HEADER IMMUNE SYSTEM 29-AUG-08 3ECB TITLE CRYSTAL STRUCTURE OF MOUSE H-2DD IN COMPLEX WITH PEPTIDE P18-I10 TITLE 2 DERIVED FROM HUMAN IMMUNODEFICIENCY VIRUS ENVELOPE GLYCOPROTEIN 120 COMPND MOL_ID: 1; COMPND 2 MOLECULE: H-2 CLASS I HISTOCOMPATIBILITY ANTIGEN, D-D ALPHA CHAIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: UNP RESIDUES 26 TO 298; COMPND 5 SYNONYM: H-2D(D); COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: BETA-2 MICROGLOBULIN; COMPND 9 CHAIN: B; COMPND 10 FRAGMENT: UNP RESIDUES 21 TO 119; COMPND 11 ENGINEERED: YES; COMPND 12 MOL_ID: 3; COMPND 13 MOLECULE: PEPTIDE P18-I10 FROM HIV GP160; COMPND 14 CHAIN: P; COMPND 15 FRAGMENT: UNP RESIDUES 309 TO 318; COMPND 16 SYNONYM: ENV POLYPROTEIN, SURFACE PROTEIN, SU, GLYCOPROTEIN 120, COMPND 17 GP120, TRANSMEMBRANE PROTEIN, TM, GLYCOPROTEIN 41, GP41; COMPND 18 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 3 ORGANISM_COMMON: MOUSE; SOURCE 4 ORGANISM_TAXID: 10090; SOURCE 5 STRAIN: BALB/C; SOURCE 6 GENE: H2-D1; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 10 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PET21-B; SOURCE 12 MOL_ID: 2; SOURCE 13 ORGANISM_SCIENTIFIC: MUS MUSCULUS; SOURCE 14 ORGANISM_COMMON: MOUSE; SOURCE 15 ORGANISM_TAXID: 10090; SOURCE 16 GENE: B2M, RP23-34E24.5-001; SOURCE 17 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 18 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 19 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 20 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 21 EXPRESSION_SYSTEM_PLASMID: PET3A; SOURCE 22 MOL_ID: 3; SOURCE 23 SYNTHETIC: YES; SOURCE 24 OTHER_DETAILS: THE PEPTIDE IS CHEMICALLY SYNTHESIZED. IT IS FOUND SOURCE 25 NATURALLY IN HUMAN IMMUNODEFICIENCY VIRUS ENVELOPE GLYCOPROTEIN SOURCE 26 GP120. KEYWDS CLASS I MAJOR HISTOMPATIBILITY COMPLEX, MHC-I, H-2DD, GLYCOPROTEIN, KEYWDS 2 IMMUNE RESPONSE, MEMBRANE, MHC I, PHOSPHOPROTEIN, TRANSMEMBRANE, KEYWDS 3 IMMUNOGLOBULIN DOMAIN, SECRETED, AIDS, APOPTOSIS, CELL MEMBRANE, KEYWDS 4 CLEAVAGE ON PAIR OF BASIC RESIDUES, COILED COIL, ENVELOPE PROTEIN, KEYWDS 5 FUSION PROTEIN, HOST-VIRUS INTERACTION, LIPOPROTEIN, PALMITATE, KEYWDS 6 VIRAL IMMUNOEVASION, VIRION, IMMUNE SYSTEM EXPDTA X-RAY DIFFRACTION AUTHOR K.NATARAJAN,R.WANG,D.H.MARGULIES REVDAT 3 30-AUG-23 3ECB 1 REMARK SEQADV REVDAT 2 01-SEP-09 3ECB 1 JRNL REVDAT 1 14-JUL-09 3ECB 0 JRNL AUTH R.WANG,K.NATARAJAN,D.H.MARGULIES JRNL TITL STRUCTURAL BASIS OF THE CD8ALPHABETA/MHC CLASS I JRNL TITL 2 INTERACTION: FOCUSED RECOGNITION ORIENTS CD8BETA TO A T CELL JRNL TITL 3 PROXIMAL POSITION JRNL REF J.IMMUNOL. V. 183 2554 2009 JRNL REFN ISSN 0022-1767 JRNL PMID 19625641 JRNL DOI 10.4049/JIMMUNOL.0901276 REMARK 2 REMARK 2 RESOLUTION. 1.70 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PHENIX (PHENIX.REFINE) REMARK 3 AUTHORS : PAUL ADAMS,PAVEL AFONINE,VINCENT CHEN,IAN REMARK 3 : DAVIS,KRESHNA GOPAL,RALF GROSSE-KUNSTLEVE, REMARK 3 : LI-WEI HUNG,ROBERT IMMORMINO,TOM IOERGER, REMARK 3 : AIRLIE MCCOY,ERIK MCKEE,NIGEL MORIARTY, REMARK 3 : REETAL PAI,RANDY READ,JANE RICHARDSON, REMARK 3 : DAVID RICHARDSON,TOD ROMO,JIM SACCHETTINI, REMARK 3 : NICHOLAS SAUTER,JACOB SMITH,LAURENT REMARK 3 : STORONI,TOM TERWILLIGER,PETER ZWART REMARK 3 REMARK 3 REFINEMENT TARGET : ML REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.70 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 28.80 REMARK 3 MIN(FOBS/SIGMA_FOBS) : 1.340 REMARK 3 COMPLETENESS FOR RANGE (%) : 94.9 REMARK 3 NUMBER OF REFLECTIONS : 48991 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 R VALUE (WORKING + TEST SET) : 0.184 REMARK 3 R VALUE (WORKING SET) : 0.182 REMARK 3 FREE R VALUE : 0.227 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.080 REMARK 3 FREE R VALUE TEST SET COUNT : 2488 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT (IN BINS). REMARK 3 BIN RESOLUTION RANGE COMPL. NWORK NFREE RWORK RFREE REMARK 3 1 28.8021 - 4.4449 1.00 2943 145 0.1864 0.1978 REMARK 3 2 4.4449 - 3.5301 1.00 2787 150 0.1679 0.1917 REMARK 3 3 3.5301 - 3.0844 1.00 2762 134 0.1889 0.2424 REMARK 3 4 3.0844 - 2.8027 1.00 2732 154 0.1939 0.2308 REMARK 3 5 2.8027 - 2.6019 1.00 2706 164 0.1956 0.2538 REMARK 3 6 2.6019 - 2.4486 1.00 2729 137 0.1789 0.2430 REMARK 3 7 2.4486 - 2.3261 1.00 2721 138 0.1736 0.2258 REMARK 3 8 2.3261 - 2.2248 1.00 2686 140 0.1646 0.2229 REMARK 3 9 2.2248 - 2.1392 0.99 2705 147 0.1593 0.2520 REMARK 3 10 2.1392 - 2.0654 1.00 2679 156 0.1584 0.2436 REMARK 3 11 2.0654 - 2.0009 0.99 2674 151 0.1552 0.2129 REMARK 3 12 2.0009 - 1.9437 0.99 2635 160 0.1561 0.2177 REMARK 3 13 1.9437 - 1.8925 0.99 2671 141 0.1564 0.2198 REMARK 3 14 1.8925 - 1.8464 0.97 2636 131 0.1612 0.2751 REMARK 3 15 1.8464 - 1.8044 0.93 2476 128 0.1703 0.2461 REMARK 3 16 1.8044 - 1.7660 0.82 2224 123 0.1761 0.2839 REMARK 3 17 1.7660 - 1.7307 0.75 1967 108 0.1724 0.2706 REMARK 3 18 1.7307 - 1.6980 0.64 1770 81 0.1778 0.2396 REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : FLAT BULK SOLVENT MODEL REMARK 3 SOLVENT RADIUS : 1.11 REMARK 3 SHRINKAGE RADIUS : 0.90 REMARK 3 K_SOL : 0.35 REMARK 3 B_SOL : 50.00 REMARK 3 REMARK 3 ERROR ESTIMATES. REMARK 3 COORDINATE ERROR (MAXIMUM-LIKELIHOOD BASED) : 0.250 REMARK 3 PHASE ERROR (DEGREES, MAXIMUM-LIKELIHOOD BASED) : 23.940 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : NULL REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 3.78000 REMARK 3 B22 (A**2) : 2.49000 REMARK 3 B33 (A**2) : -9.87000 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 TWINNING INFORMATION. REMARK 3 FRACTION: NULL REMARK 3 OPERATOR: NULL REMARK 3 REMARK 3 DEVIATIONS FROM IDEAL VALUES. REMARK 3 RMSD COUNT REMARK 3 BOND : 0.005 3241 REMARK 3 ANGLE : 1.017 4384 REMARK 3 CHIRALITY : 0.072 444 REMARK 3 PLANARITY : 0.004 573 REMARK 3 DIHEDRAL : 17.763 1178 REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 NCS DETAILS REMARK 3 NUMBER OF NCS GROUPS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 3ECB COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 40 REMARK 40 MOLPROBITY STRUCTURE VALIDATION REMARK 40 PROGRAMS : MOLPROBITY (KING, REDUCE, AND PROBE) REMARK 40 AUTHORS : I.W.DAVIS,V.B.CHEN, REMARK 40 : R.M.IMMORMINO,J.J.HEADD,W.B.ARENDALL,J.M.WORD REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-SEP-08. REMARK 100 THE DEPOSITION ID IS D_1000049143. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 10-JUL-08 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : NSLS REMARK 200 BEAMLINE : X29A REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.0809 REMARK 200 MONOCHROMATOR : SI 111 REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : HKL-2000 REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 51683 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.700 REMARK 200 RESOLUTION RANGE LOW (A) : 30.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : NULL REMARK 200 DATA REDUNDANCY : NULL REMARK 200 R MERGE (I) : 0.06000 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) : 1.70 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.76 REMARK 200 COMPLETENESS FOR SHELL (%) : NULL REMARK 200 DATA REDUNDANCY IN SHELL : 10.80 REMARK 200 R MERGE FOR SHELL (I) : 0.44000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.700 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: AMORE REMARK 200 STARTING MODEL: PDB ENTRY 1DDH REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.29 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.58 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: 16% PEG 3350, 0.2M MAGNESIUM FORMATE, REMARK 280 , PH 8, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 291K REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 21 21 21 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X+1/2,-Y,Z+1/2 REMARK 290 3555 -X,Y+1/2,-Z+1/2 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 23.36350 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 54.85250 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 44.72600 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 54.85250 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 23.36350 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 44.72600 REMARK 290 SMTRY3 4 0.000000 0.000000 -1.000000 0.00000 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5780 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 18490 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -5.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, P 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 MET A 1 REMARK 465 GLY A 275 REMARK 465 LYS A 276 REMARK 465 GLU A 277 REMARK 465 MET B 0 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 NH1 ARG A 181 O HOH A 488 4455 0.25 REMARK 500 NH2 ARG A 181 O HOH A 408 4455 0.51 REMARK 500 CZ ARG A 181 O HOH A 488 4455 1.40 REMARK 500 CZ ARG A 181 O HOH A 408 4455 1.55 REMARK 500 NH2 ARG A 181 O HOH A 309 4455 2.08 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 -122.75 50.28 REMARK 500 ASN A 42 76.23 58.25 REMARK 500 LYS A 131 -32.68 -130.56 REMARK 500 ASP A 198 -165.17 -108.98 REMARK 500 LEU A 224 48.09 -95.56 REMARK 500 ASP B 59 27.16 -77.02 REMARK 500 TRP B 60 0.95 82.92 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 LYS B 58 ASP B 59 75.09 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 278 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 279 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 280 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO A 281 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC5 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE MG A 282 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC6 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 100 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC7 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE EDO B 101 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 3DMM RELATED DB: PDB REMARK 900 STRUCTURE OF THE CD8ALPHA-BETA/H-2DD COMPLEX DBREF 3ECB A 2 277 UNP P01900 HA12_MOUSE 26 301 DBREF 3ECB B 1 99 UNP Q91XJ8 Q91XJ8_MOUSE 21 119 DBREF 3ECB P 1 10 UNP P19551 ENV_HV1MF 309 318 SEQADV 3ECB MET A 1 UNP P01900 EXPRESSION TAG SEQADV 3ECB MET B 0 UNP Q91XJ8 EXPRESSION TAG SEQRES 1 A 277 MET SER HIS SER LEU ARG TYR PHE VAL THR ALA VAL SER SEQRES 2 A 277 ARG PRO GLY PHE GLY GLU PRO ARG TYR MET GLU VAL GLY SEQRES 3 A 277 TYR VAL ASP ASN THR GLU PHE VAL ARG PHE ASP SER ASP SEQRES 4 A 277 ALA GLU ASN PRO ARG TYR GLU PRO ARG ALA ARG TRP ILE SEQRES 5 A 277 GLU GLN GLU GLY PRO GLU TYR TRP GLU ARG GLU THR ARG SEQRES 6 A 277 ARG ALA LYS GLY ASN GLU GLN SER PHE ARG VAL ASP LEU SEQRES 7 A 277 ARG THR ALA LEU ARG TYR TYR ASN GLN SER ALA GLY GLY SEQRES 8 A 277 SER HIS THR LEU GLN TRP MET ALA GLY CYS ASP VAL GLU SEQRES 9 A 277 SER ASP GLY ARG LEU LEU ARG GLY TYR TRP GLN PHE ALA SEQRES 10 A 277 TYR ASP GLY CYS ASP TYR ILE ALA LEU ASN GLU ASP LEU SEQRES 11 A 277 LYS THR TRP THR ALA ALA ASP MET ALA ALA GLN ILE THR SEQRES 12 A 277 ARG ARG LYS TRP GLU GLN ALA GLY ALA ALA GLU ARG ASP SEQRES 13 A 277 ARG ALA TYR LEU GLU GLY GLU CYS VAL GLU TRP LEU ARG SEQRES 14 A 277 ARG TYR LEU LYS ASN GLY ASN ALA THR LEU LEU ARG THR SEQRES 15 A 277 ASP PRO PRO LYS ALA HIS VAL THR HIS HIS ARG ARG PRO SEQRES 16 A 277 GLU GLY ASP VAL THR LEU ARG CYS TRP ALA LEU GLY PHE SEQRES 17 A 277 TYR PRO ALA ASP ILE THR LEU THR TRP GLN LEU ASN GLY SEQRES 18 A 277 GLU GLU LEU THR GLN GLU MET GLU LEU VAL GLU THR ARG SEQRES 19 A 277 PRO ALA GLY ASP GLY THR PHE GLN LYS TRP ALA SER VAL SEQRES 20 A 277 VAL VAL PRO LEU GLY LYS GLU GLN LYS TYR THR CYS HIS SEQRES 21 A 277 VAL GLU HIS GLU GLY LEU PRO GLU PRO LEU THR LEU ARG SEQRES 22 A 277 TRP GLY LYS GLU SEQRES 1 B 100 MET ILE GLN LYS THR PRO GLN ILE GLN VAL TYR SER ARG SEQRES 2 B 100 HIS PRO PRO GLU ASN GLY LYS PRO ASN ILE LEU ASN CYS SEQRES 3 B 100 TYR VAL THR GLN PHE HIS PRO PRO HIS ILE GLU ILE GLN SEQRES 4 B 100 MET LEU LYS ASN GLY LYS LYS ILE PRO LYS VAL GLU MET SEQRES 5 B 100 SER ASP MET SER PHE SER LYS ASP TRP SER PHE TYR ILE SEQRES 6 B 100 LEU ALA HIS THR GLU PHE THR PRO THR GLU THR ASP THR SEQRES 7 B 100 TYR ALA CYS ARG VAL LYS HIS ALA SER MET ALA GLU PRO SEQRES 8 B 100 LYS THR VAL TYR TRP ASP ARG ASP MET SEQRES 1 P 10 ARG GLY PRO GLY ARG ALA PHE VAL THR ILE HET EDO A 278 4 HET EDO A 279 4 HET EDO A 280 4 HET EDO A 281 4 HET MG A 282 1 HET EDO B 100 4 HET EDO B 101 4 HETNAM EDO 1,2-ETHANEDIOL HETNAM MG MAGNESIUM ION HETSYN EDO ETHYLENE GLYCOL FORMUL 4 EDO 6(C2 H6 O2) FORMUL 8 MG MG 2+ FORMUL 11 HOH *315(H2 O) HELIX 1 1 ALA A 49 GLU A 55 5 7 HELIX 2 2 GLY A 56 TYR A 85 1 30 HELIX 3 3 ASP A 137 GLY A 151 1 15 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 GLY A 175 LEU A 180 1 6 HELIX 7 7 LYS A 253 GLN A 255 5 3 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 GLU A 24 O PHE A 36 SHEET 4 A 8 HIS A 3 VAL A 12 -1 N PHE A 8 O VAL A 25 SHEET 5 A 8 THR A 94 VAL A 103 -1 O TRP A 97 N VAL A 9 SHEET 6 A 8 LEU A 109 TYR A 118 -1 O LEU A 110 N ASP A 102 SHEET 7 A 8 CYS A 121 LEU A 126 -1 O ILE A 124 N PHE 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 LYS A 186 ARG A 193 0 SHEET 2 B 4 VAL A 199 PHE A 208 -1 O TRP A 204 N HIS A 188 SHEET 3 B 4 PHE A 241 VAL A 249 -1 O ALA A 245 N CYS A 203 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 ARG A 193 0 SHEET 2 C 4 VAL A 199 PHE A 208 -1 O TRP A 204 N HIS A 188 SHEET 3 C 4 PHE A 241 VAL A 249 -1 O ALA A 245 N CYS A 203 SHEET 4 C 4 ARG A 234 PRO A 235 -1 N ARG A 234 O GLN A 242 SHEET 1 D 4 GLU A 222 GLU A 223 0 SHEET 2 D 4 THR A 214 LEU A 219 -1 N LEU A 219 O GLU A 222 SHEET 3 D 4 TYR A 257 GLU A 262 -1 O HIS A 260 N THR A 216 SHEET 4 D 4 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 PHE B 56 -1 N SER B 52 O LEU B 65 SHEET 1 F 4 LYS B 44 LYS B 45 0 SHEET 2 F 4 GLU B 36 LYS B 41 -1 N LYS B 41 O LYS B 44 SHEET 3 F 4 TYR B 78 LYS B 83 -1 O ARG B 81 N GLN B 38 SHEET 4 F 4 LYS B 91 TYR B 94 -1 O LYS B 91 N VAL B 82 SSBOND 1 CYS A 101 CYS A 164 1555 1555 2.05 SSBOND 2 CYS A 203 CYS A 259 1555 1555 2.02 SSBOND 3 CYS B 25 CYS B 80 1555 1555 2.04 CISPEP 1 TYR A 209 PRO A 210 0 0.94 CISPEP 2 HIS B 31 PRO B 32 0 4.35 SITE 1 AC1 3 ASP A 39 GLU A 196 HOH A 385 SITE 1 AC2 8 TRP A 204 ARG A 234 TRP A 244 HOH A 330 SITE 2 AC2 8 VAL B 9 TYR B 10 MET B 99 EDO B 100 SITE 1 AC3 6 TRP A 114 TRP A 147 ASP A 156 HOH A 440 SITE 2 AC3 6 ARG P 5 VAL P 8 SITE 1 AC4 2 VAL A 12 ARG A 21 SITE 1 AC5 1 CYS A 121 SITE 1 AC6 6 EDO A 279 GLN B 8 VAL B 9 TYR B 94 SITE 2 AC6 6 TRP B 95 ASP B 96 SITE 1 AC7 9 LEU A 206 ARG A 234 GLN A 242 TYR B 10 SITE 2 AC7 9 SER B 11 HIS B 13 PRO B 14 HOH B 102 SITE 3 AC7 9 HOH B 120 CRYST1 46.727 89.452 109.705 90.00 90.00 90.00 P 21 21 21 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 0.021401 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011179 0.000000 0.00000 SCALE3 0.000000 0.000000 0.009115 0.00000