PDB Short entry for 1Q69 HEADER MEMBRANE PROTEIN/TRANSFERASE 12-AUG-03 1Q69 TITLE SOLUTION STRUCTURE OF T-CELL SURFACE GLYCOPROTEIN CD8 ALPHA CHAIN AND TITLE 2 PROTO-ONCOGENE TYROSINE-PROTEIN KINASE LCK FRAGMENTS COMPND MOL_ID: 1; COMPND 2 MOLECULE: T-CELL SURFACE GLYCOPROTEIN CD8 ALPHA CHAIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: HUMAN CD8 ALPHA; COMPND 5 SYNONYM: T-LYMPHOCYTE DIFFERENTIATION ANTIGEN T8/LEU-2; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: PROTO-ONCOGENE TYROSINE-PROTEIN KINASE LCK; COMPND 9 CHAIN: B; COMPND 10 FRAGMENT: HUMAN LCK; COMPND 11 SYNONYM: P56-LCK, LSK, T CELL-SPECIFIC PROTEIN-TYROSINE KINASE; COMPND 12 ENGINEERED: YES; COMPND 13 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: CD8A OR MAL; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21-DE3; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PMM; SOURCE 11 MOL_ID: 2; SOURCE 12 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 13 ORGANISM_COMMON: HUMAN; SOURCE 14 ORGANISM_TAXID: 9606; SOURCE 15 GENE: LCK; SOURCE 16 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 17 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 18 EXPRESSION_SYSTEM_STRAIN: BL21-DE3; SOURCE 19 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 20 EXPRESSION_SYSTEM_PLASMID: PMM KEYWDS PEPTIDE-PEPTIDE COMPLEX, HELIX-HELIX INTERACTION, ZINC COORDINATION, KEYWDS 2 BETA HAIRPIN, MEMBRANE PROTEIN-TRANSFERASE COMPLEX EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR P.W.KIM,Z.Y.SUN,S.C.BLACKLOW,G.WAGNER,M.J.ECK REVDAT 3 27-OCT-21 1Q69 1 REMARK SEQADV LINK REVDAT 2 24-FEB-09 1Q69 1 VERSN REVDAT 1 25-NOV-03 1Q69 0 JRNL AUTH P.W.KIM,Z.Y.SUN,S.C.BLACKLOW,G.WAGNER,M.J.ECK JRNL TITL A ZINC CLASP STRUCTURE TETHERS LCK TO T CELL CORECEPTORS CD4 JRNL TITL 2 AND CD8. JRNL REF SCIENCE V. 301 1725 2003 JRNL REFN ISSN 0036-8075 JRNL PMID 14500983 JRNL DOI 10.1126/SCIENCE.1085643 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : FELIX, X-PLOR REMARK 3 AUTHORS : MOLECULAR SIMULATIONS INC. (FELIX), BRUNGER (X REMARK 3 -PLOR) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURES ARE BASED ON A TOTAL OF REMARK 3 181 DISTANCE RESTRAINTS (176 NOES, FOUR ZN-S RESTRAINTS, ONE REMARK 3 HYDROGEN BOND) AND 48 ANGLE RESTRAINTS (42 DIHEDRAL ANGLE REMARK 3 RESTRAINTS, SIX S-ZN-S ANGLE RESTRAINTS FROM CD-H HMQC REMARK 3 EXPERIMENTS). REMARK 4 REMARK 4 1Q69 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-AUG-03. REMARK 100 THE DEPOSITION ID IS D_1000019968. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 5.1 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.5 MM CD8A-LCK-ZN2+, U-15N,13C; REMARK 210 20 MM ACETATE, 20 MM NACL, 0.15% REMARK 210 BETA-MERCAPTOETHANOL; 0.5 MM REMARK 210 CD8A-LCK-ZN2+, U-15N; 20 MM REMARK 210 ACETATE, 20 MM NACL, 0.15% BETA- REMARK 210 MERCAPTOETHANOL; 0.5 MM CD8A-LCK- REMARK 210 ZN2+; 20 MM ACETATE, 20 MM NACL, REMARK 210 0.15% BETA-MERCAPTOETHANOL; 1.0 REMARK 210 MM CD8A-LCK-CD2+; 20 MM ACETATE, REMARK 210 20 MM NACL, 0.15% BETA- REMARK 210 MERCAPTOETHANOL REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : HNCA, HN(CO)CA, HNCACB, REMARK 210 HN(CO)CACB, CCONH, HCCONH, HCCH REMARK 210 TOCSY; 15N-NOESY, 15N-TOCSY; D2O REMARK 210 NOESY, D2O TOCSY; CD-H HMQC, CD- REMARK 210 H NOESY-HMQC REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 750 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE; INOVA REMARK 210 SPECTROMETER MANUFACTURER : BRUKER; VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : DYANA, X-PLOR REMARK 210 METHOD USED : DISTANCE GEOMETRY, SIMULATED REMARK 210 ANNEALING, MOLECULAR DYNAMICS, REMARK 210 TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 REMARK 210 CONFORMERS, SELECTION CRITERIA : THE SUBMITTED CONFORMER MODELS REMARK 210 ARE THE 10 STRUCTURES WITH THE REMARK 210 LOWEST ENERGY. REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS. 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: DIMERIC 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 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 1 ARG A 192 71.27 -69.72 REMARK 500 1 ARG A 198 74.69 166.41 REMARK 500 1 ASP A 205 39.37 -150.43 REMARK 500 1 HIS B 8 150.97 62.16 REMARK 500 1 GLU B 10 40.17 -90.71 REMARK 500 1 ASP B 12 52.48 -150.40 REMARK 500 1 TRP B 13 91.27 176.46 REMARK 500 1 LEU B 14 46.31 26.70 REMARK 500 1 GLU B 15 60.46 103.42 REMARK 500 1 HIS B 24 -11.82 79.44 REMARK 500 2 ASN A 189 75.29 62.57 REMARK 500 2 PRO A 197 73.63 -67.89 REMARK 500 2 ARG A 198 96.84 86.95 REMARK 500 2 SER A 203 138.62 64.41 REMARK 500 2 ASP A 205 37.92 -176.52 REMARK 500 2 PRO B 9 179.58 -48.83 REMARK 500 2 GLU B 10 41.20 -90.55 REMARK 500 2 ASP B 11 105.98 63.00 REMARK 500 2 ASP B 12 67.80 -178.04 REMARK 500 2 TRP B 13 31.33 -95.06 REMARK 500 2 LEU B 14 45.93 -96.70 REMARK 500 2 ASN B 16 57.76 83.28 REMARK 500 2 CYS B 20 93.63 -60.67 REMARK 500 2 ILE B 27 99.92 -67.24 REMARK 500 3 ARG A 198 77.14 166.24 REMARK 500 3 LYS A 202 151.90 61.43 REMARK 500 3 SER A 203 74.50 -102.20 REMARK 500 3 GLU B 10 39.57 -90.65 REMARK 500 3 ASP B 12 69.11 -179.16 REMARK 500 3 TRP B 13 93.52 69.44 REMARK 500 3 LEU B 14 45.51 26.80 REMARK 500 3 GLU B 15 76.64 93.66 REMARK 500 3 CYS B 20 92.84 -64.33 REMARK 500 3 HIS B 24 -15.98 79.94 REMARK 500 3 ASP B 31 115.78 -174.97 REMARK 500 4 ARG A 192 91.64 -60.50 REMARK 500 4 PRO A 197 90.30 -69.44 REMARK 500 4 ARG A 198 84.13 73.39 REMARK 500 4 PRO A 199 156.30 -47.07 REMARK 500 4 ASP A 205 34.13 -148.25 REMARK 500 4 GLU B 10 39.65 -90.69 REMARK 500 4 ASP B 12 58.09 -168.06 REMARK 500 4 TRP B 13 39.93 -177.95 REMARK 500 4 LEU B 14 54.09 -116.99 REMARK 500 4 GLU B 15 84.39 -155.60 REMARK 500 4 ASP B 18 85.79 -58.23 REMARK 500 4 CYS B 20 94.44 -46.72 REMARK 500 4 HIS B 24 -9.95 79.09 REMARK 500 4 LYS B 33 107.28 60.47 REMARK 500 5 ARG A 198 76.54 165.57 REMARK 500 REMARK 500 THIS ENTRY HAS 121 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 ZN A 207 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 194 SG REMARK 620 2 CYS A 196 SG 104.4 REMARK 620 3 CYS B 20 SG 109.8 113.3 REMARK 620 4 CYS B 23 SG 111.1 109.6 108.8 REMARK 620 N 1 2 3 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 207 DBREF 1Q69 A 188 206 UNP P01732 CD8A_HUMAN 209 227 DBREF 1Q69 B 7 35 UNP P06239 LCK_HUMAN 6 34 SEQADV 1Q69 LEU B 14 UNP P06239 MET 13 ENGINEERED MUTATION SEQRES 1 A 19 ARG ASN ARG ARG ARG VAL CYS LYS CYS PRO ARG PRO VAL SEQRES 2 A 19 VAL LYS SER GLY ASP LYS SEQRES 1 B 29 SER HIS PRO GLU ASP ASP TRP LEU GLU ASN ILE ASP VAL SEQRES 2 B 29 CYS GLU ASN CYS HIS TYR PRO ILE VAL PRO LEU ASP GLY SEQRES 3 B 29 LYS GLY THR HET ZN A 207 1 HETNAM ZN ZINC ION FORMUL 3 ZN ZN 2+ SHEET 1 A 2 ASP B 18 VAL B 19 0 SHEET 2 A 2 PRO B 26 ILE B 27 -1 O ILE B 27 N ASP B 18 LINK SG CYS A 194 ZN ZN A 207 1555 1555 2.34 LINK SG CYS A 196 ZN ZN A 207 1555 1555 2.35 LINK ZN ZN A 207 SG CYS B 20 1555 1555 2.35 LINK ZN ZN A 207 SG CYS B 23 1555 1555 2.35 SITE 1 AC1 4 CYS A 194 CYS A 196 CYS B 20 CYS B 23 CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1 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 1.000000 0.000000 0.000000 0.00000 SCALE2 0.000000 1.000000 0.000000 0.00000 SCALE3 0.000000 0.000000 1.000000 0.00000