HEADER CELL ADHESION 20-JUN-96 1ZON TITLE CD11A I-DOMAIN WITHOUT BOUND CATION COMPND MOL_ID: 1; COMPND 2 MOLECULE: LEUKOCYTE ADHESION GLYCOPROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: I-DOMAIN FRAGMENT OF LFA-1; COMPND 5 SYNONYM: LFA-1, CD11A/CD18, ALPHAL BETA2 INTEGRIN, A-DOMAIN; 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 GENE: PCR PRODUCT; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 7 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PET11C; SOURCE 9 EXPRESSION_SYSTEM_GENE: PCR PRODUCT KEYWDS INTEGRIN, CELL ADHESION, GLYCOPROTEIN, TRANSMEMBRANE, EXTRACELLULAR KEYWDS 2 MATRIX, CYTOSKELETON EXPDTA X-RAY DIFFRACTION AUTHOR D.J.LEAHY,A.QU REVDAT 4 14-FEB-24 1ZON 1 REMARK REVDAT 3 24-FEB-09 1ZON 1 VERSN REVDAT 2 01-APR-03 1ZON 1 JRNL REVDAT 1 07-DEC-96 1ZON 0 JRNL AUTH A.QU,D.J.LEAHY JRNL TITL THE ROLE OF THE DIVALENT CATION IN THE STRUCTURE OF THE I JRNL TITL 2 DOMAIN FROM THE CD11A/CD18 INTEGRIN. JRNL REF STRUCTURE V. 4 931 1996 JRNL REFN ISSN 0969-2126 JRNL PMID 8805579 JRNL DOI 10.1016/S0969-2126(96)00100-1 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH A.QU,D.J.LEAHY REMARK 1 TITL CRYSTAL STRUCTURE OF THE I-DOMAIN FROM THE CD11A/CD18 REMARK 1 TITL 2 (LFA-1, ALPHA L BETA 2) INTEGRIN REMARK 1 REF PROC.NATL.ACAD.SCI.USA V. 92 10277 1995 REMARK 1 REFN ISSN 0027-8424 REMARK 2 REMARK 2 RESOLUTION. 2.00 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.1 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.00 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 6.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 88.4 REMARK 3 NUMBER OF REFLECTIONS : 10129 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING SET) : 0.184 REMARK 3 FREE R VALUE : 0.243 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.000 REMARK 3 FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : NULL REMARK 3 BIN RESOLUTION RANGE HIGH (A) : NULL REMARK 3 BIN RESOLUTION RANGE LOW (A) : NULL REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : NULL REMARK 3 BIN FREE R VALUE : NULL REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : NULL REMARK 3 BIN FREE R VALUE TEST SET COUNT : NULL REMARK 3 ESTIMATED ERROR OF BIN FREE R VALUE : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 1457 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 101 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 21.92 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : NULL REMARK 3 B22 (A**2) : NULL REMARK 3 B33 (A**2) : NULL REMARK 3 B12 (A**2) : NULL REMARK 3 B13 (A**2) : NULL REMARK 3 B23 (A**2) : NULL REMARK 3 REMARK 3 ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : NULL REMARK 3 REMARK 3 CROSS-VALIDATED ESTIMATED COORDINATE ERROR. REMARK 3 ESD FROM C-V LUZZATI PLOT (A) : NULL REMARK 3 ESD FROM C-V SIGMAA (A) : NULL REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 BOND LENGTHS (A) : 0.009 REMARK 3 BOND ANGLES (DEGREES) : 1.900 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : 1.240 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : NULL ; 0.980 REMARK 3 MAIN-CHAIN ANGLE (A**2) : NULL ; 1.100 REMARK 3 SIDE-CHAIN BOND (A**2) : NULL ; 1.740 REMARK 3 SIDE-CHAIN ANGLE (A**2) : NULL ; 1.820 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 : NULL REMARK 3 TOPOLOGY FILE 1 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1ZON COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 100 THE DEPOSITION ID IS D_1000177498. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : FEB-95 REMARK 200 TEMPERATURE (KELVIN) : 100 REMARK 200 PH : 8.0 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) : 0.9686, 0.9791, 0.9793, 0.9879 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : FUJI REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 11039 REMARK 200 RESOLUTION RANGE HIGH (A) : NULL REMARK 200 RESOLUTION RANGE LOW (A) : NULL REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 96.4 REMARK 200 DATA REDUNDANCY : 10.00 REMARK 200 R MERGE (I) : 0.11000 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) : NULL REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : NULL REMARK 200 COMPLETENESS FOR SHELL (%) : NULL 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: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: NULL REMARK 200 SOFTWARE USED: X-PLOR 3.1 REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 35.02 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 1.89 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 8.0 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 31.54500 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 20.09500 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 31.84500 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 20.09500 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 31.54500 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 31.84500 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: 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 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 CYS A 125 REMARK 465 ILE A 126 REMARK 465 LYS A 127 REMARK 465 ILE A 309 REMARK 465 GLU A 310 REMARK 465 GLY A 311 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS IN SAME ASYMMETRIC UNIT 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 HZ1 LYS A 200 O HOH A 387 1.58 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 SER A 174 -106.94 -148.93 REMARK 500 LEU A 204 -135.26 -123.70 REMARK 500 LEU A 205 -165.37 -79.53 REMARK 500 ASP A 244 -161.51 -110.69 REMARK 500 LEU A 298 -20.88 -159.79 REMARK 500 LEU A 302 -70.14 -43.02 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 TYR A 177 0.07 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL DBREF 1ZON A 125 311 UNP P20701 ITAL_HUMAN 150 336 SEQRES 1 A 187 CYS ILE LYS GLY ASN VAL ASP LEU VAL PHE LEU PHE ASP SEQRES 2 A 187 GLY SER MET SER LEU GLN PRO ASP GLU PHE GLN LYS ILE SEQRES 3 A 187 LEU ASP PHE MET LYS ASP VAL MET LYS LYS LEU SER ASN SEQRES 4 A 187 THR SER TYR GLN PHE ALA ALA VAL GLN PHE SER THR SER SEQRES 5 A 187 TYR LYS THR GLU PHE ASP PHE SER ASP TYR VAL LYS ARG SEQRES 6 A 187 LYS ASP PRO ASP ALA LEU LEU LYS HIS VAL LYS HIS MET SEQRES 7 A 187 LEU LEU LEU THR ASN THR PHE GLY ALA ILE ASN TYR VAL SEQRES 8 A 187 ALA THR GLU VAL PHE ARG GLU GLU LEU GLY ALA ARG PRO SEQRES 9 A 187 ASP ALA THR LYS VAL LEU ILE ILE ILE THR ASP GLY GLU SEQRES 10 A 187 ALA THR ASP SER GLY ASN ILE ASP ALA ALA LYS ASP ILE SEQRES 11 A 187 ILE ARG TYR ILE ILE GLY ILE GLY LYS HIS PHE GLN THR SEQRES 12 A 187 LYS GLU SER GLN GLU THR LEU HIS LYS PHE ALA SER LYS SEQRES 13 A 187 PRO ALA SER GLU PHE VAL LYS ILE LEU ASP THR PHE GLU SEQRES 14 A 187 LYS LEU LYS ASP LEU PHE THR GLU LEU GLN LYS LYS ILE SEQRES 15 A 187 TYR VAL ILE GLU GLY FORMUL 2 HOH *101(H2 O) HELIX 1 1 PRO A 144 LEU A 161 1 18 HELIX 2 2 PHE A 183 LYS A 188 1 6 HELIX 3 3 PRO A 192 LEU A 195 1 4 HELIX 4 4 THR A 208 GLU A 218 1 11 HELIX 5 5 GLU A 222 LEU A 224 5 3 HELIX 6 6 ASP A 249 ALA A 251 5 3 HELIX 7 7 LYS A 263 PHE A 265 5 3 HELIX 8 8 LYS A 268 PHE A 277 1 10 HELIX 9 9 ALA A 282 PHE A 285 1 4 HELIX 10 10 PHE A 292 LEU A 295 5 4 HELIX 11 11 PHE A 299 LYS A 305 1 7 SHEET 1 A 6 VAL A 286 LEU A 289 0 SHEET 2 A 6 ILE A 255 ILE A 261 1 N ILE A 258 O LYS A 287 SHEET 3 A 6 THR A 231 THR A 238 1 N LEU A 234 O ILE A 255 SHEET 4 A 6 VAL A 130 ASP A 137 1 N ASP A 131 O THR A 231 SHEET 5 A 6 TYR A 166 PHE A 173 1 N GLN A 167 O VAL A 130 SHEET 6 A 6 TYR A 177 PHE A 181 -1 N PHE A 181 O ALA A 170 CISPEP 1 LYS A 280 PRO A 281 0 0.17 CRYST1 63.090 63.690 40.190 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 0.015850 0.000000 0.000000 0.00000 SCALE2 0.000000 0.015701 0.000000 0.00000 SCALE3 0.000000 0.000000 0.024882 0.00000