HEADER IMMUNE SYSTEM 07-APR-99 1CI5 TITLE GLYCAN-FREE MUTANT ADHESION DOMAIN OF HUMAN CD58 (LFA-3) COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN (LYMPHOCYTE FUNCTION-ASSOCIATED ANTIGEN 3(CD58)); COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: ADHESION DOMAIN; COMPND 5 SYNONYM: 1DCD58-6M; COMPND 6 ENGINEERED: YES; COMPND 7 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 CELLULAR_LOCATION: CELL SURFACE; 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_VECTOR: PET11A; SOURCE 11 EXPRESSION_SYSTEM_PLASMID: PET11A-1DCD58X6; SOURCE 12 EXPRESSION_SYSTEM_GENE: 1DCD58X6 KEYWDS ADHESION GLYCOPROTEIN, IMMUNOGLOBULIN SUPERFAMILY V-SET DOMAIN, CELL KEYWDS 2 SURFACE RECEPTOR, IMMUNE SYSTEM EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR Z.Y.J.SUN,V.DOTSCH,M.KIM,J.LI,E.L.REINHERZ,G.WAGNER REVDAT 5 27-DEC-23 1CI5 1 SEQADV REVDAT 4 14-MAR-18 1CI5 1 REMARK SEQADV REVDAT 3 24-FEB-09 1CI5 1 VERSN REVDAT 2 01-APR-03 1CI5 1 JRNL REVDAT 1 22-JUN-99 1CI5 0 JRNL AUTH Z.Y.SUN,V.DOTSCH,M.KIM,J.LI,E.L.REINHERZ,G.WAGNER JRNL TITL FUNCTIONAL GLYCAN-FREE ADHESION DOMAIN OF HUMAN CELL SURFACE JRNL TITL 2 RECEPTOR CD58: DESIGN, PRODUCTION AND NMR STUDIES. JRNL REF EMBO J. V. 18 2941 1999 JRNL REFN ISSN 0261-4189 JRNL PMID 10357807 JRNL DOI 10.1093/EMBOJ/18.11.2941 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.851 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NO NOE VIOLATION GREATER THAN 0.3 A, NO REMARK 3 DIHEDRAL ANGLE VIOLATION GREATER THAN 5 DEGREE. AVERAGE BACKBONE REMARK 3 ATOM (RESIDUE 3 - 95) RMSD TO MEAN STRUCTURE 0.37 A, AVERAGE REMARK 3 HEAVY ATOM (RESIDUE 3 - 95) RMSD TO MEAN STRUCTURE 0.93 A. REMARK 4 REMARK 4 1CI5 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 21-APR-99. REMARK 100 THE DEPOSITION ID IS D_1000000891. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.5 REMARK 210 IONIC STRENGTH : 10 MM NAPO4 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : NOESY; NOESY-HSQC; HNCA; REMARK 210 CBCA(CO)NH; HBHA(CBCACO)NH; HCCH- REMARK 210 TOCSY; HNHA; HNHB REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 750 MHZ REMARK 210 SPECTROMETER MODEL : AMX500; INOVA500; INOVA750 REMARK 210 SPECTROMETER MANUFACTURER : BRUKER; VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XEASY, X-PLOR, DIANA, DYANA REMARK 210 METHOD USED : DISTANCE GEOMETRY REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 25 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : LEAST ENERGY FUNCTION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 3 REMARK 210 REMARK 210 REMARK: THE STRUCTURE WAS DETERMINED USING TRIPLE-RESONANCE NMR REMARK 210 SPECTROSCOPY ON 13C, 15N-LABELED 1DCD58-6M. 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 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 O VAL A 26 H LEU A 38 1.57 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 1 GLN A 31 -133.02 67.30 REMARK 500 1 VAL A 35 -64.13 -103.02 REMARK 500 1 SER A 47 -97.21 51.53 REMARK 500 1 SER A 48 15.45 -140.69 REMARK 500 1 ARG A 52 28.75 -152.41 REMARK 500 1 LYS A 58 -74.74 -136.97 REMARK 500 1 ASN A 66 83.01 53.51 REMARK 500 1 ASP A 84 -74.32 -162.82 REMARK 500 1 SER A 85 139.74 -172.34 REMARK 500 2 PRO A 18 83.30 -59.35 REMARK 500 2 SER A 19 86.11 -150.36 REMARK 500 2 GLN A 31 -133.66 68.14 REMARK 500 2 VAL A 35 -67.81 -105.32 REMARK 500 2 GLU A 39 139.30 -177.55 REMARK 500 2 SER A 47 -141.26 48.30 REMARK 500 2 ARG A 52 17.75 -144.38 REMARK 500 2 THR A 57 40.64 -97.14 REMARK 500 2 LYS A 58 -71.65 -132.80 REMARK 500 2 TYR A 65 -91.19 -114.64 REMARK 500 2 ASN A 66 94.49 -57.55 REMARK 500 2 ASP A 84 -82.53 -139.57 REMARK 500 3 GLN A 31 -133.79 67.68 REMARK 500 3 VAL A 35 -69.33 -101.90 REMARK 500 3 SER A 47 -149.24 58.74 REMARK 500 3 SER A 48 30.73 -92.56 REMARK 500 3 THR A 57 47.04 -109.69 REMARK 500 3 LYS A 58 -71.69 -141.45 REMARK 500 3 ASN A 66 82.16 53.02 REMARK 500 3 ASP A 84 -85.33 -136.39 REMARK 500 4 GLN A 31 -133.32 66.11 REMARK 500 4 VAL A 35 -67.01 -104.97 REMARK 500 4 GLU A 39 128.72 -173.10 REMARK 500 4 SER A 47 28.53 47.12 REMARK 500 4 THR A 57 38.53 -97.68 REMARK 500 4 LYS A 58 -74.05 -127.79 REMARK 500 4 ASN A 66 100.42 55.88 REMARK 500 4 ASP A 84 -78.57 -159.75 REMARK 500 4 SER A 85 118.52 -171.09 REMARK 500 5 PRO A 18 64.22 -69.59 REMARK 500 5 GLN A 31 -133.49 68.14 REMARK 500 5 VAL A 35 -69.88 -101.12 REMARK 500 5 PHE A 46 -167.03 -111.85 REMARK 500 5 ARG A 52 23.98 -147.73 REMARK 500 5 LYS A 58 -72.64 -149.68 REMARK 500 5 ASN A 66 84.74 52.04 REMARK 500 5 ASP A 84 -79.76 -147.69 REMARK 500 5 SER A 85 142.27 -174.86 REMARK 500 6 SER A 2 -82.42 62.26 REMARK 500 6 SER A 19 -57.58 -129.87 REMARK 500 6 GLN A 21 142.47 -171.13 REMARK 500 REMARK 500 THIS ENTRY HAS 208 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL DBREF 1CI5 A 1 95 UNP P19256 LFA3_HUMAN 29 123 SEQADV 1CI5 SER A 1 UNP P19256 PHE 29 ENGINEERED MUTATION SEQADV 1CI5 LYS A 9 UNP P19256 VAL 37 ENGINEERED MUTATION SEQADV 1CI5 GLN A 21 UNP P19256 VAL 49 ENGINEERED MUTATION SEQADV 1CI5 LYS A 58 UNP P19256 VAL 86 ENGINEERED MUTATION SEQADV 1CI5 SER A 85 UNP P19256 THR 113 ENGINEERED MUTATION SEQADV 1CI5 GLY A 93 UNP P19256 LEU 121 ENGINEERED MUTATION SEQRES 1 A 95 SER SER GLN GLN ILE TYR GLY VAL LYS TYR GLY ASN VAL SEQRES 2 A 95 THR PHE HIS VAL PRO SER ASN GLN PRO LEU LYS GLU VAL SEQRES 3 A 95 LEU TRP LYS LYS GLN LYS ASP LYS VAL ALA GLU LEU GLU SEQRES 4 A 95 ASN SER GLU PHE ARG ALA PHE SER SER PHE LYS ASN ARG SEQRES 5 A 95 VAL TYR LEU ASP THR LYS SER GLY SER LEU THR ILE TYR SEQRES 6 A 95 ASN LEU THR SER SER ASP GLU ASP GLU TYR GLU MET GLU SEQRES 7 A 95 SER PRO ASN ILE THR ASP SER MET LYS PHE PHE LEU TYR SEQRES 8 A 95 VAL GLY GLU SER HELIX 1 1 PHE A 49 ARG A 52 5 4 SHEET 1 A 6 GLN A 3 VAL A 8 0 SHEET 2 A 6 SER A 85 GLY A 93 1 N PHE A 89 O GLN A 3 SHEET 3 A 6 GLU A 74 SER A 79 -1 N MET A 77 O MET A 86 SHEET 4 A 6 VAL A 26 LYS A 30 -1 N LYS A 29 O GLU A 76 SHEET 5 A 6 ASP A 33 GLU A 39 -1 N LEU A 38 O VAL A 26 SHEET 6 A 6 GLU A 42 ALA A 45 -1 N ARG A 44 O GLU A 37 SHEET 1 B 3 ASN A 12 PHE A 15 0 SHEET 2 B 3 LEU A 62 TYR A 65 -1 N ILE A 64 O VAL A 13 SHEET 3 B 3 VAL A 53 LEU A 55 -1 N TYR A 54 O THR A 63 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 MODEL 1