HEADER IMMUNE SYSTEM 15-JAN-02 1KT2 TITLE CRYSTAL STRUCTURE OF CLASS II MHC MOLECULE IEK BOUND TO MOTH TITLE 2 CYTOCHROME C PEPTIDE CAVEAT 1KT2 NAG E 2 HAS WRONG CHIRALITY AT ATOM C1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: H-2 CLASS II HISTOCOMPATIBILITY ANTIGEN, E-D ALPHA CHAIN; COMPND 3 CHAIN: A, C; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: FUSION PROTEIN CONSISTING OF CYTOCHROME C PEPTIDE, GLYCINE COMPND 7 RICH LINKER, AND MHC E-BETA-K; COMPND 8 CHAIN: B, D; COMPND 9 ENGINEERED: YES; COMPND 10 OTHER_DETAILS: FUSION PROTEIN CONSISTS OF MOTH CYTOCHROME C PEPTIDE, COMPND 11 RESIDUES 1-14 (ADLIAYLKQATK), GLYCINE RICH LINKER, RESIDUES 15-30 COMPND 12 (GGGGSLVPRGSGGGGS) AND MOUSE MHC E-BETA-K CHAIN SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: HOUSE MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 6 EXPRESSION_SYSTEM_COMMON: FALL ARMYWORM; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 8 EXPRESSION_SYSTEM_CELL_LINE: SF9; SOURCE 9 MOL_ID: 2; SOURCE 10 ORGANISM_SCIENTIFIC: LONOMIA OBLIQUA, MUS MUSCULUS; SOURCE 11 ORGANISM_COMMON: , HOUSE MOUSE; SOURCE 12 ORGANISM_TAXID: 304329,10090; SOURCE 13 STRAIN: ,; SOURCE 14 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 15 EXPRESSION_SYSTEM_COMMON: FALL ARMYWORM; SOURCE 16 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 17 EXPRESSION_SYSTEM_CELL_LINE: SF9 KEYWDS PROTEIN-PEPTIDE COMPLEX, T CELL RECEPTOR, ANTIGEN PRESENTATION, KEYWDS 2 CYTOCHROME, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR D.H.FREMONT,S.DAI,H.CHIANG,F.CRAWFORD,P.MARRACK,J.KAPPLER REVDAT 4 29-JUL-20 1KT2 1 CAVEAT COMPND REMARK HETNAM REVDAT 4 2 1 LINK SITE ATOM REVDAT 3 13-JUL-11 1KT2 1 VERSN REVDAT 2 24-FEB-09 1KT2 1 VERSN REVDAT 1 01-MAY-02 1KT2 0 JRNL AUTH D.H.FREMONT,S.DAI,H.CHIANG,F.CRAWFORD,P.MARRACK,J.KAPPLER JRNL TITL STRUCTURAL BASIS OF CYTOCHROME C PRESENTATION BY IE(K). JRNL REF J.EXP.MED. V. 195 1043 2002 JRNL REFN ISSN 0022-1007 JRNL PMID 11956295 JRNL DOI 10.1084/JEM.20011971 REMARK 2 REMARK 2 RESOLUTION. 2.80 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.0 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN REMARK 3 REMARK 3 REFINEMENT TARGET : ENGH & HUBER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.80 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.93 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 254361.760 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 93.0 REMARK 3 NUMBER OF REFLECTIONS : 22378 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 SET) : 0.220 REMARK 3 FREE R VALUE : 0.294 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.900 REMARK 3 FREE R VALUE TEST SET COUNT : 1088 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.009 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 6 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.80 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.97 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 78.40 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2984 REMARK 3 BIN R VALUE (WORKING SET) : 0.3210 REMARK 3 BIN FREE R VALUE : 0.4110 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 4.60 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 143 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.034 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6444 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 84 REMARK 3 SOLVENT ATOMS : 215 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 30.10 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 47.20 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -10.71000 REMARK 3 B22 (A**2) : -0.80000 REMARK 3 B33 (A**2) : 11.51000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : 5.11000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.34 REMARK 3 ESD FROM SIGMAA (A) : 0.45 REMARK 3 LOW RESOLUTION CUTOFF (A) : 5.00 REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : 0.47 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.58 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.007 REMARK 3 BOND ANGLES (DEGREES) : 1.400 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 25.20 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.860 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; NULL REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; NULL REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : FLAT MODEL REMARK 3 KSOL : 0.31 REMARK 3 BSOL : 45.07 REMARK 3 REMARK 3 NCS MODEL : NULL REMARK 3 REMARK 3 NCS RESTRAINTS. RMS SIGMA/WEIGHT REMARK 3 GROUP 1 POSITIONAL (A) : NULL ; NULL REMARK 3 GROUP 1 B-FACTOR (A**2) : NULL ; NULL REMARK 3 REMARK 3 PARAMETER FILE 1 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : CARBOHYDRATE.PARAM REMARK 3 PARAMETER FILE 3 : WATER.PARAM REMARK 3 PARAMETER FILE 4 : ION.PARAM REMARK 3 PARAMETER FILE 5 : NULL REMARK 3 PARAMETER FILE 6 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 TOPOLOGY FILE 3 : NULL REMARK 3 TOPOLOGY FILE 4 : NULL REMARK 3 TOPOLOGY FILE 5 : NULL REMARK 3 TOPOLOGY FILE 6 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1KT2 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-MAR-02. REMARK 100 THE DEPOSITION ID IS D_1000015312. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 01-JAN-96 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 5.0 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X4A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9795 REMARK 200 MONOCHROMATOR : SI 111 CHANNEL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : STORAGE PHOSPHORS REMARK 200 DETECTOR MANUFACTURER : CUSTOM-MADE REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 22827 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.800 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 95.2 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) : 2.80 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.95 REMARK 200 COMPLETENESS FOR SHELL (%) : 93.4 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: AMORE REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 53.96 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.67 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG4000, 2-PROPANOL, SODIUM ACETATE, REMARK 280 PH 5.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 298K 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 73.89500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 28.46500 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 73.89500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 28.46500 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7680 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19240 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -21.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, 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 350 REMARK 350 BIOMOLECULE: 2 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: 7340 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18840 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -29.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D 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 475 REMARK 475 ZERO OCCUPANCY RESIDUES REMARK 475 THE FOLLOWING RESIDUES WERE MODELED WITH ZERO OCCUPANCY. REMARK 475 THE LOCATION AND PROPERTIES OF THESE RESIDUES MAY NOT REMARK 475 BE RELIABLE. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 475 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE) REMARK 475 M RES C SSEQI REMARK 475 PRO B 130 REMARK 475 THR B 131 REMARK 475 LYS B 132 REMARK 475 THR B 133 REMARK 475 GLN B 134 REMARK 475 PRO B 135 REMARK 475 LEU B 136 REMARK 475 GLU B 137 REMARK 475 HIS B 138 REMARK 475 HIS B 139 REMARK 475 ASN B 140 REMARK 475 LEU B 141 REMARK 475 LYS D 132 REMARK 475 THR D 133 REMARK 475 GLN D 134 REMARK 475 PRO D 135 REMARK 475 LEU D 136 REMARK 475 GLU D 137 REMARK 475 HIS D 138 REMARK 475 HIS D 139 REMARK 475 ASN D 140 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 THR D 133 N - CA - C ANGL. DEV. = -18.9 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 LYS A 2 119.30 175.03 REMARK 500 ASP A 27 29.80 43.49 REMARK 500 SER A 39 65.17 38.03 REMARK 500 ALA A 52 -175.84 -174.90 REMARK 500 ASP A 142 -137.02 -76.12 REMARK 500 ASP A 158 9.54 -68.09 REMARK 500 PRO B 22 94.94 -42.51 REMARK 500 ARG B 23 -114.88 -70.96 REMARK 500 ASN B 46 72.79 178.38 REMARK 500 ASN B 60 -117.05 65.49 REMARK 500 GLN B 91 78.12 -110.70 REMARK 500 VAL B 105 -63.50 -130.32 REMARK 500 CYS B 106 -72.19 -55.37 REMARK 500 TYR B 129 147.44 173.43 REMARK 500 HIS B 138 -109.04 -151.01 REMARK 500 HIS B 139 74.25 -162.32 REMARK 500 ASN B 140 92.56 -13.98 REMARK 500 ASN B 153 114.37 -39.62 REMARK 500 SER B 194 15.69 -64.11 REMARK 500 HIS B 204 137.15 -177.46 REMARK 500 PRO B 205 -38.81 -30.27 REMARK 500 PRO B 210 125.18 -39.20 REMARK 500 ASP C 17 -6.65 -50.96 REMARK 500 ALA C 49 -17.89 -49.37 REMARK 500 SER C 113 146.80 -178.28 REMARK 500 ASP C 142 -139.41 -104.40 REMARK 500 PRO D 22 111.57 -35.42 REMARK 500 ARG D 23 -49.81 -29.36 REMARK 500 ASN D 46 87.06 -172.45 REMARK 500 GLN D 49 -72.67 -52.70 REMARK 500 ASN D 60 -109.21 62.27 REMARK 500 PHE D 116 -2.15 -146.69 REMARK 500 TYR D 129 149.67 -175.87 REMARK 500 LYS D 132 118.43 179.11 REMARK 500 GLN D 134 73.97 -111.30 REMARK 500 LEU D 136 105.18 44.76 REMARK 500 HIS D 138 91.87 -176.10 REMARK 500 HIS D 139 155.25 74.00 REMARK 500 ILE D 154 149.93 177.74 REMARK 500 LYS D 166 -1.70 -151.48 REMARK 500 SER D 194 -75.58 25.11 REMARK 500 PRO D 205 4.32 -66.75 REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1KTD RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF CLASS II MHC MOLECULE IEK BOUND TO PIGEON REMARK 900 CYTOCHROME C PEPTIDE REMARK 999 REMARK 999 SEQUENCE REMARK 999 RESIDUE 202 OF CHAINS A,C IS IN CONFLICT IN SWISSPROT REMARK 999 ENTRY P01904. IT CAN BE EITHER THR OR HIS. DBREF 1KT2 A 1 182 UNP P01904 HA21_MOUSE 26 207 DBREF 1KT2 C 1 182 UNP P01904 HA21_MOUSE 26 207 DBREF 1KT2 B 30 214 GB 199396 AAA39593 30 214 DBREF 1KT2 D 30 214 GB 199396 AAA39593 30 214 SEQADV 1KT2 HIS A 177 UNP P01904 THR 202 SEE REMARK 999 SEQADV 1KT2 HIS C 177 UNP P01904 THR 202 SEE REMARK 999 SEQRES 1 A 182 ILE LYS GLU GLU HIS THR ILE ILE GLN ALA GLU PHE TYR SEQRES 2 A 182 LEU LEU PRO ASP LYS ARG GLY GLU PHE MET PHE ASP PHE SEQRES 3 A 182 ASP GLY ASP GLU ILE PHE HIS VAL ASP ILE GLU LYS SER SEQRES 4 A 182 GLU THR ILE TRP ARG LEU GLU GLU PHE ALA LYS PHE ALA SEQRES 5 A 182 SER PHE GLU ALA GLN GLY ALA LEU ALA ASN ILE ALA VAL SEQRES 6 A 182 ASP LYS ALA ASN LEU ASP VAL MET LYS GLU ARG SER ASN SEQRES 7 A 182 ASN THR PRO ASP ALA ASN VAL ALA PRO GLU VAL THR VAL SEQRES 8 A 182 LEU SER ARG SER PRO VAL ASN LEU GLY GLU PRO ASN ILE SEQRES 9 A 182 LEU ILE CYS PHE ILE ASP LYS PHE SER PRO PRO VAL VAL SEQRES 10 A 182 ASN VAL THR TRP LEU ARG ASN GLY ARG PRO VAL THR GLU SEQRES 11 A 182 GLY VAL SER GLU THR VAL PHE LEU PRO ARG ASP ASP HIS SEQRES 12 A 182 LEU PHE ARG LYS PHE HIS TYR LEU THR PHE LEU PRO SER SEQRES 13 A 182 THR ASP ASP PHE TYR ASP CYS GLU VAL ASP HIS TRP GLY SEQRES 14 A 182 LEU GLU GLU PRO LEU ARG LYS HIS TRP GLU PHE GLU GLU SEQRES 1 B 213 ALA ASP LEU ILE ALA TYR LEU LYS GLN ALA THR LYS GLY SEQRES 2 B 213 GLY GLY GLY SER LEU VAL PRO ARG GLY SER GLY GLY GLY SEQRES 3 B 213 GLY SER ARG PRO TRP PHE LEU GLU TYR CYS LYS SER GLU SEQRES 4 B 213 CYS HIS PHE TYR ASN GLY THR GLN ARG VAL ARG LEU LEU SEQRES 5 B 213 VAL ARG TYR PHE TYR ASN LEU GLU GLU ASN LEU ARG PHE SEQRES 6 B 213 ASP SER ASP VAL GLY GLU PHE ARG ALA VAL THR GLU LEU SEQRES 7 B 213 GLY ARG PRO ASP ALA GLU ASN TRP ASN SER GLN PRO GLU SEQRES 8 B 213 PHE LEU GLU GLN LYS ARG ALA GLU VAL ASP THR VAL CYS SEQRES 9 B 213 ARG HIS ASN TYR GLU ILE PHE ASP ASN PHE LEU VAL PRO SEQRES 10 B 213 ARG ARG VAL GLU PRO THR VAL THR VAL TYR PRO THR LYS SEQRES 11 B 213 THR GLN PRO LEU GLU HIS HIS ASN LEU LEU VAL CYS SER SEQRES 12 B 213 VAL SER ASP PHE TYR PRO GLY ASN ILE GLU VAL ARG TRP SEQRES 13 B 213 PHE ARG ASN GLY LYS GLU GLU LYS THR GLY ILE VAL SER SEQRES 14 B 213 THR GLY LEU VAL ARG ASN GLY ASP TRP THR PHE GLN THR SEQRES 15 B 213 LEU VAL MET LEU GLU THR VAL PRO GLN SER GLY GLU VAL SEQRES 16 B 213 TYR THR CYS GLN VAL GLU HIS PRO SER LEU THR ASP PRO SEQRES 17 B 213 VAL THR VAL GLU TRP SEQRES 1 C 182 ILE LYS GLU GLU HIS THR ILE ILE GLN ALA GLU PHE TYR SEQRES 2 C 182 LEU LEU PRO ASP LYS ARG GLY GLU PHE MET PHE ASP PHE SEQRES 3 C 182 ASP GLY ASP GLU ILE PHE HIS VAL ASP ILE GLU LYS SER SEQRES 4 C 182 GLU THR ILE TRP ARG LEU GLU GLU PHE ALA LYS PHE ALA SEQRES 5 C 182 SER PHE GLU ALA GLN GLY ALA LEU ALA ASN ILE ALA VAL SEQRES 6 C 182 ASP LYS ALA ASN LEU ASP VAL MET LYS GLU ARG SER ASN SEQRES 7 C 182 ASN THR PRO ASP ALA ASN VAL ALA PRO GLU VAL THR VAL SEQRES 8 C 182 LEU SER ARG SER PRO VAL ASN LEU GLY GLU PRO ASN ILE SEQRES 9 C 182 LEU ILE CYS PHE ILE ASP LYS PHE SER PRO PRO VAL VAL SEQRES 10 C 182 ASN VAL THR TRP LEU ARG ASN GLY ARG PRO VAL THR GLU SEQRES 11 C 182 GLY VAL SER GLU THR VAL PHE LEU PRO ARG ASP ASP HIS SEQRES 12 C 182 LEU PHE ARG LYS PHE HIS TYR LEU THR PHE LEU PRO SER SEQRES 13 C 182 THR ASP ASP PHE TYR ASP CYS GLU VAL ASP HIS TRP GLY SEQRES 14 C 182 LEU GLU GLU PRO LEU ARG LYS HIS TRP GLU PHE GLU GLU SEQRES 1 D 213 ALA ASP LEU ILE ALA TYR LEU LYS GLN ALA THR LYS GLY SEQRES 2 D 213 GLY GLY GLY SER LEU VAL PRO ARG GLY SER GLY GLY GLY SEQRES 3 D 213 GLY SER ARG PRO TRP PHE LEU GLU TYR CYS LYS SER GLU SEQRES 4 D 213 CYS HIS PHE TYR ASN GLY THR GLN ARG VAL ARG LEU LEU SEQRES 5 D 213 VAL ARG TYR PHE TYR ASN LEU GLU GLU ASN LEU ARG PHE SEQRES 6 D 213 ASP SER ASP VAL GLY GLU PHE ARG ALA VAL THR GLU LEU SEQRES 7 D 213 GLY ARG PRO ASP ALA GLU ASN TRP ASN SER GLN PRO GLU SEQRES 8 D 213 PHE LEU GLU GLN LYS ARG ALA GLU VAL ASP THR VAL CYS SEQRES 9 D 213 ARG HIS ASN TYR GLU ILE PHE ASP ASN PHE LEU VAL PRO SEQRES 10 D 213 ARG ARG VAL GLU PRO THR VAL THR VAL TYR PRO THR LYS SEQRES 11 D 213 THR GLN PRO LEU GLU HIS HIS ASN LEU LEU VAL CYS SER SEQRES 12 D 213 VAL SER ASP PHE TYR PRO GLY ASN ILE GLU VAL ARG TRP SEQRES 13 D 213 PHE ARG ASN GLY LYS GLU GLU LYS THR GLY ILE VAL SER SEQRES 14 D 213 THR GLY LEU VAL ARG ASN GLY ASP TRP THR PHE GLN THR SEQRES 15 D 213 LEU VAL MET LEU GLU THR VAL PRO GLN SER GLY GLU VAL SEQRES 16 D 213 TYR THR CYS GLN VAL GLU HIS PRO SER LEU THR ASP PRO SEQRES 17 D 213 VAL THR VAL GLU TRP MODRES 1KT2 ASN A 78 ASN GLYCOSYLATION SITE MODRES 1KT2 ASN A 118 ASN GLYCOSYLATION SITE MODRES 1KT2 ASN B 46 ASN GLYCOSYLATION SITE MODRES 1KT2 ASN C 118 ASN GLYCOSYLATION SITE MODRES 1KT2 ASN D 46 ASN GLYCOSYLATION SITE HET NAG E 1 14 HET NAG E 2 14 HET NAG A 601 14 HET NAG A 602 14 HET NAG C 605 14 HET NAG D 606 14 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE FORMUL 5 NAG 6(C8 H15 N O6) FORMUL 10 HOH *215(H2 O) HELIX 1 1 LEU A 45 PHE A 51 5 7 HELIX 2 2 ALA A 56 SER A 77 1 22 HELIX 3 3 ASN B 46 GLN B 49 5 4 HELIX 4 4 THR B 78 LEU B 80 5 3 HELIX 5 5 GLY B 81 SER B 90 1 10 HELIX 6 6 GLN B 91 VAL B 105 1 15 HELIX 7 7 VAL B 105 ASP B 114 1 10 HELIX 8 8 LEU C 45 LYS C 50 5 6 HELIX 9 9 GLU C 55 SER C 77 1 23 HELIX 10 10 THR D 78 LEU D 80 5 3 HELIX 11 11 GLY D 81 SER D 90 1 10 HELIX 12 12 GLN D 91 VAL D 105 1 15 HELIX 13 13 VAL D 105 ASP D 114 1 10 SHEET 1 A 8 GLU A 40 TRP A 43 0 SHEET 2 A 8 ASP A 29 ASP A 35 -1 N ASP A 35 O GLU A 40 SHEET 3 A 8 ARG A 19 PHE A 26 -1 N PHE A 26 O ASP A 29 SHEET 4 A 8 HIS A 5 LEU A 15 -1 N ALA A 10 O MET A 23 SHEET 5 A 8 PHE B 34 PHE B 44 -1 O CYS B 42 N ILE A 7 SHEET 6 A 8 VAL B 51 TYR B 59 -1 O LEU B 54 N GLU B 41 SHEET 7 A 8 GLU B 62 ASP B 68 -1 O LEU B 65 N TYR B 57 SHEET 8 A 8 PHE B 74 ALA B 76 -1 O ARG B 75 N ARG B 66 SHEET 1 B 4 GLU A 88 SER A 93 0 SHEET 2 B 4 ASN A 103 PHE A 112 -1 O PHE A 108 N THR A 90 SHEET 3 B 4 PHE A 145 PHE A 153 -1 O HIS A 149 N CYS A 107 SHEET 4 B 4 VAL A 132 GLU A 134 -1 N SER A 133 O TYR A 150 SHEET 1 C 4 GLU A 88 SER A 93 0 SHEET 2 C 4 ASN A 103 PHE A 112 -1 O PHE A 108 N THR A 90 SHEET 3 C 4 PHE A 145 PHE A 153 -1 O HIS A 149 N CYS A 107 SHEET 4 C 4 LEU A 138 PRO A 139 -1 N LEU A 138 O ARG A 146 SHEET 1 D 4 ARG A 126 VAL A 128 0 SHEET 2 D 4 ASN A 118 ARG A 123 -1 N ARG A 123 O ARG A 126 SHEET 3 D 4 PHE A 160 ASP A 166 -1 O GLU A 164 N THR A 120 SHEET 4 D 4 LEU A 174 GLU A 179 -1 O TRP A 178 N TYR A 161 SHEET 1 E 5 THR B 125 PRO B 130 0 SHEET 2 E 5 LEU B 141 PHE B 149 -1 O VAL B 143 N TYR B 129 SHEET 3 E 5 PHE B 182 GLU B 189 -1 O PHE B 182 N PHE B 149 SHEET 4 E 5 ILE B 169 SER B 171 -1 N VAL B 170 O MET B 187 SHEET 5 E 5 GLY D 18 LEU D 20 1 O SER D 19 N SER B 171 SHEET 1 F 4 THR B 125 PRO B 130 0 SHEET 2 F 4 LEU B 141 PHE B 149 -1 O VAL B 143 N TYR B 129 SHEET 3 F 4 PHE B 182 GLU B 189 -1 O PHE B 182 N PHE B 149 SHEET 4 F 4 VAL B 175 ARG B 176 -1 N VAL B 175 O GLN B 183 SHEET 1 G 4 LYS B 163 GLU B 164 0 SHEET 2 G 4 GLU B 155 ARG B 160 -1 N ARG B 160 O LYS B 163 SHEET 3 G 4 TYR B 198 GLU B 203 -1 O THR B 199 N PHE B 159 SHEET 4 G 4 VAL B 211 GLU B 214 -1 O VAL B 211 N VAL B 202 SHEET 1 H 8 GLU C 40 TRP C 43 0 SHEET 2 H 8 ASP C 29 ASP C 35 -1 N HIS C 33 O ILE C 42 SHEET 3 H 8 ARG C 19 PHE C 26 -1 N PHE C 26 O ASP C 29 SHEET 4 H 8 HIS C 5 LEU C 15 -1 N LEU C 14 O ARG C 19 SHEET 5 H 8 PHE D 34 ASN D 46 -1 O CYS D 42 N ILE C 7 SHEET 6 H 8 ARG D 50 TYR D 59 -1 O ARG D 52 N HIS D 43 SHEET 7 H 8 GLU D 62 ASP D 68 -1 O ASN D 64 N TYR D 57 SHEET 8 H 8 ARG D 75 ALA D 76 -1 O ARG D 75 N ARG D 66 SHEET 1 I 2 ALA C 52 SER C 53 0 SHEET 2 I 2 ASP D 3 LEU D 4 1 O ASP D 3 N SER C 53 SHEET 1 J 4 GLU C 88 SER C 93 0 SHEET 2 J 4 ASN C 103 PHE C 112 -1 O PHE C 108 N THR C 90 SHEET 3 J 4 PHE C 145 PHE C 153 -1 O HIS C 149 N CYS C 107 SHEET 4 J 4 VAL C 132 GLU C 134 -1 N SER C 133 O TYR C 150 SHEET 1 K 4 GLU C 88 SER C 93 0 SHEET 2 K 4 ASN C 103 PHE C 112 -1 O PHE C 108 N THR C 90 SHEET 3 K 4 PHE C 145 PHE C 153 -1 O HIS C 149 N CYS C 107 SHEET 4 K 4 LEU C 138 PRO C 139 -1 N LEU C 138 O ARG C 146 SHEET 1 L 4 ARG C 126 PRO C 127 0 SHEET 2 L 4 ASN C 118 ARG C 123 -1 N ARG C 123 O ARG C 126 SHEET 3 L 4 TYR C 161 ASP C 166 -1 O ASP C 166 N ASN C 118 SHEET 4 L 4 LEU C 174 TRP C 178 -1 O LEU C 174 N VAL C 165 SHEET 1 M 4 THR D 125 THR D 131 0 SHEET 2 M 4 ASN D 140 PHE D 149 -1 O VAL D 143 N TYR D 129 SHEET 3 M 4 PHE D 182 THR D 190 -1 O PHE D 182 N PHE D 149 SHEET 4 M 4 ILE D 169 SER D 171 -1 N VAL D 170 O MET D 187 SHEET 1 N 4 THR D 125 THR D 131 0 SHEET 2 N 4 ASN D 140 PHE D 149 -1 O VAL D 143 N TYR D 129 SHEET 3 N 4 PHE D 182 THR D 190 -1 O PHE D 182 N PHE D 149 SHEET 4 N 4 VAL D 175 ARG D 176 -1 N VAL D 175 O GLN D 183 SHEET 1 O 4 LYS D 163 GLU D 164 0 SHEET 2 O 4 GLU D 155 ARG D 160 -1 N ARG D 160 O LYS D 163 SHEET 3 O 4 TYR D 198 GLU D 203 -1 O THR D 199 N PHE D 159 SHEET 4 O 4 VAL D 211 TRP D 215 -1 O VAL D 213 N CYS D 200 SSBOND 1 CYS A 107 CYS A 163 1555 1555 2.04 SSBOND 2 CYS B 42 CYS B 106 1555 1555 2.04 SSBOND 3 CYS B 144 CYS B 200 1555 1555 2.03 SSBOND 4 CYS C 107 CYS C 163 1555 1555 2.03 SSBOND 5 CYS D 42 CYS D 106 1555 1555 2.05 SSBOND 6 CYS D 144 CYS D 200 1555 1555 2.02 LINK ND2 ASN A 78 C1 NAG A 601 1555 1555 1.45 LINK ND2 ASN A 118 C1 NAG A 602 1555 1555 1.46 LINK ND2 ASN B 46 C1 NAG E 1 1555 1555 1.45 LINK ND2 ASN C 118 C1 NAG C 605 1555 1555 1.46 LINK ND2 ASN D 46 C1 NAG D 606 1555 1555 1.45 LINK O4 NAG E 1 C1 NAG E 2 1555 1555 1.40 CISPEP 1 LEU A 15 PRO A 16 0 0.35 CISPEP 2 SER A 113 PRO A 114 0 0.16 CISPEP 3 TYR B 150 PRO B 151 0 -0.10 CISPEP 4 LEU C 15 PRO C 16 0 0.53 CISPEP 5 SER C 113 PRO C 114 0 0.94 CISPEP 6 TYR D 150 PRO D 151 0 0.13 CRYST1 147.790 56.930 115.990 90.00 92.12 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 0.006766 0.000000 0.000250 0.00000 SCALE2 0.000000 0.017565 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008627 0.00000