HEADER IMMUNE SYSTEM 15-JAN-02 1KTD TITLE CRYSTAL STRUCTURE OF CLASS II MHC MOLECULE IEK BOUND TO PIGEON TITLE 2 CYTOCHROME C PEPTIDE COMPND MOL_ID: 1; COMPND 2 MOLECULE: H-2 CLASS II HISTOCOMPATIBILITY ANTIGEN, E-D ALPHA CHAIN; COMPND 3 CHAIN: A, C; COMPND 4 SYNONYM: H2-IE-ALPHA; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: FUSION PROTEIN CONSISTING OF CYTOCHROME C PEPTIDE, GLYCINE COMPND 8 RICH LINKER, AND MHC E-BETA-K; COMPND 9 CHAIN: B, D; COMPND 10 ENGINEERED: YES; COMPND 11 MUTATION: YES; COMPND 12 OTHER_DETAILS: FUSION PROTEIN CONSISTS OF PIGEON CYTOCHROME C COMPND 13 PEPTIDE, RESIDUES 1-14 (AADLIAYLKQASAK), GLYCINE RICH LINKER, COMPND 14 RESIDUES 15-30 (GGGGSLVGGGSGGGGS) AND MOUSE MHC E-BETA-K CHAIN SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 GENE: H2-EA; SOURCE 6 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 7 EXPRESSION_SYSTEM_COMMON: FALL ARMYWORM; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 9 EXPRESSION_SYSTEM_CELL_LINE: SF9; SOURCE 10 MOL_ID: 2; SOURCE 11 ORGANISM_SCIENTIFIC: COLUMBA LIVIA, MUS MUSCULUS; SOURCE 12 ORGANISM_COMMON: ROCK DOVE, MOUSE; SOURCE 13 ORGANISM_TAXID: 8932, 10090; SOURCE 14 GENE: CYC, H2-EB1; SOURCE 15 EXPRESSION_SYSTEM: SPODOPTERA FRUGIPERDA; SOURCE 16 EXPRESSION_SYSTEM_COMMON: FALL ARMYWORM; SOURCE 17 EXPRESSION_SYSTEM_TAXID: 7108; SOURCE 18 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 6 29-JUL-20 1KTD 1 COMPND REMARK HETNAM LINK REVDAT 6 2 1 SITE REVDAT 5 11-OCT-17 1KTD 1 REMARK REVDAT 4 21-JUN-17 1KTD 1 SOURCE REMARK DBREF SEQADV REVDAT 3 13-JUL-11 1KTD 1 VERSN REVDAT 2 24-FEB-09 1KTD 1 VERSN REVDAT 1 01-MAY-02 1KTD 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. 2.40 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) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 10.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 0.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : 19074514.090 REMARK 3 DATA CUTOFF LOW (ABS(F)) : 0.0000 REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 96.3 REMARK 3 NUMBER OF REFLECTIONS : 35965 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 : 0.279 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : 1785 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : 0.007 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) : 2.40 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.55 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 90.50 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 5281 REMARK 3 BIN R VALUE (WORKING SET) : 0.3100 REMARK 3 BIN FREE R VALUE : 0.3660 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 5.00 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 276 REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : 0.022 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 6436 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 61 REMARK 3 SOLVENT ATOMS : 317 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 34.00 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 49.00 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -1.72000 REMARK 3 B22 (A**2) : 10.91000 REMARK 3 B33 (A**2) : -9.20000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -5.17000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : 0.31 REMARK 3 ESD FROM SIGMAA (A) : 0.40 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) : 0.41 REMARK 3 ESD FROM C-V SIGMAA (A) : 0.47 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.007 REMARK 3 BOND ANGLES (DEGREES) : 1.300 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 25.60 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.810 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 : 0.33 REMARK 3 BSOL : 55.57 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 1KTD 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_1000015323. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 12-DEC-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) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.54 REMARK 200 MONOCHROMATOR : YALE MIRRORS REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV REMARK 200 INTENSITY-INTEGRATION SOFTWARE : BIOTEX REMARK 200 DATA SCALING SOFTWARE : BIOTEX REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 35965 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.400 REMARK 200 RESOLUTION RANGE LOW (A) : 100.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 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) : 2.40 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.56 REMARK 200 COMPLETENESS FOR SHELL (%) : 90.2 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 (%): 53.73 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.66 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG4000, 2-PROPANOL, SODIUM ACETATE, REMARK 280 ETHYLENE GLYCOL AND AMMONIUM SULFATE, PH 5.0, VAPOR DIFFUSION, REMARK 280 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 72.76000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 28.65000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 72.76000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 28.65000 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, 3 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: 7430 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 19400 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -24.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B REMARK 350 BIOMT1 1 1.000000 0.000000 0.000000 0.00000 REMARK 350 BIOMT2 1 0.000000 1.000000 0.000000 0.00000 REMARK 350 BIOMT3 1 0.000000 0.000000 1.000000 0.00000 REMARK 350 REMARK 350 BIOMOLECULE: 2 REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 7200 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18990 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -38.0 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 350 REMARK 350 BIOMOLECULE: 3 REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 17240 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 35770 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -70.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, 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 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 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 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 GLU A 37 -74.36 -69.38 REMARK 500 SER A 113 146.35 -170.53 REMARK 500 ASP A 142 -137.59 -81.33 REMARK 500 ALA B 2 50.51 -116.07 REMARK 500 SER B 19 131.83 -179.34 REMARK 500 ASN B 46 71.46 179.18 REMARK 500 ASN B 60 -121.00 58.85 REMARK 500 SER B 69 -8.95 -59.49 REMARK 500 PHE B 116 -24.18 -151.56 REMARK 500 LYS B 132 -156.74 57.10 REMARK 500 THR B 133 -130.55 -101.80 REMARK 500 PRO B 135 104.42 -51.20 REMARK 500 HIS B 138 -30.56 -132.07 REMARK 500 TRP B 180 32.35 76.45 REMARK 500 PRO B 192 153.49 -49.11 REMARK 500 SER B 194 -83.86 -163.27 REMARK 500 LYS C 2 82.80 -160.98 REMARK 500 GLU C 3 93.12 -67.96 REMARK 500 PHE C 32 163.73 174.65 REMARK 500 GLU C 46 -32.73 -39.72 REMARK 500 LEU C 99 130.28 -39.06 REMARK 500 ASP C 142 -147.71 -97.97 REMARK 500 SER C 156 111.60 -166.64 REMARK 500 ALA D 2 88.55 -53.44 REMARK 500 SER D 25 -168.36 -65.40 REMARK 500 SER D 30 -177.73 -65.38 REMARK 500 ASN D 46 85.44 171.97 REMARK 500 THR D 48 3.98 -62.31 REMARK 500 ASN D 60 -110.70 61.30 REMARK 500 THR D 104 -8.30 -59.45 REMARK 500 VAL D 105 -70.93 -130.23 REMARK 500 PHE D 116 -27.13 -162.87 REMARK 500 LYS D 132 118.31 177.82 REMARK 500 PRO D 135 -124.76 -63.46 REMARK 500 LEU D 136 112.18 51.76 REMARK 500 GLU D 137 -161.88 -70.13 REMARK 500 HIS D 138 -117.96 44.01 REMARK 500 PRO D 151 -171.95 -63.33 REMARK 500 SER D 194 -101.49 -9.30 REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH A 686 DISTANCE = 6.66 ANGSTROMS REMARK 525 HOH B 836 DISTANCE = 7.43 ANGSTROMS REMARK 525 HOH B 863 DISTANCE = 10.29 ANGSTROMS REMARK 525 HOH B 884 DISTANCE = 6.96 ANGSTROMS REMARK 525 HOH B 885 DISTANCE = 6.21 ANGSTROMS REMARK 525 HOH B 891 DISTANCE = 6.53 ANGSTROMS REMARK 525 HOH C 672 DISTANCE = 6.08 ANGSTROMS REMARK 525 HOH D 262 DISTANCE = 7.10 ANGSTROMS REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1KT2 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF CLASS II MHC MOLECULE IEK BOUND TO MOTH REMARK 900 CYTOCHROME C PEPTIDE DBREF 1KTD A 1 182 UNP P01904 HA21_MOUSE 26 207 DBREF 1KTD B 1 14 UNP P00021 CYC_COLLI 92 105 DBREF 1KTD B 30 215 UNP Q31163 Q31163_MOUSE 29 214 DBREF 1KTD C 1 182 UNP P01904 HA21_MOUSE 26 207 DBREF 1KTD D 1 14 UNP P00021 CYC_COLLI 92 105 DBREF 1KTD D 30 215 UNP Q31163 Q31163_MOUSE 29 214 SEQADV 1KTD ALA B 1 UNP P00021 ARG 92 CONFLICT SEQADV 1KTD SER B 12 UNP P00021 THR 103 ENGINEERED MUTATION SEQADV 1KTD GLY B 15 UNP P00021 LINKER SEQADV 1KTD GLY B 16 UNP P00021 LINKER SEQADV 1KTD GLY B 17 UNP P00021 LINKER SEQADV 1KTD GLY B 18 UNP P00021 LINKER SEQADV 1KTD SER B 19 UNP P00021 LINKER SEQADV 1KTD LEU B 20 UNP P00021 LINKER SEQADV 1KTD VAL B 21 UNP P00021 LINKER SEQADV 1KTD GLY B 22 UNP P00021 LINKER SEQADV 1KTD GLY B 23 UNP P00021 LINKER SEQADV 1KTD GLY B 24 UNP P00021 LINKER SEQADV 1KTD SER B 25 UNP P00021 LINKER SEQADV 1KTD GLY B 26 UNP P00021 LINKER SEQADV 1KTD GLY B 27 UNP P00021 LINKER SEQADV 1KTD GLY B 28 UNP P00021 LINKER SEQADV 1KTD GLY B 29 UNP P00021 LINKER SEQADV 1KTD ALA D 1 UNP P00021 ARG 92 CONFLICT SEQADV 1KTD SER D 12 UNP P00021 THR 103 ENGINEERED MUTATION SEQADV 1KTD GLY D 15 UNP P00021 LINKER SEQADV 1KTD GLY D 16 UNP P00021 LINKER SEQADV 1KTD GLY D 17 UNP P00021 LINKER SEQADV 1KTD GLY D 18 UNP P00021 LINKER SEQADV 1KTD SER D 19 UNP P00021 LINKER SEQADV 1KTD LEU D 20 UNP P00021 LINKER SEQADV 1KTD VAL D 21 UNP P00021 LINKER SEQADV 1KTD GLY D 22 UNP P00021 LINKER SEQADV 1KTD GLY D 23 UNP P00021 LINKER SEQADV 1KTD GLY D 24 UNP P00021 LINKER SEQADV 1KTD SER D 25 UNP P00021 LINKER SEQADV 1KTD GLY D 26 UNP P00021 LINKER SEQADV 1KTD GLY D 27 UNP P00021 LINKER SEQADV 1KTD GLY D 28 UNP P00021 LINKER SEQADV 1KTD GLY D 29 UNP P00021 LINKER 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 THR TRP GLU PHE GLU GLU SEQRES 1 B 215 ALA ALA ASP LEU ILE ALA TYR LEU LYS GLN ALA SER ALA SEQRES 2 B 215 LYS GLY GLY GLY GLY SER LEU VAL GLY GLY GLY SER GLY SEQRES 3 B 215 GLY GLY GLY SER ARG PRO TRP PHE LEU GLU TYR CYS LYS SEQRES 4 B 215 SER GLU CYS HIS PHE TYR ASN GLY THR GLN ARG VAL ARG SEQRES 5 B 215 LEU LEU VAL ARG TYR PHE TYR ASN LEU GLU GLU ASN LEU SEQRES 6 B 215 ARG PHE ASP SER ASP VAL GLY GLU PHE ARG ALA VAL THR SEQRES 7 B 215 GLU LEU GLY ARG PRO ASP ALA GLU ASN TRP ASN SER GLN SEQRES 8 B 215 PRO GLU PHE LEU GLU GLN LYS ARG ALA GLU VAL ASP THR SEQRES 9 B 215 VAL CYS ARG HIS ASN TYR GLU ILE PHE ASP ASN PHE LEU SEQRES 10 B 215 VAL PRO ARG ARG VAL GLU PRO THR VAL THR VAL TYR PRO SEQRES 11 B 215 THR LYS THR GLN PRO LEU GLU HIS HIS ASN LEU LEU VAL SEQRES 12 B 215 CYS SER VAL SER ASP PHE TYR PRO GLY ASN ILE GLU VAL SEQRES 13 B 215 ARG TRP PHE ARG ASN GLY LYS GLU GLU LYS THR GLY ILE SEQRES 14 B 215 VAL SER THR GLY LEU VAL ARG ASN GLY ASP TRP THR PHE SEQRES 15 B 215 GLN THR LEU VAL MET LEU GLU THR VAL PRO GLN SER GLY SEQRES 16 B 215 GLU VAL TYR THR CYS GLN VAL GLU HIS PRO SER LEU THR SEQRES 17 B 215 ASP PRO 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 THR TRP GLU PHE GLU GLU SEQRES 1 D 215 ALA ALA ASP LEU ILE ALA TYR LEU LYS GLN ALA SER ALA SEQRES 2 D 215 LYS GLY GLY GLY GLY SER LEU VAL GLY GLY GLY SER GLY SEQRES 3 D 215 GLY GLY GLY SER ARG PRO TRP PHE LEU GLU TYR CYS LYS SEQRES 4 D 215 SER GLU CYS HIS PHE TYR ASN GLY THR GLN ARG VAL ARG SEQRES 5 D 215 LEU LEU VAL ARG TYR PHE TYR ASN LEU GLU GLU ASN LEU SEQRES 6 D 215 ARG PHE ASP SER ASP VAL GLY GLU PHE ARG ALA VAL THR SEQRES 7 D 215 GLU LEU GLY ARG PRO ASP ALA GLU ASN TRP ASN SER GLN SEQRES 8 D 215 PRO GLU PHE LEU GLU GLN LYS ARG ALA GLU VAL ASP THR SEQRES 9 D 215 VAL CYS ARG HIS ASN TYR GLU ILE PHE ASP ASN PHE LEU SEQRES 10 D 215 VAL PRO ARG ARG VAL GLU PRO THR VAL THR VAL TYR PRO SEQRES 11 D 215 THR LYS THR GLN PRO LEU GLU HIS HIS ASN LEU LEU VAL SEQRES 12 D 215 CYS SER VAL SER ASP PHE TYR PRO GLY ASN ILE GLU VAL SEQRES 13 D 215 ARG TRP PHE ARG ASN GLY LYS GLU GLU LYS THR GLY ILE SEQRES 14 D 215 VAL SER THR GLY LEU VAL ARG ASN GLY ASP TRP THR PHE SEQRES 15 D 215 GLN THR LEU VAL MET LEU GLU THR VAL PRO GLN SER GLY SEQRES 16 D 215 GLU VAL TYR THR CYS GLN VAL GLU HIS PRO SER LEU THR SEQRES 17 D 215 ASP PRO VAL THR VAL GLU TRP MODRES 1KTD ASN A 78 ASN GLYCOSYLATION SITE MODRES 1KTD ASN A 118 ASN GLYCOSYLATION SITE MODRES 1KTD ASN B 46 ASN GLYCOSYLATION SITE MODRES 1KTD ASN C 78 ASN GLYCOSYLATION SITE HET NAG A 602 14 HET NAG A 604 14 HET NAG B 601 14 HET SO4 B 800 5 HET NAG C 603 14 HETNAM NAG 2-ACETAMIDO-2-DEOXY-BETA-D-GLUCOPYRANOSE HETNAM SO4 SULFATE ION FORMUL 5 NAG 4(C8 H15 N O6) FORMUL 8 SO4 O4 S 2- FORMUL 10 HOH *317(H2 O) HELIX 1 1 LEU A 45 PHE A 51 5 7 HELIX 2 2 GLU A 55 SER A 77 1 23 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 GLN B 91 1 11 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 PHE C 51 5 7 HELIX 9 9 GLU C 55 SER C 77 1 23 HELIX 10 10 ASN D 46 GLN D 49 5 4 HELIX 11 11 THR D 78 LEU D 80 5 3 HELIX 12 12 GLY D 81 SER D 90 1 10 HELIX 13 13 GLN D 91 VAL D 105 1 15 HELIX 14 14 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 HIS A 33 O ILE A 42 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 LEU A 14 O ARG A 19 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 PHE B 67 N VAL B 55 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 ILE A 106 N LEU A 92 SHEET 3 B 4 PHE A 145 PHE A 153 -1 O LEU A 151 N LEU A 105 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 ILE A 106 N LEU A 92 SHEET 3 C 4 PHE A 145 PHE A 153 -1 O LEU A 151 N LEU A 105 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 PRO A 127 0 SHEET 2 D 4 ASN A 118 ARG A 123 -1 N ARG A 123 O ARG A 126 SHEET 3 D 4 TYR A 161 ASP A 166 -1 O ASP A 166 N ASN A 118 SHEET 4 D 4 LEU A 174 TRP A 178 -1 O LYS A 176 N CYS A 163 SHEET 1 E 4 THR B 125 PRO B 130 0 SHEET 2 E 4 ASN B 140 PHE B 149 -1 O SER B 145 N THR B 127 SHEET 3 E 4 PHE B 182 THR B 190 -1 O LEU B 188 N LEU B 142 SHEET 4 E 4 ILE B 169 SER B 171 -1 N VAL B 170 O MET B 187 SHEET 1 F 4 THR B 125 PRO B 130 0 SHEET 2 F 4 ASN B 140 PHE B 149 -1 O SER B 145 N THR B 127 SHEET 3 F 4 PHE B 182 THR B 190 -1 O LEU B 188 N LEU B 142 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 GLN B 201 N ARG B 157 SHEET 4 G 4 VAL B 211 TRP B 215 -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 PHE D 44 -1 O PHE D 44 N HIS C 5 SHEET 6 H 8 VAL D 51 TYR D 59 -1 O PHE D 58 N TYR D 37 SHEET 7 H 8 GLU D 62 ASP D 68 -1 O LEU D 65 N TYR D 57 SHEET 8 H 8 PHE D 74 ALA D 76 -1 O ARG D 75 N ARG D 66 SHEET 1 I 4 GLU C 88 SER C 93 0 SHEET 2 I 4 ASN C 103 PHE C 112 -1 O ASP C 110 N GLU C 88 SHEET 3 I 4 PHE C 145 LYS C 147 -1 O LYS C 147 N ILE C 109 SHEET 4 I 4 LEU C 138 PRO C 139 -1 N LEU C 138 O ARG C 146 SHEET 1 J 4 GLU C 88 SER C 93 0 SHEET 2 J 4 ASN C 103 PHE C 112 -1 O ASP C 110 N GLU C 88 SHEET 3 J 4 HIS C 149 PHE C 153 -1 O PHE C 153 N ASN C 103 SHEET 4 J 4 VAL C 132 GLU C 134 -1 N SER C 133 O TYR C 150 SHEET 1 K 4 ARG C 126 PRO C 127 0 SHEET 2 K 4 ASN C 118 ARG C 123 -1 N ARG C 123 O ARG C 126 SHEET 3 K 4 PHE C 160 ASP C 166 -1 O GLU C 164 N THR C 120 SHEET 4 K 4 LEU C 174 GLU C 179 -1 O LEU C 174 N VAL C 165 SHEET 1 L 4 THR D 125 THR D 131 0 SHEET 2 L 4 ASN D 140 PHE D 149 -1 O SER D 145 N THR D 127 SHEET 3 L 4 PHE D 182 THR D 190 -1 O PHE D 182 N PHE D 149 SHEET 4 L 4 ILE D 169 SER D 171 -1 N VAL D 170 O MET D 187 SHEET 1 M 4 THR D 125 THR D 131 0 SHEET 2 M 4 ASN D 140 PHE D 149 -1 O SER D 145 N THR D 127 SHEET 3 M 4 PHE D 182 THR D 190 -1 O PHE D 182 N PHE D 149 SHEET 4 M 4 VAL D 175 ARG D 176 -1 N VAL D 175 O GLN D 183 SHEET 1 N 4 LYS D 163 GLU D 165 0 SHEET 2 N 4 GLU D 155 ARG D 160 -1 N ARG D 160 O LYS D 163 SHEET 3 N 4 TYR D 198 GLU D 203 -1 O GLN D 201 N ARG D 157 SHEET 4 N 4 VAL D 211 TRP D 215 -1 O VAL D 211 N VAL D 202 SSBOND 1 CYS A 107 CYS A 163 1555 1555 2.03 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 2.03 SSBOND 6 CYS D 144 CYS D 200 1555 1555 2.03 LINK ND2 ASN A 78 C1 NAG A 602 1555 1555 1.45 LINK ND2 ASN A 118 C1 NAG A 604 1555 1555 1.45 LINK ND2 ASN B 46 C1 NAG B 601 1555 1555 1.46 LINK ND2 ASN C 78 C1 NAG C 603 1555 1555 1.45 CISPEP 1 LEU A 15 PRO A 16 0 0.99 CISPEP 2 SER A 113 PRO A 114 0 0.25 CISPEP 3 TYR B 150 PRO B 151 0 0.40 CISPEP 4 LEU C 15 PRO C 16 0 0.14 CISPEP 5 SER C 113 PRO C 114 0 0.60 CISPEP 6 TYR D 150 PRO D 151 0 0.16 CRYST1 145.520 57.300 116.570 90.00 94.23 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 0.006872 0.000000 0.000508 0.00000 SCALE2 0.000000 0.017452 0.000000 0.00000 SCALE3 0.000000 0.000000 0.008602 0.00000