HEADER HYDROLASE/INHIBITOR 11-APR-05 2BOH TITLE CRYSTAL STRUCTURE OF FACTOR XA IN COMPLEX WITH COMPOUND "1" COMPND MOL_ID: 1; COMPND 2 MOLECULE: COAGULATION FACTOR XA; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: LIGHT CHAIN, RESIDUES 126-234; COMPND 5 SYNONYM: STUART FACTOR, STUART-PROWER FACTOR; COMPND 6 EC: 3.4.21.6; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: COAGULATION FACTOR XA; COMPND 9 CHAIN: B; COMPND 10 FRAGMENT: LIGHT CHAIN, RESIDUES 235-488; COMPND 11 SYNONYM: STUART FACTOR, STUART-PROWER FACTOR; COMPND 12 EC: 3.4.21.6 SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 TISSUE: BLOOD; SOURCE 6 MOL_ID: 2; SOURCE 7 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 8 ORGANISM_COMMON: HUMAN; SOURCE 9 ORGANISM_TAXID: 9606; SOURCE 10 TISSUE: BLOOD KEYWDS HYDROLASE/INHIBITOR, COMPLEX (HYDROLASE-INHIBITOR), PROTEIN-INHIBITOR KEYWDS 2 COMPLEX, BLOOD COAGULATION FACTOR, SERINE PROTEINASE, RATIONAL DRUG KEYWDS 3 DESIGN, CALCIUM-BINDING, EGF-LIKE DOMAIN, GAMMA-CARBOXYGLUTAMIC KEYWDS 4 ACID, GLYCOPROTEIN, HYDROLASE, HYDROXYLATION, PLASMA, POLYMORPHISM, KEYWDS 5 PROTEASE, SERINE PROTEASE, VITAMIN K, ZYMOGEN, HYDROLASE-INHIBITOR KEYWDS 6 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR M.NAZARE,D.W.WILL,H.MATTER,H.SCHREUDER,K.RITTER,M.URMANN,M.ESSRICH, AUTHOR 2 A.BAUER,M.WAGNER,J.CZECH,V.LAUX,V.WEHNER REVDAT 6 13-NOV-24 2BOH 1 REMARK REVDAT 5 13-DEC-23 2BOH 1 REMARK LINK REVDAT 4 30-JAN-19 2BOH 1 REMARK REVDAT 3 29-JAN-14 2BOH 1 TITLE REMARK VERSN HETSYN REVDAT 3 2 1 FORMUL REVDAT 2 24-FEB-09 2BOH 1 VERSN REVDAT 1 05-APR-06 2BOH 0 JRNL AUTH M.NAZARE,D.W.WILL,H.MATTER,H.SCHREUDER,K.RITTER,M.URMANN, JRNL AUTH 2 M.ESSRICH,A.BAUER,M.WAGNER,J.CZECH,M.LORENZ,V.LAUX,V.WEHNER JRNL TITL PROBING THE SUBPOCKETS OF FACTOR XA REVEALS TWO BINDING JRNL TITL 2 MODES FOR INHIBITORS BASED ON A 2-CARBOXYINDOLE SCAFFOLD: A JRNL TITL 3 STUDY COMBINING STRUCTURE-ACTIVITY RELATIONSHIP AND X-RAY JRNL TITL 4 CRYSTALLOGRAPHY. JRNL REF J.MED.CHEM. V. 48 4511 2005 JRNL REFN ISSN 0022-2623 JRNL PMID 15999990 JRNL DOI 10.1021/JM0490540 REMARK 2 REMARK 2 RESOLUTION. 2.20 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNX 2000 REMARK 3 AUTHORS : BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE- REMARK 3 : KUNSTLEVE,JIANG,KUSZEWSKI,NILGES,PANNU, REMARK 3 : READ,RICE,SIMONSON,WARREN,ACCELRYS REMARK 3 : SOFTWARE INC.(BADGER,BERARD,KUMAR,SZALMA, REMARK 3 : YIP,DZAKULA) REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.20 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 50.00 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 : 16670 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT REMARK 3 FREE R VALUE TEST SET SELECTION : RANDOM REMARK 3 R VALUE (WORKING + TEST SET) : 0.207 REMARK 3 R VALUE (WORKING SET) : 0.207 REMARK 3 FREE R VALUE : 0.253 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 4.100 REMARK 3 FREE R VALUE TEST SET COUNT : 685 REMARK 3 ESTIMATED ERROR OF FREE R VALUE : NULL REMARK 3 REMARK 3 FIT/AGREEMENT OF MODEL WITH ALL DATA. REMARK 3 R VALUE (WORKING + TEST SET, NO CUTOFF) : NULL REMARK 3 R VALUE (WORKING SET, NO CUTOFF) : NULL REMARK 3 FREE R VALUE (NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET SIZE (%, NO CUTOFF) : NULL REMARK 3 FREE R VALUE TEST SET COUNT (NO CUTOFF) : NULL REMARK 3 ESTIMATED ERROR OF FREE R VALUE (NO CUTOFF) : NULL REMARK 3 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : NULL REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 13 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.20 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.26 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 REFLECTIONS IN BIN (WORKING SET) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.2524 REMARK 3 BIN FREE R VALUE : 0.2376 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 1.40 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 : 2249 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 34 REMARK 3 SOLVENT ATOMS : 221 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 41.30 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 40.80 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : 8.24400 REMARK 3 B22 (A**2) : 2.91000 REMARK 3 B33 (A**2) : -11.15300 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 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) : 0.008 REMARK 3 BOND ANGLES (DEGREES) : 1.511 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 25.20 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.750 REMARK 3 REMARK 3 ISOTROPIC THERMAL MODEL : RESTRAINED REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.250 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.270 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 1.450 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 2.310 ; 2.500 REMARK 3 REMARK 3 BULK SOLVENT MODELING. REMARK 3 METHOD USED : MASK REMARK 3 KSOL : 0.37 REMARK 3 BSOL : 54.27 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 : PROTEIN_REP.PARAM REMARK 3 PARAMETER FILE 2 : NULL REMARK 3 TOPOLOGY FILE 1 : AVENTIS.TOP REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2BOH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 11-APR-05. REMARK 100 THE DEPOSITION ID IS D_1290023601. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 06-JUN-01 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 5.70 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : Y REMARK 200 RADIATION SOURCE : ESRF REMARK 200 BEAMLINE : ID14-4 REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 0.9340 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : MARRESEARCH REMARK 200 INTENSITY-INTEGRATION SOFTWARE : XDS REMARK 200 DATA SCALING SOFTWARE : XSCALE REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 16670 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 50.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : -3.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 98.8 REMARK 200 DATA REDUNDANCY : 4.400 REMARK 200 R MERGE (I) : 0.08000 REMARK 200 R SYM (I) : NULL REMARK 200 FOR THE DATA SET : 11.7000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.30 REMARK 200 COMPLETENESS FOR SHELL (%) : 99.4 REMARK 200 DATA REDUNDANCY IN SHELL : 4.40 REMARK 200 R MERGE FOR SHELL (I) : 0.31000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 5.000 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: CNX REMARK 200 STARTING MODEL: PDB ENTRY 1LPG REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 49.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.40 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PEG600, MES, CACL2, PH 5.7, VAPOR REMARK 280 DIFFUSION, HANGING DROP, TEMPERATURE 298.0 K, PH 5.70 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 28.05000 REMARK 290 SMTRY2 2 0.000000 -1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 1.000000 39.60000 REMARK 290 SMTRY1 3 -1.000000 0.000000 0.000000 0.00000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 36.10000 REMARK 290 SMTRY3 3 0.000000 0.000000 -1.000000 39.60000 REMARK 290 SMTRY1 4 1.000000 0.000000 0.000000 28.05000 REMARK 290 SMTRY2 4 0.000000 -1.000000 0.000000 36.10000 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: DIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: DIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 2760 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13500 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -30.0 KCAL/MOL 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 400 REMARK 400 COMPOUND REMARK 400 FUNCTION: FACTOR XA CONVERTS PROTHROMBIN TO THROMBIN REMARK 400 DURING BLOOD CLOTTING 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 A -83 REMARK 465 GLU A -82 REMARK 465 MET A -81 REMARK 465 LYS A -80 REMARK 465 LYS A -79 REMARK 465 GLY A -78 REMARK 465 HIS A -77 REMARK 465 LEU A -76 REMARK 465 GLU A -75 REMARK 465 ARG A -74 REMARK 465 GLU A -73 REMARK 465 CYS A -72 REMARK 465 MET A -71 REMARK 465 GLU A -70 REMARK 465 GLU A -69 REMARK 465 THR A -68 REMARK 465 CYS A -67 REMARK 465 SER A -66 REMARK 465 TYR A -65 REMARK 465 GLU A -64 REMARK 465 GLU A -63 REMARK 465 ALA A -62 REMARK 465 ARG A -61 REMARK 465 GLU A -60 REMARK 465 VAL A -59 REMARK 465 PHE A -58 REMARK 465 GLU A -57 REMARK 465 ASP A -56 REMARK 465 SER A -55 REMARK 465 ASP A -54 REMARK 465 LYS A -53 REMARK 465 THR A -52 REMARK 465 ASN A -51 REMARK 465 GLU A -50 REMARK 465 PHE A -49 REMARK 465 TRP A -48 REMARK 465 ASN A -47 REMARK 465 LYS A -46 REMARK 465 TYR A -45 REMARK 465 LYS A -44 REMARK 465 ASP A -43 REMARK 465 GLY A -42 REMARK 465 ASP A -41 REMARK 465 GLN A -40 REMARK 465 CYS A -39 REMARK 465 GLU A -38 REMARK 465 THR A -37 REMARK 465 SER A -36 REMARK 465 PRO A -35 REMARK 465 CYS A -34 REMARK 465 GLN A -33 REMARK 465 ASN A -32 REMARK 465 GLN A -31 REMARK 465 GLY A -30 REMARK 465 LYS A -29 REMARK 465 CYS A -28 REMARK 465 LYS A -27 REMARK 465 ASP A -26 REMARK 465 GLY A -25 REMARK 465 LEU A -24 REMARK 465 GLY A -23 REMARK 465 GLU A -22 REMARK 465 TYR A -21 REMARK 465 THR A -20 REMARK 465 CYS A -19 REMARK 465 THR A -18 REMARK 465 CYS A -17 REMARK 465 LEU A -16 REMARK 465 GLU A -15 REMARK 465 GLY A -14 REMARK 465 PHE A -13 REMARK 465 GLU A -12 REMARK 465 GLY A -11 REMARK 465 LYS A -10 REMARK 465 ASN A -9 REMARK 465 CYS A -8 REMARK 465 GLU A -7 REMARK 465 LEU A -6 REMARK 465 PHE A -5 REMARK 465 THR A -4 REMARK 465 GLY B 246 REMARK 465 LEU B 247 REMARK 465 PRO B 248 REMARK 465 LYS B 249 REMARK 465 ALA B 250 REMARK 465 LYS B 251 REMARK 465 SER B 252 REMARK 465 HIS B 253 REMARK 465 ALA B 254 REMARK 465 PRO B 255 REMARK 465 GLU B 256 REMARK 465 VAL B 257 REMARK 465 ILE B 258 REMARK 465 THR B 259 REMARK 465 SER B 260 REMARK 465 SER B 261 REMARK 465 PRO B 262 REMARK 465 LEU B 263 REMARK 465 LYS B 264 REMARK 470 REMARK 470 MISSING ATOM REMARK 470 THE FOLLOWING RESIDUES HAVE MISSING ATOMS (M=MODEL NUMBER; REMARK 470 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 470 I=INSERTION CODE): REMARK 470 M RES CSSEQI ATOMS REMARK 470 ARG A 51 CA C O CB CG CD NE REMARK 470 ARG A 51 CZ NH1 NH2 REMARK 470 ARG B 245 CA C O CB CG CD NE REMARK 470 ARG B 245 CZ NH1 NH2 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 PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 ATM2 ATM3 REMARK 500 GLU B 77 N - CA - C ANGL. DEV. = -16.4 DEGREES REMARK 500 CYS B 182 CA - CB - SG ANGL. DEV. = 6.7 DEGREES 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 LYS A -2 -70.64 -110.41 REMARK 500 LEU A -1 -103.67 -96.60 REMARK 500 GLN A 10 -115.12 -131.23 REMARK 500 ASN A 17 162.24 67.42 REMARK 500 SER A 18 150.32 78.35 REMARK 500 LYS A 34 -49.63 -134.01 REMARK 500 SER B 48 -176.61 -171.59 REMARK 500 GLU B 74 51.40 -115.64 REMARK 500 GLN B 75 150.79 178.68 REMARK 500 ARG B 115 -166.94 -168.41 REMARK 500 THR B 244 -75.46 -142.50 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 CA A 500 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ASP B 70 OD1 REMARK 620 2 ASN B 72 O 85.2 REMARK 620 3 GLN B 75 O 152.7 72.9 REMARK 620 4 GLU B 80 OE2 121.3 153.1 82.8 REMARK 620 5 HOH B2045 O 89.3 91.0 106.7 84.9 REMARK 620 6 HOH B2046 O 79.6 87.5 83.4 101.3 168.9 REMARK 620 N 1 2 3 4 5 REMARK 700 REMARK 700 SHEET REMARK 700 DETERMINATION METHOD: DSSP REMARK 700 THE SHEETS PRESENTED AS "BB" IN EACH CHAIN ON SHEET RECORDS REMARK 700 BELOW IS ACTUALLY AN 6-STRANDED BARREL THIS IS REPRESENTED BY REMARK 700 A 7-STRANDED SHEET IN WHICH THE FIRST AND LAST STRANDS REMARK 700 ARE IDENTICAL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE CA A 500 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE IIA B 1 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1C5M RELATED DB: PDB REMARK 900 STRUCTURAL BASIS FOR SELECTIVITY OF A SMALL MOLECULE, S1-BINDING, REMARK 900 SUB- MICROMOLAR INHIBITOR OF UROKINASE TYPE PLASMINOGEN ACTIVATOR REMARK 900 RELATED ID: 1EZQ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN COAGULATION FACTOR XA COMPLEXED WITH REMARK 900 RPR128515 REMARK 900 RELATED ID: 1F0R RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN COAGULATION FACTOR XA COMPLEXED WITH REMARK 900 RPR208815 REMARK 900 RELATED ID: 1F0S RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN COAGULATION FACTOR XA COMPLEXED WITH REMARK 900 RPR208707 REMARK 900 RELATED ID: 1FAX RELATED DB: PDB REMARK 900 COAGULATION FACTOR XA INHIBITOR COMPLEX REMARK 900 RELATED ID: 1FJS RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF THE INHIBITOR ZK-807834 (CI-1031)COMPLEXED REMARK 900 WITH FACTOR XA REMARK 900 RELATED ID: 1FXY RELATED DB: PDB REMARK 900 COAGULATION FACTOR XA-TRYPSIN CHIMERA INHIBITED WITH D-PHE-PRO-ARG- REMARK 900 CHLOROMETHYLKETONE REMARK 900 RELATED ID: 1G2L RELATED DB: PDB REMARK 900 FACTOR XA INHIBITOR COMPLEX REMARK 900 RELATED ID: 1G2M RELATED DB: PDB REMARK 900 FACTOR XA INHIBITOR COMPLEX REMARK 900 RELATED ID: 1HCG RELATED DB: PDB REMARK 900 BLOOD COAGULATION FACTOR XA REMARK 900 RELATED ID: 1IOE RELATED DB: PDB REMARK 900 HUNMAN COAGULATION FACTOR XA COMPLEXD WITH M55532 REMARK 900 RELATED ID: 1IQE RELATED DB: PDB REMARK 900 HUMAN COAGULATION FACTOR XA COMPLEXD WITH M55590 REMARK 900 RELATED ID: 1IQF RELATED DB: PDB REMARK 900 HUMAN COAGULATION FACTOR XA COMPLEXD WITH M55165 REMARK 900 RELATED ID: 1IQG RELATED DB: PDB REMARK 900 HUNMAN COAGULATION FACTOR XA COMPLEXD WITH M55159 REMARK 900 RELATED ID: 1IQH RELATED DB: PDB REMARK 900 HUNMAN COAGULATION FACTOR XA COMPLEXD WITH M55143 REMARK 900 RELATED ID: 1IQI RELATED DB: PDB REMARK 900 HUNMAN COAGULATION FACTOR XA COMPLEXD WITH M55125 REMARK 900 RELATED ID: 1IQJ RELATED DB: PDB REMARK 900 HUNMAN COAGULATION FACTOR XA COMPLEXD WITH M55124 REMARK 900 RELATED ID: 1IQK RELATED DB: PDB REMARK 900 HUNMAN COAGULATION FACTOR XA COMPLEXD WITH M55113 REMARK 900 RELATED ID: 1IQL RELATED DB: PDB REMARK 900 HUNMAN COAGULATION FACTOR XA COMPLEXD WITH M54476 REMARK 900 RELATED ID: 1IQM RELATED DB: PDB REMARK 900 HUNMAN COAGULATION FACTOR XA COMPLEXD WITH M54471 REMARK 900 RELATED ID: 1IQN RELATED DB: PDB REMARK 900 HUMAN COAGULATION FACTOR XA COMPLEXD WITH M55192 REMARK 900 RELATED ID: 1KSN RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN COAGULATION FACTOR XA COMPLEXEDWITH REMARK 900 FXV673 REMARK 900 RELATED ID: 1KYE RELATED DB: PDB REMARK 900 FACTOR XA IN COMPLEX WITH (R)-2-(3- ADAMANTAN-1-YL-UREIDO)-3-(3- REMARK 900 CARBAMIMIDOYL- PHENYL)-N-PHENETHYL-PROPIONAMIDE REMARK 900 RELATED ID: 1LPG RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF FXA IN COMPLEX WITH 79. REMARK 900 RELATED ID: 1LPK RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF FXA IN COMPLEX WITH 125. REMARK 900 RELATED ID: 1LPZ RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF FXA IN COMPLEX WITH 41. REMARK 900 RELATED ID: 1LQD RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF FXA IN COMPLEX WITH 45. REMARK 900 RELATED ID: 1MQ5 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF 3-CHLORO-N-[4-CHLORO -2-[[(4-CHLOROPHENYL) REMARK 900 AMINO]CARBONYL]PHENYL]- 4-[(4-METHYL-1-PIPERAZINYL)METHYL]-2- REMARK 900 THIOPHENECARBOXAMIDE COMPLEXED WITHHUMAN FACTOR XA REMARK 900 RELATED ID: 1MQ6 RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF 3-CHLORO-N-[4-CHLORO -2-[[(5-CHLORO-2- REMARK 900 PYRIDINYL)AMINO]CARBONYL] -6-METHOXYPHENYL]-4-[[(4,5-DIHYDRO-2- REMARK 900 OXAZOLYL)METHYLAMINO]METHYL]-2- THIOPHENECARBOXAMIDE COMPLEXED WITH REMARK 900 HUMAN FACTOR XA REMARK 900 RELATED ID: 1MSX RELATED DB: PDB REMARK 900 HUMAN FACTOR XA COMPLEXED WITH 2-[3-(15N- AMINO-15N-IMINO-13C- REMARK 900 METHYL)PHENOXY]-6-[3 -(15N-AMINO-13C-METHYL)PHENOXY]-3,5- DIFLUORO- REMARK 900 4-METHYLPYRIDINE (ZK-806299), BINDING MODELFROM DOUBLE REDOR NMR REMARK 900 AND MD SIMULATIONS. REMARK 900 RELATED ID: 1NFU RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN COAGULATION FACTOR XA COMPLEXEDWITH REMARK 900 RPR132747 REMARK 900 RELATED ID: 1NFW RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN COAGULATION FACTOR XA COMPLEXEDWITH REMARK 900 RPR209685 REMARK 900 RELATED ID: 1NFX RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN COAGULATION FACTOR XA COMPLEXEDWITH REMARK 900 RPR208944 REMARK 900 RELATED ID: 1NFY RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF HUMAN COAGULATION FACTOR XA COMPLEXEDWITH REMARK 900 RPR200095 REMARK 900 RELATED ID: 1NL8 RELATED DB: PDB REMARK 900 THEORETICAL MODEL OF THE TISSUE FACTOR/ FACTOR VIIA/FACTORXA COMPLEX REMARK 900 RELATED ID: 1P0S RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF BLOOD COAGULATION FACTOR XA IN COMPLEXWITH REMARK 900 ECOTIN M84R REMARK 900 RELATED ID: 1V3X RELATED DB: PDB REMARK 900 FACTOR XA IN COMPLEX WITH THE INHIBITOR 1 -[6-METHYL-4,5,6,7- REMARK 900 TETRAHYDROTHIAZOLO(5, 4-C)PYRIDIN-2-YL] CARBONYL-2-CARBAMOYL-4 -(6- REMARK 900 CHLORONAPHTH-2-YLSULPHONYL)PIPERAZINE REMARK 900 RELATED ID: 1XKA RELATED DB: PDB REMARK 900 FACTOR XA COMPLEXED WITH A SYNTHETIC INHIBITOR FX-2212A,(2S) -(3'- REMARK 900 AMIDINO-3- BIPHENYLYL)-5-(4-PYRIDYLAMINO)PENTANOIC ACID REMARK 900 RELATED ID: 1XKB RELATED DB: PDB REMARK 900 FACTOR XA COMPLEXED WITH A SYNTHETIC INHIBITOR FX-2212A,(2S) -(3'- REMARK 900 AMIDINO-3- BIPHENYLYL)-5-(4-PYRIDYLAMINO)PENTANOIC ACID REMARK 900 RELATED ID: 2BMG RELATED DB: PDB REMARK 900 CRYSTAL STRUCTURE OF FACTOR XA IN COMPLEX WITH 50 DBREF 2BOH A -83 51 UNP P00742 FA10_HUMAN 126 234 DBREF 2BOH B 16 264 UNP P00742 FA10_HUMAN 235 488 SEQRES 1 A 134 GLU GLU MET LYS LYS GLY HIS LEU GLU ARG GLU CYS MET SEQRES 2 A 134 GLU GLU THR CYS SER TYR GLU GLU ALA ARG GLU VAL PHE SEQRES 3 A 134 GLU ASP SER ASP LYS THR ASN GLU PHE TRP ASN LYS TYR SEQRES 4 A 134 LYS ASP GLY ASP GLN CYS GLU THR SER PRO CYS GLN ASN SEQRES 5 A 134 GLN GLY LYS CYS LYS ASP GLY LEU GLY GLU TYR THR CYS SEQRES 6 A 134 THR CYS LEU GLU GLY PHE GLU GLY LYS ASN CYS GLU LEU SEQRES 7 A 134 PHE THR ARG LYS LEU CYS SER LEU ASP ASN GLY ASP CYS SEQRES 8 A 134 ASP GLN PHE CYS HIS GLU GLU GLN ASN SER VAL VAL CYS SEQRES 9 A 134 SER CYS ALA ARG GLY TYR THR LEU ALA ASP ASN GLY LYS SEQRES 10 A 134 ALA CYS ILE PRO THR GLY PRO TYR PRO CYS GLY LYS GLN SEQRES 11 A 134 THR LEU GLU ARG SEQRES 1 B 254 ILE VAL GLY GLY GLN GLU CYS LYS ASP GLY GLU CYS PRO SEQRES 2 B 254 TRP GLN ALA LEU LEU ILE ASN GLU GLU ASN GLU GLY PHE SEQRES 3 B 254 CYS GLY GLY THR ILE LEU SER GLU PHE TYR ILE LEU THR SEQRES 4 B 254 ALA ALA HIS CYS LEU TYR GLN ALA LYS ARG PHE LYS VAL SEQRES 5 B 254 ARG VAL GLY ASP ARG ASN THR GLU GLN GLU GLU GLY GLY SEQRES 6 B 254 GLU ALA VAL HIS GLU VAL GLU VAL VAL ILE LYS HIS ASN SEQRES 7 B 254 ARG PHE THR LYS GLU THR TYR ASP PHE ASP ILE ALA VAL SEQRES 8 B 254 LEU ARG LEU LYS THR PRO ILE THR PHE ARG MET ASN VAL SEQRES 9 B 254 ALA PRO ALA CYS LEU PRO GLU ARG ASP TRP ALA GLU SER SEQRES 10 B 254 THR LEU MET THR GLN LYS THR GLY ILE VAL SER GLY PHE SEQRES 11 B 254 GLY ARG THR HIS GLU LYS GLY ARG GLN SER THR ARG LEU SEQRES 12 B 254 LYS MET LEU GLU VAL PRO TYR VAL ASP ARG ASN SER CYS SEQRES 13 B 254 LYS LEU SER SER SER PHE ILE ILE THR GLN ASN MET PHE SEQRES 14 B 254 CYS ALA GLY TYR ASP THR LYS GLN GLU ASP ALA CYS GLN SEQRES 15 B 254 GLY ASP SER GLY GLY PRO HIS VAL THR ARG PHE LYS ASP SEQRES 16 B 254 THR TYR PHE VAL THR GLY ILE VAL SER TRP GLY GLU GLY SEQRES 17 B 254 CYS ALA ARG LYS GLY LYS TYR GLY ILE TYR THR LYS VAL SEQRES 18 B 254 THR ALA PHE LEU LYS TRP ILE ASP ARG SER MET LYS THR SEQRES 19 B 254 ARG GLY LEU PRO LYS ALA LYS SER HIS ALA PRO GLU VAL SEQRES 20 B 254 ILE THR SER SER PRO LEU LYS HET CA A 500 1 HET IIA B 1 33 HETNAM CA CALCIUM ION HETNAM IIA 1-{[5-(5-CHLORO-2-THIENYL)ISOXAZOL-3-YL]METHYL}-N-(1- HETNAM 2 IIA ISOPROPYLPIPERIDIN-4-YL)-1H-INDOLE-2-CARBOXAMIDE FORMUL 3 CA CA 2+ FORMUL 4 IIA C25 H27 CL N4 O2 S FORMUL 5 HOH *221(H2 O) HELIX 1 1 LEU A 3 CYS A 8 5 6 HELIX 2 2 ALA B 55 GLN B 61 5 7 HELIX 3 3 GLU B 124A LEU B 131A 1 9 HELIX 4 4 ASP B 164 SER B 172 1 9 HELIX 5 5 PHE B 234 THR B 244 1 11 SHEET 1 AA 2 PHE A 11 GLU A 14 0 SHEET 2 AA 2 VAL A 19 SER A 22 -1 O VAL A 20 N HIS A 13 SHEET 1 AB 2 TYR A 27 LEU A 29 0 SHEET 2 AB 2 CYS A 36 PRO A 38 -1 O ILE A 37 N THR A 28 SHEET 1 BA 7 GLN B 20 GLU B 21 0 SHEET 2 BA 7 LYS B 156 PRO B 161 -1 O MET B 157 N GLN B 20 SHEET 3 BA 7 THR B 135 GLY B 140 -1 O GLY B 136 N VAL B 160 SHEET 4 BA 7 PRO B 198 PHE B 203 -1 O PRO B 198 N SER B 139 SHEET 5 BA 7 THR B 206 TRP B 215 -1 O THR B 206 N PHE B 203 SHEET 6 BA 7 GLY B 226 LYS B 230 -1 O ILE B 227 N TRP B 215 SHEET 7 BA 7 MET B 180 ALA B 183 -1 O PHE B 181 N TYR B 228 SHEET 1 BB 7 GLN B 30 ASN B 35 0 SHEET 2 BB 7 GLY B 40 ILE B 46 -1 N PHE B 41 O LEU B 33 SHEET 3 BB 7 TYR B 51 THR B 54 -1 O LEU B 53 N THR B 45 SHEET 4 BB 7 ALA B 104 LEU B 108 -1 O ALA B 104 N THR B 54 SHEET 5 BB 7 ALA B 81 LYS B 90 -1 N GLU B 86 O ARG B 107 SHEET 6 BB 7 PHE B 64 VAL B 68 -1 O PHE B 64 N VAL B 85 SHEET 7 BB 7 GLN B 30 ASN B 35 -1 O LEU B 32 N ARG B 67 SSBOND 1 CYS A 1 CYS A 12 1555 1555 2.04 SSBOND 2 CYS A 8 CYS A 21 1555 1555 2.03 SSBOND 3 CYS A 23 CYS A 36 1555 1555 2.03 SSBOND 4 CYS A 44 CYS B 122 1555 1555 2.03 SSBOND 5 CYS B 22 CYS B 27 1555 1555 2.04 SSBOND 6 CYS B 42 CYS B 58 1555 1555 2.03 SSBOND 7 CYS B 168 CYS B 182 1555 1555 2.02 SSBOND 8 CYS B 191 CYS B 220 1555 1555 2.02 LINK CA CA A 500 OD1 ASP B 70 1555 1555 2.56 LINK CA CA A 500 O ASN B 72 1555 1555 2.70 LINK CA CA A 500 O GLN B 75 1555 1555 2.53 LINK CA CA A 500 OE2 GLU B 80 1555 1555 2.61 LINK CA CA A 500 O HOH B2045 1555 1555 2.88 LINK CA CA A 500 O HOH B2046 1555 1555 2.91 SITE 1 AC1 6 ASP B 70 ASN B 72 GLN B 75 GLU B 80 SITE 2 AC1 6 HOH B2045 HOH B2046 SITE 1 AC2 16 THR B 98 TYR B 99 GLU B 147 PHE B 174 SITE 2 AC2 16 ASP B 189 ALA B 190 GLN B 192 SER B 195 SITE 3 AC2 16 VAL B 213 TRP B 215 GLY B 216 GLY B 219 SITE 4 AC2 16 GLY B 226 ILE B 227 TYR B 228 HOH B2103 CRYST1 56.100 72.200 79.200 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 0.017825 0.000000 0.000000 0.00000 SCALE2 0.000000 0.013850 0.000000 0.00000 SCALE3 0.000000 0.000000 0.012626 0.00000