HEADER IMMUNE SYSTEM 20-JUN-14 4QOK TITLE STRUCTURAL BASIS FOR INEFFECTIVE T-CELL RESPONSES TO MHC ANCHOR TITLE 2 RESIDUE IMPROVED HETEROCLITIC PEPTIDES COMPND MOL_ID: 1; COMPND 2 MOLECULE: HLA CLASS I HISTOCOMPATIBILITY ANTIGEN, A-2 ALPHA CHAIN; COMPND 3 CHAIN: A; COMPND 4 SYNONYM: MHC CLASS I ANTIGEN A*2; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: BETA-2-MICROGLOBULIN; COMPND 8 CHAIN: B; COMPND 9 SYNONYM: BETA-2-MICROGLOBULIN FORM PI 5.3; COMPND 10 ENGINEERED: YES; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: MELANOMA ANTIGEN RECOGNIZED BY T-CELLS 1 MARKER PEPTIDE; COMPND 13 CHAIN: C; COMPND 14 SYNONYM: MART-1, ANTIGEN LB39-AA, ANTIGEN SK29-AA, PROTEIN MELAN-A; COMPND 15 ENGINEERED: YES; COMPND 16 MOL_ID: 4; COMPND 17 MOLECULE: MEL5 TCR CHAIN ALPHA; COMPND 18 CHAIN: D; COMPND 19 ENGINEERED: YES; COMPND 20 MOL_ID: 5; COMPND 21 MOLECULE: MEL5 TCR CHAIN BETA; COMPND 22 CHAIN: E; COMPND 23 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: HLA-A, HLAA; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 MOL_ID: 2; SOURCE 9 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 10 ORGANISM_COMMON: HUMAN; SOURCE 11 ORGANISM_TAXID: 9606; SOURCE 12 GENE: B2M, CDABP0092, HDCMA22P; SOURCE 13 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 14 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 15 MOL_ID: 3; SOURCE 16 SYNTHETIC: YES; SOURCE 17 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 18 ORGANISM_COMMON: HUMAN; SOURCE 19 ORGANISM_TAXID: 9606; SOURCE 20 OTHER_DETAILS: A SEQUENCE THAT OCCURS IN CANCEROUS MELANOMA CELLS; SOURCE 21 MOL_ID: 4; SOURCE 22 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 23 ORGANISM_TAXID: 9606; SOURCE 24 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 25 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 26 MOL_ID: 5; SOURCE 27 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 28 ORGANISM_TAXID: 9606; SOURCE 29 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 30 EXPRESSION_SYSTEM_TAXID: 562 KEYWDS IMMUNOGLOBULIN, HLA, TCR, MELANOMA, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR P.J.RIZKALLAH,D.K.COLE,F.MADURA,A.K.SEWELL REVDAT 4 20-SEP-23 4QOK 1 REMARK SEQADV REVDAT 3 22-NOV-17 4QOK 1 REMARK REVDAT 2 25-FEB-15 4QOK 1 JRNL REVDAT 1 17-DEC-14 4QOK 0 JRNL AUTH F.MADURA,P.J.RIZKALLAH,C.J.HOLLAND,A.FULLER,A.BULEK, JRNL AUTH 2 A.J.GODKIN,A.J.SCHAUENBURG,D.K.COLE,A.K.SEWELL JRNL TITL STRUCTURAL BASIS FOR INEFFECTIVE T-CELL RESPONSES TO MHC JRNL TITL 2 ANCHOR RESIDUE-IMPROVED "HETEROCLITIC" PEPTIDES. JRNL REF EUR.J.IMMUNOL. V. 45 584 2015 JRNL REFN ISSN 0014-2980 JRNL PMID 25471691 JRNL DOI 10.1002/EJI.201445114 REMARK 2 REMARK 2 RESOLUTION. 3.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.6.0117 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) : 3.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 40.23 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 3 NUMBER OF REFLECTIONS : 23775 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) : 0.206 REMARK 3 R VALUE (WORKING SET) : 0.203 REMARK 3 FREE R VALUE : 0.262 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 1219 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) : 3.00 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 3.08 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1588 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 99.94 REMARK 3 BIN R VALUE (WORKING SET) : 0.2750 REMARK 3 BIN FREE R VALUE SET COUNT : 73 REMARK 3 BIN FREE R VALUE : 0.3160 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6580 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 16 REMARK 3 SOLVENT ATOMS : 21 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 56.26 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 0.84000 REMARK 3 B22 (A**2) : 0.84000 REMARK 3 B33 (A**2) : -1.69000 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): NULL REMARK 3 ESU BASED ON FREE R VALUE (A): 0.433 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.310 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 16.295 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.928 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.880 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 6782 ; 0.013 ; 0.020 REMARK 3 BOND LENGTHS OTHERS (A): 4607 ; 0.006 ; 0.020 REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 9213 ; 1.452 ; 1.933 REMARK 3 BOND ANGLES OTHERS (DEGREES): 11132 ; 0.879 ; 3.003 REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 821 ; 4.216 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 343 ;21.831 ;23.994 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 1086 ;10.366 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 46 ;11.082 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 969 ; 0.077 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 7637 ; 0.007 ; 0.021 REMARK 3 GENERAL PLANES OTHERS (A): 1453 ; 0.002 ; 0.020 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): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): NULL ; NULL ; NULL 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 U VALUES : REFINED INDIVIDUALLY REMARK 4 REMARK 4 4QOK COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 07-JUL-14. REMARK 100 THE DEPOSITION ID IS D_1000086315. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 28-MAY-11 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 6.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : DIAMOND REMARK 200 BEAMLINE : I24 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9778 REMARK 200 MONOCHROMATOR : SAGITALLY FOCUSED SI(111) REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : PIXEL REMARK 200 DETECTOR MANUFACTURER : PSI PILATUS 6M REMARK 200 INTENSITY-INTEGRATION SOFTWARE : GDA REMARK 200 DATA SCALING SOFTWARE : SCALA 3.3.16 REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 23795 REMARK 200 RESOLUTION RANGE HIGH (A) : 3.000 REMARK 200 RESOLUTION RANGE LOW (A) : 41.030 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 99.9 REMARK 200 DATA REDUNDANCY : 7.500 REMARK 200 R MERGE (I) : NULL REMARK 200 R SYM (I) : 0.12200 REMARK 200 FOR THE DATA SET : 12.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 3.00 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 3.08 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.9 REMARK 200 DATA REDUNDANCY IN SHELL : 7.90 REMARK 200 R MERGE FOR SHELL (I) : 0.82000 REMARK 200 R SYM FOR SHELL (I) : 0.82000 REMARK 200 FOR SHELL : 0.900 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: 3HG1 REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 61.55 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.20 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 0.1 M SODIUM CACODYLATE, PH 6.5, 15% REMARK 280 PEG 4000, 15% GLYCEROL, VAPOR DIFFUSION, SITTING DROP, REMARK 280 TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 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,X,Z+3/4 REMARK 290 4555 Y,-X,Z+1/4 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 41.03000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 61.54500 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 20.51500 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: PENTAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: PENTAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 11630 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 38560 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -40.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D, E 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: 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 N GLN E 6 OE1 GLU E 107 2.18 REMARK 500 REMARK 500 REMARK: NULL 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 TRP A 51 CE2 TRP A 51 CD2 0.072 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 ASP A 129 CB - CG - OD1 ANGL. DEV. = -6.4 DEGREES REMARK 500 ASP A 129 CB - CG - OD2 ANGL. DEV. = 6.9 DEGREES REMARK 500 ARG D 122 NE - CZ - NH1 ANGL. DEV. = 3.1 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 ASP A 29 -127.84 53.08 REMARK 500 LYS A 127 178.80 -59.18 REMARK 500 GLU A 128 58.20 -108.28 REMARK 500 LEU A 130 -164.40 -160.34 REMARK 500 ASP A 196 177.89 57.65 REMARK 500 HIS A 197 -41.97 73.42 REMARK 500 GLN A 224 151.18 65.58 REMARK 500 ASP A 227 46.17 -90.67 REMARK 500 GLN A 253 -77.10 39.05 REMARK 500 GLU A 254 -78.02 78.02 REMARK 500 ARG B 45 151.82 -47.67 REMARK 500 ALA D 85 -177.55 -175.77 REMARK 500 ASP D 115 63.31 -111.54 REMARK 500 SER D 149 90.59 -49.53 REMARK 500 ASP D 150 12.84 -144.84 REMARK 500 MET D 161 41.80 36.02 REMARK 500 SER D 163 178.18 110.39 REMARK 500 MET D 164 -9.62 77.25 REMARK 500 ASP D 165 24.11 80.48 REMARK 500 ASP D 179 85.37 68.34 REMARK 500 PHE D 180 -139.91 -72.99 REMARK 500 ALA D 181 163.77 62.87 REMARK 500 ALA D 183 84.76 -165.11 REMARK 500 ALA D 185 57.18 -108.24 REMARK 500 ASN D 188 121.53 66.10 REMARK 500 ILE D 190 -8.60 110.31 REMARK 500 ALA E 39 -147.18 -99.19 REMARK 500 ALA E 40 95.66 -50.69 REMARK 500 ARG E 42 177.54 -29.15 REMARK 500 ASN E 63 33.63 -99.57 REMARK 500 PRO E 130 150.71 -50.00 REMARK 500 PRO E 152 178.59 -58.78 REMARK 500 ASP E 153 53.19 -91.80 REMARK 500 SER E 168 -83.40 -8.25 REMARK 500 PRO E 181 -47.37 -29.84 REMARK 500 ASN E 220 -7.35 94.53 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 EDO A 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO D 401 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO E 301 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO E 302 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3HG1 RELATED DB: PDB REMARK 900 HLA-A2 CARRYING ELAGIGILTV HETEROCLITIC PEPTIDE IN COMPLEX WITH REMARK 900 MEL5C TCR REMARK 900 RELATED ID: 4JFD RELATED DB: PDB REMARK 900 HLA-A2 CARRYING ELAGIGILTV HETEROCLITIC PEPTIDE IN COMPLEX WITH REMARK 900 HIGH AFFINITY TCR DBREF 4QOK A 1 276 UNP P01892 1A02_HUMAN 25 300 DBREF 4QOK B 1 99 UNP P61769 B2MG_HUMAN 21 119 DBREF 4QOK C 1 10 UNP Q16655 MAR1_HUMAN 26 35 DBREF 4QOK D 2 195 PDB 4QOK 4QOK 2 195 DBREF 4QOK E 1 244 PDB 4QOK 4QOK 1 244 SEQADV 4QOK MET B 0 UNP P61769 EXPRESSION TAG SEQRES 1 A 276 GLY SER HIS SER MET ARG TYR PHE PHE THR SER VAL SER SEQRES 2 A 276 ARG PRO GLY ARG GLY GLU PRO ARG PHE ILE ALA VAL GLY SEQRES 3 A 276 TYR VAL ASP ASP THR GLN PHE VAL ARG PHE ASP SER ASP SEQRES 4 A 276 ALA ALA SER GLN ARG MET GLU PRO ARG ALA PRO TRP ILE SEQRES 5 A 276 GLU GLN GLU GLY PRO GLU TYR TRP ASP GLY GLU THR ARG SEQRES 6 A 276 LYS VAL LYS ALA HIS SER GLN THR HIS ARG VAL ASP LEU SEQRES 7 A 276 GLY THR LEU ARG GLY TYR TYR ASN GLN SER GLU ALA GLY SEQRES 8 A 276 SER HIS THR VAL GLN ARG MET TYR GLY CYS ASP VAL GLY SEQRES 9 A 276 SER ASP TRP ARG PHE LEU ARG GLY TYR HIS GLN TYR ALA SEQRES 10 A 276 TYR ASP GLY LYS ASP TYR ILE ALA LEU LYS GLU ASP LEU SEQRES 11 A 276 ARG SER TRP THR ALA ALA ASP MET ALA ALA GLN THR THR SEQRES 12 A 276 LYS HIS LYS TRP GLU ALA ALA HIS VAL ALA GLU GLN LEU SEQRES 13 A 276 ARG ALA TYR LEU GLU GLY THR CYS VAL GLU TRP LEU ARG SEQRES 14 A 276 ARG TYR LEU GLU ASN GLY LYS GLU THR LEU GLN ARG THR SEQRES 15 A 276 ASP ALA PRO LYS THR HIS MET THR HIS HIS ALA VAL SER SEQRES 16 A 276 ASP HIS GLU ALA THR LEU ARG CYS TRP ALA LEU SER PHE SEQRES 17 A 276 TYR PRO ALA GLU ILE THR LEU THR TRP GLN ARG ASP GLY SEQRES 18 A 276 GLU ASP GLN THR GLN ASP THR GLU LEU VAL GLU THR ARG SEQRES 19 A 276 PRO ALA GLY ASP GLY THR PHE GLN LYS TRP ALA ALA VAL SEQRES 20 A 276 VAL VAL PRO SER GLY GLN GLU GLN ARG TYR THR CYS HIS SEQRES 21 A 276 VAL GLN HIS GLU GLY LEU PRO LYS PRO LEU THR LEU ARG SEQRES 22 A 276 TRP GLU PRO SEQRES 1 B 100 MET ILE GLN ARG THR PRO LYS ILE GLN VAL TYR SER ARG SEQRES 2 B 100 HIS PRO ALA GLU ASN GLY LYS SER ASN PHE LEU ASN CYS SEQRES 3 B 100 TYR VAL SER GLY PHE HIS PRO SER ASP ILE GLU VAL ASP SEQRES 4 B 100 LEU LEU LYS ASN GLY GLU ARG ILE GLU LYS VAL GLU HIS SEQRES 5 B 100 SER ASP LEU SER PHE SER LYS ASP TRP SER PHE TYR LEU SEQRES 6 B 100 LEU TYR TYR THR GLU PHE THR PRO THR GLU LYS ASP GLU SEQRES 7 B 100 TYR ALA CYS ARG VAL ASN HIS VAL THR LEU SER GLN PRO SEQRES 8 B 100 LYS ILE VAL LYS TRP ASP ARG ASP MET SEQRES 1 C 10 GLU ALA ALA GLY ILE GLY ILE LEU THR VAL SEQRES 1 D 194 GLN GLU VAL GLU GLN ASN SER GLY PRO LEU SER VAL PRO SEQRES 2 D 194 GLU GLY ALA ILE ALA SER LEU ASN CYS THR TYR SER ASP SEQRES 3 D 194 ARG GLY SER GLN SER PHE PHE TRP TYR ARG GLN TYR SER SEQRES 4 D 194 GLY LYS SER PRO GLU LEU ILE MET PHE ILE TYR SER ASN SEQRES 5 D 194 GLY ASP LYS GLU ASP GLY ARG PHE THR ALA GLN LEU ASN SEQRES 6 D 194 LYS ALA SER GLN TYR VAL SER LEU LEU ILE ARG ASP SER SEQRES 7 D 194 GLN PRO SER ASP SER ALA THR TYR LEU CYS ALA VAL ASN SEQRES 8 D 194 VAL ALA GLY LYS SER THR PHE GLY ASP GLY THR THR LEU SEQRES 9 D 194 THR VAL LYS PRO ASN ILE GLN ASN PRO ASP PRO ALA VAL SEQRES 10 D 194 TYR GLN LEU ARG ASP SER LYS SER SER ASP LYS SER VAL SEQRES 11 D 194 CYS LEU PHE THR ASP PHE ASP SER GLN THR ASN VAL SER SEQRES 12 D 194 GLN SER LYS ASP SER ASP VAL TYR ILE THR ASP LYS CYS SEQRES 13 D 194 VAL LEU ASP MET ARG SER MET ASP PHE LYS SER ASN SER SEQRES 14 D 194 ALA VAL ALA TRP SER ASN LYS SER ASP PHE ALA CYS ALA SEQRES 15 D 194 ASN ALA PHE ASN ASN SER ILE ILE PRO GLU ASP THR SEQRES 1 E 244 SER GLN THR ILE HIS GLN TRP PRO ALA THR LEU VAL GLN SEQRES 2 E 244 PRO VAL GLY SER PRO LEU SER LEU GLU CYS THR VAL GLU SEQRES 3 E 244 GLY THR SER ASN PRO ASN LEU TYR TRP TYR ARG GLN ALA SEQRES 4 E 244 ALA GLY ARG GLY LEU GLN LEU LEU PHE TYR SER VAL GLY SEQRES 5 E 244 ILE GLY GLN ILE SER SER GLU VAL PRO GLN ASN LEU SER SEQRES 6 E 244 ALA SER ARG PRO GLN ASP ARG GLN PHE ILE LEU SER SER SEQRES 7 E 244 LYS LYS LEU LEU LEU SER ASP SER GLY PHE TYR LEU CYS SEQRES 8 E 244 ALA TRP SER GLU THR GLY LEU GLY THR GLY GLU LEU PHE SEQRES 9 E 244 PHE GLY GLU GLY SER ARG LEU THR VAL LEU GLU ASP LEU SEQRES 10 E 244 LYS ASN VAL PHE PRO PRO GLU VAL ALA VAL PHE GLU PRO SEQRES 11 E 244 SER GLU ALA GLU ILE SER HIS THR GLN LYS ALA THR LEU SEQRES 12 E 244 VAL CYS LEU ALA THR GLY PHE TYR PRO ASP HIS VAL GLU SEQRES 13 E 244 LEU SER TRP TRP VAL ASN GLY LYS GLU VAL HIS SER GLY SEQRES 14 E 244 VAL CYS THR ASP PRO GLN PRO LEU LYS GLU GLN PRO ALA SEQRES 15 E 244 LEU ASN ASP SER ARG TYR ALA LEU SER SER ARG LEU ARG SEQRES 16 E 244 VAL SER ALA THR PHE TRP GLN ASP PRO ARG ASN HIS PHE SEQRES 17 E 244 ARG CYS GLN VAL GLN PHE TYR GLY LEU SER GLU ASN ASP SEQRES 18 E 244 GLU TRP THR GLN ASP ARG ALA LYS PRO VAL THR GLN ILE SEQRES 19 E 244 VAL SER ALA GLU ALA TRP GLY ARG ALA ASP HET EDO A 301 4 HET EDO D 401 4 HET EDO E 301 4 HET EDO E 302 4 HETNAM EDO 1,2-ETHANEDIOL HETSYN EDO ETHYLENE GLYCOL FORMUL 6 EDO 4(C2 H6 O2) FORMUL 10 HOH *21(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 ASP A 137 ALA A 150 1 14 HELIX 4 4 HIS A 151 GLY A 162 1 12 HELIX 5 5 GLY A 162 GLY A 175 1 14 HELIX 6 6 GLY A 175 GLN A 180 1 6 HELIX 7 7 GLN D 80 SER D 84 5 5 HELIX 8 8 LEU E 82 SER E 86 5 5 HELIX 9 9 ASP E 116 VAL E 120 5 5 HELIX 10 10 SER E 131 SER E 136 1 6 HELIX 11 11 ALA E 198 ASP E 203 1 6 SHEET 1 A 8 GLU A 46 PRO A 47 0 SHEET 2 A 8 THR 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 VAL A 28 O THR A 31 SHEET 4 A 8 HIS A 3 VAL A 12 -1 N ARG A 6 O TYR A 27 SHEET 5 A 8 THR A 94 VAL A 103 -1 O VAL A 103 N HIS A 3 SHEET 6 A 8 PHE A 109 TYR A 118 -1 O ARG A 111 N ASP A 102 SHEET 7 A 8 LYS A 121 LEU A 126 -1 O TYR A 123 N TYR A 116 SHEET 8 A 8 TRP A 133 ALA A 135 -1 O THR A 134 N ALA A 125 SHEET 1 B 4 MET A 189 HIS A 192 0 SHEET 2 B 4 GLU A 198 PHE A 208 -1 O THR A 200 N HIS A 192 SHEET 3 B 4 PHE A 241 PRO A 250 -1 O VAL A 249 N ALA A 199 SHEET 4 B 4 THR A 228 LEU A 230 -1 N GLU A 229 O ALA A 246 SHEET 1 C 4 MET A 189 HIS A 192 0 SHEET 2 C 4 GLU A 198 PHE A 208 -1 O THR A 200 N HIS A 192 SHEET 3 C 4 PHE A 241 PRO A 250 -1 O VAL A 249 N ALA 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 GLN A 218 0 SHEET 2 D 3 THR A 258 GLN A 262 -1 O GLN A 262 N THR A 214 SHEET 3 D 3 LEU A 270 LEU A 272 -1 O LEU A 270 N VAL A 261 SHEET 1 E 4 LYS 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 TYR B 66 N CYS B 25 SHEET 4 E 4 GLU B 50 HIS B 51 -1 N GLU B 50 O TYR B 67 SHEET 1 F 4 LYS 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 TYR 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 GLU B 44 ARG B 45 0 SHEET 2 G 4 GLU B 36 LYS B 41 -1 N LYS B 41 O GLU B 44 SHEET 3 G 4 TYR B 78 ASN B 83 -1 O ALA B 79 N LEU B 40 SHEET 4 G 4 LYS B 91 LYS B 94 -1 O LYS B 91 N VAL B 82 SHEET 1 H 5 VAL D 4 GLU D 5 0 SHEET 2 H 5 ALA D 19 TYR D 25 -1 O THR D 24 N GLU D 5 SHEET 3 H 5 TYR D 71 ILE D 76 -1 O LEU D 74 N LEU D 21 SHEET 4 H 5 PHE D 61 ASN D 66 -1 N GLN D 64 O SER D 73 SHEET 5 H 5 GLY D 54 ASP D 58 -1 N LYS D 56 O ALA D 63 SHEET 1 I 5 LEU D 11 PRO D 14 0 SHEET 2 I 5 THR D 103 LYS D 108 1 O THR D 106 N LEU D 11 SHEET 3 I 5 ALA D 85 VAL D 93 -1 N ALA D 85 O LEU D 105 SHEET 4 I 5 SER D 32 GLN D 38 -1 N GLN D 38 O THR D 86 SHEET 5 I 5 GLU D 45 ILE D 50 -1 O GLU D 45 N ARG D 37 SHEET 1 J 4 LEU D 11 PRO D 14 0 SHEET 2 J 4 THR D 103 LYS D 108 1 O THR D 106 N LEU D 11 SHEET 3 J 4 ALA D 85 VAL D 93 -1 N ALA D 85 O LEU D 105 SHEET 4 J 4 LYS D 96 PHE D 99 -1 O THR D 98 N VAL D 91 SHEET 1 K 8 CYS D 157 VAL D 158 0 SHEET 2 K 8 ASN D 169 TRP D 174 -1 O SER D 170 N CYS D 157 SHEET 3 K 8 SER D 130 THR D 135 -1 N CYS D 132 O ALA D 173 SHEET 4 K 8 ALA D 117 ASP D 123 -1 N TYR D 119 O LEU D 133 SHEET 5 K 8 GLU E 124 GLU E 129 -1 O GLU E 129 N ARG D 122 SHEET 6 K 8 LYS E 140 PHE E 150 -1 O VAL E 144 N PHE E 128 SHEET 7 K 8 TYR E 188 SER E 197 -1 O VAL E 196 N ALA E 141 SHEET 8 K 8 VAL E 170 THR E 172 -1 N CYS E 171 O ARG E 193 SHEET 1 L 8 CYS D 157 VAL D 158 0 SHEET 2 L 8 ASN D 169 TRP D 174 -1 O SER D 170 N CYS D 157 SHEET 3 L 8 SER D 130 THR D 135 -1 N CYS D 132 O ALA D 173 SHEET 4 L 8 ALA D 117 ASP D 123 -1 N TYR D 119 O LEU D 133 SHEET 5 L 8 GLU E 124 GLU E 129 -1 O GLU E 129 N ARG D 122 SHEET 6 L 8 LYS E 140 PHE E 150 -1 O VAL E 144 N PHE E 128 SHEET 7 L 8 TYR E 188 SER E 197 -1 O VAL E 196 N ALA E 141 SHEET 8 L 8 LEU E 177 LYS E 178 -1 N LEU E 177 O ALA E 189 SHEET 1 M 4 ILE E 4 TRP E 7 0 SHEET 2 M 4 LEU E 19 VAL E 25 -1 O THR E 24 N HIS E 5 SHEET 3 M 4 GLN E 73 SER E 78 -1 O PHE E 74 N CYS E 23 SHEET 4 M 4 SER E 65 GLN E 70 -1 N SER E 65 O SER E 77 SHEET 1 N 6 THR E 10 PRO E 14 0 SHEET 2 N 6 SER E 109 LEU E 114 1 O THR E 112 N LEU E 11 SHEET 3 N 6 GLY E 87 SER E 94 -1 N GLY E 87 O LEU E 111 SHEET 4 N 6 ASN E 32 GLN E 38 -1 N TYR E 34 O ALA E 92 SHEET 5 N 6 LEU E 44 SER E 50 -1 O LEU E 47 N TRP E 35 SHEET 6 N 6 SER E 57 SER E 58 -1 O SER E 57 N TYR E 49 SHEET 1 O 4 THR E 10 PRO E 14 0 SHEET 2 O 4 SER E 109 LEU E 114 1 O THR E 112 N LEU E 11 SHEET 3 O 4 GLY E 87 SER E 94 -1 N GLY E 87 O LEU E 111 SHEET 4 O 4 PHE E 104 PHE E 105 -1 O PHE E 104 N TRP E 93 SHEET 1 P 4 LYS E 164 VAL E 166 0 SHEET 2 P 4 VAL E 155 VAL E 161 -1 N VAL E 161 O LYS E 164 SHEET 3 P 4 HIS E 207 PHE E 214 -1 O GLN E 211 N SER E 158 SHEET 4 P 4 GLN E 233 TRP E 240 -1 O GLN E 233 N PHE E 214 SSBOND 1 CYS A 101 CYS A 164 1555 1555 2.08 SSBOND 2 CYS A 203 CYS A 259 1555 1555 2.04 SSBOND 3 CYS B 25 CYS B 80 1555 1555 2.04 SSBOND 4 CYS D 23 CYS D 89 1555 1555 2.05 SSBOND 5 CYS D 132 CYS D 182 1555 1555 2.08 SSBOND 6 CYS D 157 CYS E 171 1555 1555 2.03 SSBOND 7 CYS E 23 CYS E 91 1555 1555 2.07 SSBOND 8 CYS E 145 CYS E 210 1555 1555 2.02 CISPEP 1 GLU A 128 ASP A 129 0 0.17 CISPEP 2 TYR A 209 PRO A 210 0 0.09 CISPEP 3 HIS B 31 PRO B 32 0 -0.35 CISPEP 4 GLY D 9 PRO D 10 0 -0.67 CISPEP 5 TRP E 7 PRO E 8 0 -5.11 CISPEP 6 TYR E 151 PRO E 152 0 -1.19 SITE 1 AC1 5 GLY A 120 LYS A 121 ASP A 122 ARG B 3 SITE 2 AC1 5 ASP B 59 SITE 1 AC2 5 GLN B 2 VAL B 85 TYR D 51 SER D 52 SITE 2 AC2 5 LYS D 56 SITE 1 AC3 2 ASN E 220 ASP E 221 SITE 1 AC4 3 VAL E 155 PRO E 174 PRO E 176 CRYST1 120.690 120.690 82.060 90.00 90.00 90.00 P 43 4 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 0.008286 0.000000 0.000000 0.00000 SCALE2 0.000000 0.008286 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012186 0.00000