HEADER COAGULATION FACTOR 16-JUN-94 1HFT OBSLTE 29-JAN-96 1HFT 2HFT TITLE STRUCTURE OF THE EXTRACELLULAR DOMAIN OF HUMAN TISSUE TITLE 2 FACTOR: LOCATION OF THE FACTOR VIIA BINDING SITE COMPND MOL_ID: 1; COMPND 2 MOLECULE:; COMPND 3 CHAIN: NULL; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1 KEYWDS COAGULATION FACTOR EXPDTA X-RAY DIFFRACTION AUTHOR Y.A.MULLER,A.M.DE VOS REVDAT 1 10-JUL-95 1HFT 0 JRNL AUTH Y.A.MULLER,M.H.ULTSCH,R.F.KELLEY,A.M.DE VOS JRNL TITL STRUCTURE OF THE EXTRACELLULAR DOMAIN OF HUMAN JRNL TITL 2 TISSUE FACTOR: LOCATION OF THE FACTOR VIIA BINDING JRNL TITL 3 SITE JRNL REF BIOCHEMISTRY V. 33 10864 1994 JRNL REFN ASTM BICHAW US ISSN 0006-2960 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH W.RUF,J.R.SCHULLEK,M.J.STONE,T.S.EDGINGTON REMARK 1 TITL MUTATIONAL MAPPING OF FUNCTIONAL RESIDUES IN REMARK 1 TITL 2 TISSUE FACTOR: IDENTIFICATION OF FACTOR VII REMARK 1 TITL 3 RECOGNITION DETERMINANTS IN BOTH STRUCTURAL REMARK 1 TITL 4 MODULES OF THE PREDICTED CYTOKINE RECEPTOR REMARK 1 TITL 5 HOMOLOGY DOMAIN REMARK 1 REF BIOCHEMISTRY V. 33 1565 1994 REMARK 1 REFN ASTM BICHAW US ISSN 0006-2960 REMARK 2 REMARK 2 RESOLUTION. 2.40 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 1HFT REMARK 3 AUTHORS : BRUNGER 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)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 9462 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) : 0.224 REMARK 3 FREE R VALUE : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%) : NULL 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 : 1596 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 65 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) : 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) : 0.016 REMARK 3 BOND ANGLES (DEGREES) : 2.00 REMARK 3 DIHEDRAL ANGLES (DEGREES) : NULL REMARK 3 IMPROPER ANGLES (DEGREES) : NULL 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 ; 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 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 1HFT COMPLIES WITH FORMAT V. 2.3, 09-JULY-1998 REMARK 5 REMARK 5 1HFT WATER MOLECULES (301 - 365) ARE NUMBERED BY DECREASING REMARK 5 1HFT DENSITY IN THE FINAL 2FO-FC ELECTRON DENSITY MAP. 1HFT REMARK 6 REMARK 6 1HFT THE FACTOR VII BINDING SITE WAS IDENTIFIED BY ALA- REMARK 6 SCANNING 1HFT MUTAGENESIS (RUF ET AL., 1994; SEE ABOVE). REMARK 6 THIS SITE IS 1HFT LISTED BELOW AND THE SITE IDENTIFIER IS REMARK 6 VII. 1HFT REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : NULL REMARK 200 TEMPERATURE (KELVIN) : NULL REMARK 200 PH : NULL REMARK 200 NUMBER OF CRYSTALS USED : NULL REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : NULL REMARK 200 RADIATION SOURCE : NULL REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : NULL REMARK 200 WAVELENGTH OR RANGE (A) : NULL REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : NULL REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : NULL REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : NULL 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 (%) : NULL 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) : 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: NULL REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.62 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.54 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 41 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,1/2+Z REMARK 290 3555 1/2-Y,1/2+X,1/4+Z REMARK 290 4555 1/2+Y,1/2-X,3/4+Z REMARK 290 5555 1/2-X,1/2+Y,1/4-Z REMARK 290 6555 1/2+X,1/2-Y,3/4-Z REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,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 115.52500 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 22.75000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 22.75000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 57.76250 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 22.75000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 22.75000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 173.28750 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 22.75000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 22.75000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 57.76250 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 22.75000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 22.75000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 173.28750 REMARK 290 SMTRY1 7 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY2 7 1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 7 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 8 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY2 8 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY3 8 0.000000 0.000000 -1.000000 115.52500 REMARK 290 REMARK 290 REMARK: NULL REMARK 300 REMARK 300 BIOMOLECULE: 1 REMARK 300 THIS ENTRY CONTAINS THE CRYSTALLOGRAPHIC ASYMMETRIC UNIT REMARK 300 WHICH CONSISTS OF 1 CHAIN(S). SEE REMARK 350 FOR REMARK 300 INFORMATION ON GENERATING THE BIOLOGICAL MOLECULE(S). REMARK 350 REMARK 350 GENERATING THE BIOMOLECULE 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 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 GLU 84 REMARK 465 SER 85 REMARK 465 THR 86 REMARK 465 GLY 87 REMARK 465 SER 88 REMARK 465 ALA 89 REMARK 465 GLY 90 REMARK 465 VAL 119 REMARK 465 GLY 120 REMARK 465 THR 121 REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) REMARK 500 REMARK 500 EXPECTED VALUES: ENGH AND HUBER, 1991 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 LYS 159 N - CA - C ANGL. DEV. =-13.0 DEGREES 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 M RES CSSEQI PSI PHI REMARK 500 ASN 137 -119.52 51.93 REMARK 525 REMARK 525 SOLVENT REMARK 525 THE FOLLOWING SOLVENT MOLECULES LIE FARTHER THAN EXPECTED REMARK 525 FROM THE PROTEIN OR NUCLEIC ACID MOLECULE AND MAY BE REMARK 525 ASSOCIATED WITH A SYMMETRY RELATED MOLECULE (M=MODEL REMARK 525 NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH 305 DISTANCE = 5.39 ANGSTROMS REMARK 525 HOH 314 DISTANCE = 6.79 ANGSTROMS REMARK 525 HOH 340 DISTANCE = 6.10 ANGSTROMS REMARK 999 REMARK 999 1HFT CROSS REFERENCE TO SEQUENCE DATABASE 1HFT SWISS-PROT REMARK 999 ENTRY NAME PDB ENTRY CHAIN NAME 1HFT TF_HUMAN 1HFT SEQRES 1 207 THR ASN THR VAL ALA ALA TYR ASN LEU THR TRP LYS SER SEQRES 2 207 THR ASN PHE LYS THR ILE LEU GLU TRP GLU PRO LYS PRO SEQRES 3 207 VAL ASN GLN VAL TYR THR VAL GLN ILE SER THR LYS SER SEQRES 4 207 GLY ASP TRP LYS SER LYS CYS PHE TYR THR THR ASP THR SEQRES 5 207 GLU CYS ASP LEU THR ASP GLU ILE VAL LYS ASP VAL LYS SEQRES 6 207 GLN THR TYR LEU ALA ARG VAL PHE SER TYR PRO ALA GLY SEQRES 7 207 ASN VAL GLU SER THR GLY SER ALA GLY GLU PRO LEU TYR SEQRES 8 207 GLU ASN SER PRO GLU PHE THR PRO TYR LEU GLU THR ASN SEQRES 9 207 LEU GLY GLN PRO THR ILE GLN SER PHE GLU GLN VAL GLY SEQRES 10 207 THR LYS VAL ASN VAL THR VAL GLU ASP GLU ARG THR LEU SEQRES 11 207 VAL ARG ARG ASN ASN THR PHE LEU SER LEU ARG ASP VAL SEQRES 12 207 PHE GLY LYS ASP LEU ILE TYR THR LEU TYR TYR TRP LYS SEQRES 13 207 SER SER SER SER GLY LYS LYS THR ALA LYS THR ASN THR SEQRES 14 207 ASN GLU PHE LEU ILE ASP VAL ASP LYS GLY GLU ASN TYR SEQRES 15 207 CYS PHE SER VAL GLN ALA VAL ILE PRO SER ARG THR VAL SEQRES 16 207 ASN ARG LYS SER THR ASP SER PRO VAL GLU CYS MET FTNOTE 1 CIS PROLINE - PRO 27 FORMUL 2 HOH *65(H2 O1) HELIX 1 1 LEU 59 VAL 64 1 6 HELIX 2 2 THR 101 THR 106 1 6 HELIX 3 3 LEU 143 GLY 148 1 6 HELIX 4 4 LYS 149 LEU 151 5 3 SHEET 1 A 3 TYR 10 THR 17 0 SHEET 2 A 3 LYS 20 GLU 26 -1 O GLU 24 N THR 13 SHEET 3 A 3 GLU 56 ASP 58 -1 O CYS 57 N LEU 23 SHEET 1 B 4 LYS 46 THR 52 0 SHEET 2 B 4 GLN 32 THR 40 -1 N VAL 36 O CYS 49 SHEET 3 B 4 TYR 71 PRO 79 -1 O PHE 76 N THR 35 SHEET 4 B 4 LEU 93 ASN 96 -1 O GLU 95 N VAL 75 SHEET 1 C 3 ILE 113 GLU 117 0 SHEET 2 C 3 VAL 123 VAL 127 -1 O THR 126 N SER 115 SHEET 3 C 3 GLU 174 ILE 177 -1 O ILE 177 N VAL 123 SHEET 1 D 2 ARG 131 ARG 136 0 SHEET 2 D 2 THR 139 SER 142 -1 O THR 139 N ARG 136 SHEET 1 E 4 LYS 166 THR 170 0 SHEET 2 E 4 ILE 152 LYS 159 -1 N TYR 157 O LYS 166 SHEET 3 E 4 TYR 185 VAL 192 -1 O SER 188 N TYR 156 SHEET 4 E 4 GLU 208 CYS 209 -1 O GLU 208 N PHE 187 SSBOND 1 CYS 49 CYS 57 SSBOND 2 CYS 186 CYS 209 CISPEP 1 GLU 26 PRO 27 0 0.43 SITE 1 VII 5 LYS 20 ILE 22 ASP 58 ARG 135 SITE 2 VII 5 PHE 140 CRYST1 45.500 45.500 231.050 90.00 90.00 90.00 P 41 21 2 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 0.021978 0.000000 0.000000 0.00000 SCALE2 0.000000 0.021978 0.000000 0.00000 SCALE3 0.000000 0.000000 0.004328 0.00000