURINE CLASS I MAJOR HISTOCOMPATIBILITY TITLE 2 COMPLEX H-2DB IN COMPLEX WITH LCMV-DERIVED GP33 ALTERED PEPTIDE TITLE 3 LIGAND (Y4A) COMPND MOL_ID: 1; COMPND 2 MOLECULE: H-2 CLASS I HISTOCOMPATIBILITY ANTIGEN, D-B ALPHA CHAIN; COMPND 3 CHAIN: A, D; COMPND 4 FRAGMENT: UNP RESIDUES 25-362; COMPND 5 SYNONYM: H-2D(B); COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: BETA-2-MICROGLOBULIN; COMPND 9 CHAIN: B, E; COMPND 10 FRAGMENT: UNP RESIDUES 21-119; COMPND 11 ENGINEERED: YES; COMPND 12 MOL_ID: 3; COMPND 13 MOLECULE: PRE-GLYCOPROTEIN POLYPROTEIN GP COMPLEX; COMPND 14 CHAIN: C, F; COMPND 15 FRAGMENT: UNP RESIDUES 33-41; COMPND 16 SYNONYM: PRE-GP-C; COMPND 17 ENGINEERED: YES; COMPND 18 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: H2-D1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET3A; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 13 ORGANISM_COMMON: MOUSE; SOURCE 14 ORGANISM_TAXID: 10090; SOURCE 15 GENE: B2M; SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 18 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 19 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 20 EXPRESSION_SYSTEM_PLASMID: PET3A; SOURCE 21 MOL_ID: 3; SOURCE 22 SYNTHETIC: YES; SOURCE 23 ORGANISM_SCIENTIFIC: LYMPHOCYTIC CHORIOMENINGITIS VIRUS; SOURCE 24 ORGANISM_COMMON: LCMV; SOURCE 25 ORGANISM_TAXID: 11627; SOURCE 26 OTHER_DETAILS: THIS SEQUENCE OCCURS NATURALLY IN LCMV KEYWDS MURINE MHC, LCMV, RECEPTOR BINDING, BETA2-MICROGLOBULIN, IMMUNE KEYWDS 2 SYSTEM, T CELL RECOGNITION, T CELL RECEPTOR, CELL SURFACE EXPDTA X-RAY DIFFRACTION AUTHOR E.ALLERBRING,A.D.DURU,H.UCHTENHAGEN,C.MADHURANTAKAM,S.GRIMM, AUTHOR 2 M.B.TOMEK,P.A.MAZUMDAR,A.SPETZ,R.FRIEMANN,T.SANDALOVA,M.UHLIN, AUTHOR 3 P.NYGREN,A.ACHOUR REVDAT 5 13-SEP-23 3QUK 1 REMARK REVDAT 4 07-MAR-18 3QUK 1 REMARK REVDAT 3 03-MAY-17 3QUK 1 AUTHOR DBREF SEQRES REVDAT 2 12-APR-17 3QUK 1 JRNL REVDAT 1 21-MAR-12 3QUK 0 JRNL AUTH E.B.ALLERBRING,A.D.DURU,H.UCHTENHAGEN,C.MADHURANTAKAM, JRNL AUTH 2 M.B.TOMEK,S.GRIMM,P.A.MAZUMDAR,R.FRIEMANN,M.UHLIN, JRNL AUTH 3 T.SANDALOVA,P.A.NYGREN,A.ACHOUR JRNL TITL UNEXPECTED T-CELL RECOGNITION OF AN ALTERED PEPTIDE LIGAND JRNL TITL 2 IS DRIVEN BY REVERSED THERMODYNAMICS. JRNL REF EUR.J.IMMUNOL. V. 42 2990 2012 JRNL REFN ISSN 0014-2980 JRNL PMID 22837158 JRNL DOI 10.1002/EJI.201242588 REMARK 2 REMARK 2 RESOLUTION. 2.41 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.5.0072 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) : 2.41 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 33.90 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 99.0 REMARK 3 NUMBER OF REFLECTIONS : 42333 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) : 0.244 REMARK 3 R VALUE (WORKING SET) : 0.242 REMARK 3 FREE R VALUE : 0.285 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 2252 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) : 2.41 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.47 REMARK 3 REFLECTION IN BIN (WORKING SET) : 2784 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 88.76 REMARK 3 BIN R VALUE (WORKING SET) : 0.2800 REMARK 3 BIN FREE R VALUE SET COUNT : 155 REMARK 3 BIN FREE R VALUE : 0.3770 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6090 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 300 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 56.58 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.16000 REMARK 3 B22 (A**2) : 0.05000 REMARK 3 B33 (A**2) : -0.09000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.17000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.376 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.275 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.195 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 8.221 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.906 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.878 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6365 ; 0.009 ; 0.021 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 8641 ; 1.192 ; 1.934 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 741 ; 6.065 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 336 ;36.023 ;23.393 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1049 ;17.472 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 51 ;21.433 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 861 ; 0.085 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 5023 ; 0.005 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): NULL ; NULL ; NULL 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): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): NULL ; NULL ; NULL 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): 3736 ; 0.629 ; 1.500 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 6032 ; 1.200 ; 2.000 REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 2629 ; 1.406 ; 3.000 REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 2609 ; 2.390 ; 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 : 1 REMARK 3 REMARK 3 NCS GROUP NUMBER : 1 REMARK 3 CHAIN NAMES : B E REMARK 3 NUMBER OF COMPONENTS NCS GROUP : 1 REMARK 3 COMPONENT C SSSEQI TO C SSSEQI CODE REMARK 3 1 B 1 B 99 2 REMARK 3 1 E 1 E 99 2 REMARK 3 GROUP CHAIN COUNT RMS WEIGHT REMARK 3 TIGHT POSITIONAL 1 B (A): 384 ; 0.160 ; 0.050 REMARK 3 MEDIUM POSITIONAL 1 B (A): 409 ; 0.390 ; 0.500 REMARK 3 TIGHT THERMAL 1 B (A**2): 384 ; 0.570 ; 0.500 REMARK 3 MEDIUM THERMAL 1 B (A**2): 409 ; 0.750 ; 2.000 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH 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 3QUK COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-FEB-11. REMARK 100 THE DEPOSITION ID IS D_1000064121. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 13-NOV-04 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 9.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : MAX II REMARK 200 BEAMLINE : I711 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.007 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL 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 : 44615 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 36.200 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.9 REMARK 200 DATA REDUNDANCY : 3.700 REMARK 200 R MERGE (I) : 0.05200 REMARK 200 R SYM (I) : 0.05200 REMARK 200 FOR THE DATA SET : 20.0000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.50 REMARK 200 COMPLETENESS FOR SHELL (%) : 81.0 REMARK 200 DATA REDUNDANCY IN SHELL : 3.50 REMARK 200 R MERGE FOR SHELL (I) : 0.21300 REMARK 200 R SYM FOR SHELL (I) : 0.21300 REMARK 200 FOR SHELL : 4.700 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 1S7U REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 57.69 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.32 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 1.8 M AMMONIUM SULFATE, 0.1 M TRIS HCL REMARK 280 PH 9.0., VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z REMARK 290 4555 -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 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 59.25500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 63.10500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 59.25500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 63.10500 REMARK 290 SMTRY3 4 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4250 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19400 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -15.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C 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 AUTHOR DETERMINED BIOLOGICAL UNIT: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4270 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19310 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -14.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: D, E, F 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 ALA A 177 REMARK 465 THR A 178 REMARK 465 LEU A 179 REMARK 465 LEU A 180 REMARK 465 SER A 195 REMARK 465 LYS A 196 REMARK 465 GLY A 197 REMARK 465 LEU A 219 REMARK 465 ASN A 220 REMARK 465 LEU A 224 REMARK 465 THR A 225 REMARK 465 GLN A 226 REMARK 465 ASP A 227 REMARK 465 PRO A 276 REMARK 465 ASN D 176 REMARK 465 ALA D 177 REMARK 465 THR D 178 REMARK 465 LEU D 179 REMARK 465 LEU D 180 REMARK 465 SER D 195 REMARK 465 LYS D 196 REMARK 465 GLY D 197 REMARK 465 LEU D 219 REMARK 465 ASN D 220 REMARK 465 LEU D 224 REMARK 465 THR D 225 REMARK 465 GLN D 226 REMARK 465 ASP D 227 REMARK 465 PRO D 276 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 CG GLU D 19 NH2 ARG D 75 2.00 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 17 112.56 -6.10 REMARK 500 LEU A 114 102.08 -160.74 REMARK 500 LYS A 253 40.70 -82.80 REMARK 500 LYS B 48 60.59 -106.99 REMARK 500 TRP B 60 -0.33 76.33 REMARK 500 PHE C 6 -116.90 -102.53 REMARK 500 PRO D 15 23.06 -75.34 REMARK 500 PRO D 43 109.64 -52.29 REMARK 500 SER D 88 -157.83 -107.72 REMARK 500 LYS D 253 66.12 -110.06 REMARK 500 LYS E 48 58.06 -94.37 REMARK 500 TRP E 60 -5.29 85.13 REMARK 500 PHE F 6 -121.99 -108.90 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 CHAIN A OF H-2 CLASS I REMARK 800 HISTOCOMPATIBILITY ANTIGEN, D-B ALPHA CHAIN REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR CHAIN D OF H-2 CLASS I REMARK 800 HISTOCOMPATIBILITY ANTIGEN, D-B ALPHA CHAIN REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1S7U RELATED DB: PDB REMARK 900 GP33_WT/H2DB (KAVYNFATM) REMARK 900 RELATED ID: 1S7V RELATED DB: PDB REMARK 900 GP33_F6L/H2DB (KAVYNLATM) REMARK 900 RELATED ID: 1S7W RELATED DB: PDB REMARK 900 GP33_V3L/H2DB (KALYNFATM) REMARK 900 RELATED ID: 1S7X RELATED DB: PDB REMARK 900 GP33_Y4F/H2DB (KAVFNLATM) REMARK 900 RELATED ID: 3QUL RELATED DB: PDB REMARK 900 GP33_Y4S/H2DB (KAVSNFATM) DBREF 3QUK A 1 276 UNP P01899 HA11_MOUSE 25 300 DBREF 3QUK B 1 99 UNP P01887 B2MG_MOUSE 21 119 DBREF 3QUK C 1 9 UNP P07399 GLYC_LYCVW 33 41 DBREF 3QUK D 1 276 UNP P01899 HA11_MOUSE 25 300 DBREF 3QUK E 1 99 UNP P01887 B2MG_MOUSE 21 119 DBREF 3QUK F 1 9 UNP P07399 GLYC_LYCVW 33 41 SEQADV 3QUK ASP B 85 UNP P01887 ALA 105 VARIANT SEQADV 3QUK ALA C 4 UNP P07399 TYR 36 ENGINEERED MUTATION SEQADV 3QUK MET C 9 UNP P07399 CYS 41 ENGINEERED MUTATION SEQADV 3QUK ASP E 85 UNP P01887 ALA 105 VARIANT SEQADV 3QUK ALA F 4 UNP P07399 TYR 36 ENGINEERED MUTATION SEQADV 3QUK MET F 9 UNP P07399 CYS 41 ENGINEERED MUTATION SEQRES 1 A 276 GLY PRO HIS SER MET ARG TYR PHE GLU THR ALA VAL SER SEQRES 2 A 276 ARG PRO GLY LEU GLU GLU PRO ARG TYR ILE SER VAL GLY SEQRES 3 A 276 TYR VAL ASP ASN LYS GLU PHE VAL ARG PHE ASP SER ASP SEQRES 4 A 276 ALA GLU ASN PRO ARG TYR GLU PRO ARG ALA PRO TRP MET SEQRES 5 A 276 GLU GLN GLU GLY PRO GLU TYR TRP GLU ARG GLU THR GLN SEQRES 6 A 276 LYS ALA LYS GLY GLN GLU GLN TRP PHE ARG VAL SER LEU SEQRES 7 A 276 ARG ASN LEU LEU GLY TYR TYR ASN GLN SER ALA GLY GLY SEQRES 8 A 276 SER HIS THR LEU GLN GLN MET SER GLY CYS ASP LEU GLY SEQRES 9 A 276 SER ASP TRP ARG LEU LEU ARG GLY TYR LEU GLN PHE ALA SEQRES 10 A 276 TYR GLU GLY ARG ASP TYR ILE ALA LEU ASN GLU ASP LEU SEQRES 11 A 276 LYS THR TRP THR ALA ALA ASP MET ALA ALA GLN ILE THR SEQRES 12 A 276 ARG ARG LYS TRP GLU GLN SER GLY ALA ALA GLU HIS TYR SEQRES 13 A 276 LYS ALA TYR LEU GLU GLY GLU CYS VAL GLU TRP LEU HIS SEQRES 14 A 276 ARG TYR LEU LYS ASN GLY ASN ALA THR LEU LEU ARG THR SEQRES 15 A 276 ASP SER PRO LYS ALA HIS VAL THR HIS HIS PRO ARG SER SEQRES 16 A 276 LYS GLY GLU VAL THR LEU ARG CYS TRP ALA LEU GLY PHE SEQRES 17 A 276 TYR PRO ALA ASP ILE THR LEU THR TRP GLN LEU ASN GLY SEQRES 18 A 276 GLU GLU LEU THR GLN ASP MET GLU LEU VAL GLU THR ARG SEQRES 19 A 276 PRO ALA GLY ASP GLY THR PHE GLN LYS TRP ALA SER VAL SEQRES 20 A 276 VAL VAL PRO LEU GLY LYS GLU GLN ASN TYR THR CYS ARG SEQRES 21 A 276 VAL TYR HIS GLU GLY LEU PRO GLU PRO LEU THR LEU ARG SEQRES 22 A 276 TRP GLU PRO SEQRES 1 B 99 ILE GLN LYS THR PRO GLN ILE GLN VAL TYR SER ARG HIS SEQRES 2 B 99 PRO PRO GLU ASN GLY LYS PRO ASN ILE LEU ASN CYS TYR SEQRES 3 B 99 VAL THR GLN PHE HIS PRO PRO HIS ILE GLU ILE GLN MET SEQRES 4 B 99 LEU LYS ASN GLY LYS LYS ILE PRO LYS VAL GLU MET SER SEQRES 5 B 99 ASP MET SER PHE SER LYS ASP TRP SER PHE TYR ILE LEU SEQRES 6 B 99 ALA HIS THR GLU PHE THR PRO THR GLU THR ASP THR TYR SEQRES 7 B 99 ALA CYS ARG VAL LYS HIS ASP SER MET ALA GLU PRO LYS SEQRES 8 B 99 THR VAL TYR TRP ASP ARG ASP MET SEQRES 1 C 9 LYS ALA VAL ALA ASN PHE ALA THR MET SEQRES 1 D 276 GLY PRO HIS SER MET ARG TYR PHE GLU THR ALA VAL SER SEQRES 2 D 276 ARG PRO GLY LEU GLU GLU PRO ARG TYR ILE SER VAL GLY SEQRES 3 D 276 TYR VAL ASP ASN LYS GLU PHE VAL ARG PHE ASP SER ASP SEQRES 4 D 276 ALA GLU ASN PRO ARG TYR GLU PRO ARG ALA PRO TRP MET SEQRES 5 D 276 GLU GLN GLU GLY PRO GLU TYR TRP GLU ARG GLU THR GLN SEQRES 6 D 276 LYS ALA LYS GLY GLN GLU GLN TRP PHE ARG VAL SER LEU SEQRES 7 D 276 ARG ASN LEU LEU GLY TYR TYR ASN GLN SER ALA GLY GLY SEQRES 8 D 276 SER HIS THR LEU GLN GLN MET SER GLY CYS ASP LEU GLY SEQRES 9 D 276 SER ASP TRP ARG LEU LEU ARG GLY TYR LEU GLN PHE ALA SEQRES 10 D 276 TYR GLU GLY ARG ASP TYR ILE ALA LEU ASN GLU ASP LEU SEQRES 11 D 276 LYS THR TRP THR ALA ALA ASP MET ALA ALA GLN ILE THR SEQRES 12 D 276 ARG ARG LYS TRP GLU GLN SER GLY ALA ALA GLU HIS TYR SEQRES 13 D 276 LYS ALA TYR LEU GLU GLY GLU CYS VAL GLU TRP LEU HIS SEQRES 14 D 276 ARG TYR LEU LYS ASN GLY ASN ALA THR LEU LEU ARG THR SEQRES 15 D 276 ASP SER PRO LYS ALA HIS VAL THR HIS HIS PRO ARG SER SEQRES 16 D 276 LYS GLY GLU VAL THR LEU ARG CYS TRP ALA LEU GLY PHE SEQRES 17 D 276 TYR PRO ALA ASP ILE THR LEU THR TRP GLN LEU ASN GLY SEQRES 18 D 276 GLU GLU LEU THR GLN ASP MET GLU LEU VAL GLU THR ARG SEQRES 19 D 276 PRO ALA GLY ASP GLY THR PHE GLN LYS TRP ALA SER VAL SEQRES 20 D 276 VAL VAL PRO LEU GLY LYS GLU GLN ASN TYR THR CYS ARG SEQRES 21 D 276 VAL TYR HIS GLU GLY LEU PRO GLU PRO LEU THR LEU ARG SEQRES 22 D 276 TRP GLU PRO SEQRES 1 E 99 ILE GLN LYS THR PRO GLN ILE GLN VAL TYR SER ARG HIS SEQRES 2 E 99 PRO PRO GLU ASN GLY LYS PRO ASN ILE LEU ASN CYS TYR SEQRES 3 E 99 VAL THR GLN PHE HIS PRO PRO HIS ILE GLU ILE GLN MET SEQRES 4 E 99 LEU LYS ASN GLY LYS LYS ILE PRO LYS VAL GLU MET SER SEQRES 5 E 99 ASP MET SER PHE SER LYS ASP TRP SER PHE TYR ILE LEU SEQRES 6 E 99 ALA HIS THR GLU PHE THR PRO THR GLU THR ASP THR TYR SEQRES 7 E 99 ALA CYS ARG VAL LYS HIS ASP SER MET ALA GLU PRO LYS SEQRES 8 E 99 THR VAL TYR TRP ASP ARG ASP MET SEQRES 1 F 9 LYS ALA VAL ALA ASN PHE ALA THR MET FORMUL 7 HOH *300(H2 O) HELIX 1 1 ALA A 49 GLU A 53 5 5 HELIX 2 2 GLY A 56 TYR A 85 1 30 HELIX 3 3 ALA A 139 GLY A 151 1 13 HELIX 4 4 GLY A 151 GLY A 162 1 12 HELIX 5 5 GLY A 162 GLY A 175 1 14 HELIX 6 6 ALA D 49 GLU D 55 5 7 HELIX 7 7 GLY D 56 TYR D 85 1 30 HELIX 8 8 ASP D 137 SER D 150 1 14 HELIX 9 9 GLY D 151 GLY D 162 1 12 HELIX 10 10 GLY D 162 ASN D 174 1 13 SHEET 1 A 8 GLU A 46 PRO A 47 0 SHEET 2 A 8 LYS A 31 ASP A 37 -1 N ARG A 35 O GLU A 46 SHEET 3 A 8 ARG A 21 VAL A 28 -1 N GLY A 26 O PHE A 33 SHEET 4 A 8 HIS A 3 SER A 13 -1 N ARG A 6 O TYR A 27 SHEET 5 A 8 HIS A 93 LEU A 103 -1 O LEU A 103 N HIS A 3 SHEET 6 A 8 LEU A 109 TYR A 118 -1 O LEU A 110 N ASP A 102 SHEET 7 A 8 ARG A 121 LEU A 126 -1 O LEU A 126 N LEU A 114 SHEET 8 A 8 TRP A 133 THR A 134 -1 O THR A 134 N ALA A 125 SHEET 1 B 4 LYS A 186 HIS A 192 0 SHEET 2 B 4 VAL A 199 PHE A 208 -1 O THR A 200 N HIS A 192 SHEET 3 B 4 PHE A 241 VAL A 249 -1 O VAL A 249 N VAL A 199 SHEET 4 B 4 GLU A 229 LEU A 230 -1 N GLU A 229 O SER A 246 SHEET 1 C 4 LYS A 186 HIS A 192 0 SHEET 2 C 4 VAL A 199 PHE A 208 -1 O THR A 200 N HIS A 192 SHEET 3 C 4 PHE A 241 VAL A 249 -1 O VAL A 249 N VAL A 199 SHEET 4 C 4 ARG A 234 PRO A 235 -1 N ARG A 234 O GLN A 242 SHEET 1 D 3 THR A 214 TRP A 217 0 SHEET 2 D 3 THR A 258 TYR A 262 -1 O TYR A 262 N THR A 214 SHEET 3 D 3 LEU A 270 ARG A 273 -1 O LEU A 272 N CYS A 259 SHEET 1 E 4 GLN B 6 SER B 11 0 SHEET 2 E 4 ASN B 21 PHE B 30 -1 O ASN B 24 N TYR B 10 SHEET 3 E 4 PHE B 62 PHE B 70 -1 O ALA B 66 N CYS B 25 SHEET 4 E 4 GLU B 50 MET B 51 -1 N GLU B 50 O HIS B 67 SHEET 1 F 4 GLN B 6 SER B 11 0 SHEET 2 F 4 ASN B 21 PHE B 30 -1 O ASN B 24 N TYR B 10 SHEET 3 F 4 PHE B 62 PHE B 70 -1 O ALA B 66 N CYS B 25 SHEET 4 F 4 SER B 55 PHE B 56 -1 N SER B 55 O TYR B 63 SHEET 1 G 4 LYS B 44 LYS B 45 0 SHEET 2 G 4 GLU B 36 LYS B 41 -1 N LYS B 41 O LYS B 44 SHEET 3 G 4 TYR B 78 LYS B 83 -1 O ARG B 81 N GLN B 38 SHEET 4 G 4 LYS B 91 TYR B 94 -1 O LYS B 91 N VAL B 82 SHEET 1 H 8 GLU D 46 PRO D 47 0 SHEET 2 H 8 LYS D 31 ASP D 37 -1 N ARG D 35 O GLU D 46 SHEET 3 H 8 ARG D 21 VAL D 28 -1 N SER D 24 O PHE D 36 SHEET 4 H 8 HIS D 3 SER D 13 -1 N ARG D 6 O TYR D 27 SHEET 5 H 8 HIS D 93 LEU D 103 -1 O HIS D 93 N SER D 13 SHEET 6 H 8 LEU D 109 TYR D 118 -1 O LEU D 110 N ASP D 102 SHEET 7 H 8 ARG D 121 LEU D 126 -1 O LEU D 126 N LEU D 114 SHEET 8 H 8 TRP D 133 THR D 134 -1 O THR D 134 N ALA D 125 SHEET 1 I 4 LYS D 186 HIS D 192 0 SHEET 2 I 4 VAL D 199 PHE D 208 -1 O TRP D 204 N HIS D 188 SHEET 3 I 4 PHE D 241 VAL D 249 -1 O VAL D 249 N VAL D 199 SHEET 4 I 4 GLU D 229 LEU D 230 -1 N GLU D 229 O SER D 246 SHEET 1 J 4 LYS D 186 HIS D 192 0 SHEET 2 J 4 VAL D 199 PHE D 208 -1 O TRP D 204 N HIS D 188 SHEET 3 J 4 PHE D 241 VAL D 249 -1 O VAL D 249 N VAL D 199 SHEET 4 J 4 ARG D 234 PRO D 235 -1 N ARG D 234 O GLN D 242 SHEET 1 K 3 THR D 214 GLN D 218 0 SHEET 2 K 3 THR D 258 TYR D 262 -1 O TYR D 262 N THR D 214 SHEET 3 K 3 LEU D 270 LEU D 272 -1 O LEU D 272 N CYS D 259 SHEET 1 L 4 GLN E 6 SER E 11 0 SHEET 2 L 4 ASN E 21 PHE E 30 -1 O ASN E 24 N TYR E 10 SHEET 3 L 4 PHE E 62 PHE E 70 -1 O ALA E 66 N CYS E 25 SHEET 4 L 4 GLU E 50 MET E 51 -1 N GLU E 50 O HIS E 67 SHEET 1 M 4 GLN E 6 SER E 11 0 SHEET 2 M 4 ASN E 21 PHE E 30 -1 O ASN E 24 N TYR E 10 SHEET 3 M 4 PHE E 62 PHE E 70 -1 O ALA E 66 N CYS E 25 SHEET 4 M 4 SER E 55 PHE E 56 -1 N SER E 55 O TYR E 63 SHEET 1 N 4 LYS E 44 LYS E 45 0 SHEET 2 N 4 GLU E 36 LYS E 41 -1 N LYS E 41 O LYS E 44 SHEET 3 N 4 TYR E 78 LYS E 83 -1 O ARG E 81 N GLN E 38 SHEET 4 N 4 LYS E 91 TYR E 94 -1 O LYS E 91 N VAL E 82 SSBOND 1 CYS A 101 CYS A 164 1555 1555 2.07 SSBOND 2 CYS A 203 CYS A 259 1555 1555 2.04 SSBOND 3 CYS B 25 CYS B 80 1555 1555 2.02 SSBOND 4 CYS D 101 CYS D 164 1555 1555 2.06 SSBOND 5 CYS D 203 CYS D 259 1555 1555 2.01 SSBOND 6 CYS E 25 CYS E 80 1555 1555 2.02 CISPEP 1 TYR A 209 PRO A 210 0 -2.10 CISPEP 2 HIS B 31 PRO B 32 0 5.12 CISPEP 3 TYR D 209 PRO D 210 0 2.58 CISPEP 4 HIS E 31 PRO E 32 0 4.27 SITE 1 AC1 9 LYS C 1 ALA C 2 VAL C 3 ALA C 4 SITE 2 AC1 9 ASN C 5 PHE C 6 ALA C 7 THR C 8 SITE 3 AC1 9 MET C 9 SITE 1 AC2 8 LYS F 1 ALA F 2 VAL F 3 ASN F 5 SITE 2 AC2 8 PHE F 6 ALA F 7 THR F 8 MET F 9 CRYST1 118.510 126.210 96.470 90.00 124.54 90.00 C 1 2 1 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 0.008438 0.000000 0.005808 0.00000 SCALE2 0.000000 0.007923 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012584 0.00000