PDB Short entry for 1FPH HEADER HYDROLASE/HYDROLASE INHIBITOR 21-APR-93 1FPH TITLE THE INTERACTION OF THROMBIN WITH FIBRINOGEN: A STRUCTURAL BASIS FOR TITLE 2 ITS SPECIFICITY CAVEAT 1FPH THE OG SER H - CF AR7 F BOND IS OUTSIDE ACCEPTED RANGE COMPND MOL_ID: 1; COMPND 2 MOLECULE: ALPHA-THROMBIN (SMALL SUBUNIT); COMPND 3 CHAIN: L; COMPND 4 EC: 3.4.21.5; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: ALPHA-THROMBIN (LARGE SUBUNIT); COMPND 7 CHAIN: H; COMPND 8 EC: 3.4.21.5; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: HIRUDIN; COMPND 11 CHAIN: I; COMPND 12 ENGINEERED: YES; COMPND 13 MOL_ID: 4; COMPND 14 MOLECULE: FIBRINOPEPTIDE A; COMPND 15 CHAIN: F; COMPND 16 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 MOL_ID: 2; SOURCE 6 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 7 ORGANISM_COMMON: HUMAN; SOURCE 8 ORGANISM_TAXID: 9606; SOURCE 9 MOL_ID: 3; SOURCE 10 SYNTHETIC: YES; SOURCE 11 MOL_ID: 4; SOURCE 12 SYNTHETIC: YES KEYWDS HYDROLASE, SERINE PROTEINASE, HYDROLASE-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR M.T.STUBBS,W.BODE REVDAT 4 13-JUL-11 1FPH 1 VERSN REVDAT 3 24-FEB-09 1FPH 1 VERSN REVDAT 2 01-APR-03 1FPH 1 JRNL REVDAT 1 31-JAN-94 1FPH 0 JRNL AUTH M.T.STUBBS,H.OSCHKINAT,I.MAYR,R.HUBER,H.ANGLIKER,S.R.STONE, JRNL AUTH 2 W.BODE JRNL TITL THE INTERACTION OF THROMBIN WITH FIBRINOGEN. A STRUCTURAL JRNL TITL 2 BASIS FOR ITS SPECIFICITY. JRNL REF EUR.J.BIOCHEM. V. 206 187 1992 JRNL REFN ISSN 0014-2956 JRNL PMID 1587268 JRNL DOI 10.1111/J.1432-1033.1992.TB16916.X REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH M.T.STUBBS,W.BODE REMARK 1 TITL A PLAYER OF MANY PARTS: THE SPOTLIGHT FALLS ON THROMBIN'S REMARK 1 TITL 2 STRUCTURE REMARK 1 REF THROMB.RES. V. 69 1 1993 REMARK 1 REFN ISSN 0049-3848 REMARK 1 REFERENCE 2 REMARK 1 AUTH W.BODE,D.TURK,A.KARSHIKOV REMARK 1 TITL THE REFINED 1.9 ANGSTROMS X-RAY CRYSTAL STRUCTURE OF REMARK 1 TITL 2 D-PHE-PRO-ARG CHLOROMETHYLKETONE-INHIBITED HUMAN REMARK 1 TITL 3 ALPHA-THROMBIN: STRUCTURE ANALYSIS, OVERALL STRUCTURE, REMARK 1 TITL 4 ELECTROSTATIC PROPERTIES, DETAILED ACTIVE-SITE GEOMETRY, AND REMARK 1 TITL 5 STRUCTURE-FUNCTION RELATIONSHIPS REMARK 1 REF PROTEIN SCI. V. 1 426 1992 REMARK 1 REFN ISSN 0961-8368 REMARK 1 REFERENCE 3 REMARK 1 AUTH T.J.RYDEL,A.TULINSKY,W.BODE,R.HUBER REMARK 1 TITL REFINED STRUCTURE OF THE HIRUDIN-THROMBIN COMPLEX REMARK 1 REF J.MOL.BIOL. V. 221 583 1991 REMARK 1 REFN ISSN 0022-2836 REMARK 2 REMARK 2 RESOLUTION. 2.50 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : EREF REMARK 3 AUTHORS : JACK,LEVITT REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.50 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : NULL REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL 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 : NULL 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) : 0.166 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 : 2559 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 0 REMARK 3 SOLVENT ATOMS : 168 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) : NULL REMARK 3 BOND ANGLES (DEGREES) : NULL 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 1FPH COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. 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 <I/SIGMA(I)> 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 <I/SIGMA(I)> 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 (%): 66.83 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 3.71 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: P 43 21 2 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,-Y,Z+1/2 REMARK 290 3555 -Y+1/2,X+1/2,Z+3/4 REMARK 290 4555 Y+1/2,-X+1/2,Z+1/4 REMARK 290 5555 -X+1/2,Y+1/2,-Z+3/4 REMARK 290 6555 X+1/2,-Y+1/2,-Z+1/4 REMARK 290 7555 Y,X,-Z REMARK 290 8555 -Y,-X,-Z+1/2 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 66.17000 REMARK 290 SMTRY1 3 0.000000 -1.000000 0.000000 45.17000 REMARK 290 SMTRY2 3 1.000000 0.000000 0.000000 45.17000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 99.25500 REMARK 290 SMTRY1 4 0.000000 1.000000 0.000000 45.17000 REMARK 290 SMTRY2 4 -1.000000 0.000000 0.000000 45.17000 REMARK 290 SMTRY3 4 0.000000 0.000000 1.000000 33.08500 REMARK 290 SMTRY1 5 -1.000000 0.000000 0.000000 45.17000 REMARK 290 SMTRY2 5 0.000000 1.000000 0.000000 45.17000 REMARK 290 SMTRY3 5 0.000000 0.000000 -1.000000 99.25500 REMARK 290 SMTRY1 6 1.000000 0.000000 0.000000 45.17000 REMARK 290 SMTRY2 6 0.000000 -1.000000 0.000000 45.17000 REMARK 290 SMTRY3 6 0.000000 0.000000 -1.000000 33.08500 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 66.17000 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: TETRAMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 5390 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 14410 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -20.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: L, H, F, I 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 THE FIBRINOPEPTIDE A CONTAINS A C-TERMINAL CHLOROMETHYLKETONE GROUP REMARK 400 TO FORM COVALENT BONDS WITH THE ACTIVE-SITE RESIDUES OF THROMBIN. REMARK 400 IT IS COVALENTLY CONNECTED TO THROMBIN 1) VIA RESIDUE AR7 TO OG SER REMARK 400 H 195 FORMING A HEMIKETAL AND 2) VIA A METHYLENE GROUP OF 0QE TO REMARK 400 NE2 HIS H 57. 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 C AR7 F 16 C1 0QE F 17 1.51 REMARK 500 OG SER H 195 C AR7 F 16 1.84 REMARK 500 OG SER H 195 C1 0QE F 17 2.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS THAT ARE RELATED BY CRYSTALLOGRAPHIC REMARK 500 SYMMETRY ARE IN CLOSE CONTACT. AN ATOM LOCATED WITHIN 0.15 REMARK 500 ANGSTROMS OF A SYMMETRY RELATED ATOM IS ASSUMED TO BE ON A REMARK 500 SPECIAL POSITION AND IS, THEREFORE, LISTED IN REMARK 375 REMARK 500 INSTEAD OF REMARK 500. ATOMS WITH NON-BLANK ALTERNATE REMARK 500 LOCATION INDICATORS ARE NOT INCLUDED IN THE CALCULATIONS. REMARK 500 REMARK 500 DISTANCE CUTOFF: REMARK 500 2.2 ANGSTROMS FOR CONTACTS NOT INVOLVING HYDROGEN ATOMS REMARK 500 1.6 ANGSTROMS FOR CONTACTS INVOLVING HYDROGEN ATOMS REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI SSYMOP DISTANCE REMARK 500 O GLY L 1F ND2 ASN H 149B 6565 0.69 REMARK 500 O HOH L 534 O HOH H 460 3654 0.85 REMARK 500 O GLY L 1F CG ASN H 149B 6565 1.40 REMARK 500 C GLY L 1F ND2 ASN H 149B 6565 1.42 REMARK 500 O GLY L 1F CB ASN H 149B 6565 2.06 REMARK 500 N SER L 1E ND2 ASN H 149B 6565 2.06 REMARK 500 CE1 PHE L 1G CZ PHE L 1G 7555 2.16 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 TRP H 29 NE1 TRP H 29 CE2 -0.092 REMARK 500 TRP H 51 NE1 TRP H 51 CE2 -0.098 REMARK 500 TRP H 60D NE1 TRP H 60D CE2 -0.093 REMARK 500 TRP H 96 NE1 TRP H 96 CE2 -0.103 REMARK 500 TRP H 141 NE1 TRP H 141 CE2 -0.090 REMARK 500 TRP H 148 NE1 TRP H 148 CE2 -0.101 REMARK 500 TRP H 207 NE1 TRP H 207 CE2 -0.088 REMARK 500 TRP H 215 NE1 TRP H 215 CE2 -0.097 REMARK 500 TRP H 237 NE1 TRP H 237 CE2 -0.093 REMARK 500 REMARK 500 REMARK: NULL 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 ARG L 4 N - CA - CB ANGL. DEV. = -13.2 DEGREES REMARK 500 ARG H 35 NE - CZ - NH1 ANGL. DEV. = -3.6 DEGREES REMARK 500 ARG H 50 NE - CZ - NH1 ANGL. DEV. = 4.3 DEGREES REMARK 500 ARG H 50 NE - CZ - NH2 ANGL. DEV. = -3.6 DEGREES REMARK 500 ARG H 67 NE - CZ - NH1 ANGL. DEV. = 4.4 DEGREES REMARK 500 ARG H 101 NE - CZ - NH2 ANGL. DEV. = -3.2 DEGREES REMARK 500 ARG H 137 NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 CYS H 182 CA - CB - SG ANGL. DEV. = 8.5 DEGREES REMARK 500 ARG H 221 CD - NE - CZ ANGL. DEV. = -10.4 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 GLU L 1C 135.60 55.37 REMARK 500 ALA L 1B 107.63 73.11 REMARK 500 PHE L 7 -92.71 -119.66 REMARK 500 ASP L 14L 101.62 72.58 REMARK 500 GLU H 18 30.90 70.81 REMARK 500 GLN H 38 103.38 -55.87 REMARK 500 CYS H 42 -176.48 -172.59 REMARK 500 ARG H 77A -33.92 -33.66 REMARK 500 ASP H 102 71.69 -67.43 REMARK 500 VAL H 149C 67.82 -102.80 REMARK 500 SER H 214 -75.70 -114.43 REMARK 500 HIS H 230 91.39 -63.82 REMARK 500 PHE H 245 51.55 -95.37 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS REMARK 500 REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES. REMARK 500 MODEL OMEGA REMARK 500 GLU I 58 ILE I 59 148.18 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: MAIN CHAIN PLANARITY REMARK 500 REMARK 500 THE FOLLOWING RESIDUES HAVE A PSEUDO PLANARITY REMARK 500 TORSION ANGLE, C(I) - CA(I) - N(I+1) - O(I), GREATER REMARK 500 10.0 DEGREES. (M=MODEL NUMBER; RES=RESIDUE NAME; REMARK 500 C=CHAIN IDENTIFIER; SSEQ=SEQUENCE NUMBER; REMARK 500 I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI ANGLE REMARK 500 GLY L 1F -10.84 REMARK 500 ALA H 55 11.37 REMARK 500 PRO H 124 -11.10 REMARK 500 VAL H 157 -11.65 REMARK 500 MET H 180 -14.01 REMARK 500 ARG H 187 -11.40 REMARK 500 ARG H 206 -11.52 REMARK 500 ILE H 238 -10.24 REMARK 500 GLY H 246 11.92 REMARK 500 GLU I 58 -15.80 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CHIRAL CENTERS REMARK 500 REMARK 500 UNEXPECTED CONFIGURATION OF THE FOLLOWING CHIRAL REMARK 500 CENTER(S) USING IMPROPER CA--C--CB--N CHIRALITY REMARK 500 FOR AMINO ACIDS AND C1'--O4'--N1(N9)--C2' FOR REMARK 500 NUCLEIC ACIDS OR EQUIVALENT ANGLE REMARK 500 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,A1,6X,F5.1,6X,A1,10X,A1,3X,A16) REMARK 500 REMARK 500 M RES CSSEQI IMPROPER EXPECTED FOUND DETAILS REMARK 500 LEU H 41 11.5 L L OUTSIDE RANGE REMARK 500 ARG H 75 16.8 L L OUTSIDE RANGE REMARK 500 GLU H 186B 24.7 L L OUTSIDE RANGE REMARK 500 VAL H 241 24.7 L L OUTSIDE RANGE REMARK 500 ASP F 7 21.8 L L OUTSIDE RANGE REMARK 500 REMARK 500 REMARK: NULL REMARK 525 REMARK 525 SOLVENT REMARK 525 REMARK 525 THE SOLVENT MOLECULES HAVE CHAIN IDENTIFIERS THAT REMARK 525 INDICATE THE POLYMER CHAIN WITH WHICH THEY ARE MOST REMARK 525 CLOSELY ASSOCIATED. THE REMARK LISTS ALL THE SOLVENT REMARK 525 MOLECULES WHICH ARE MORE THAN 5A AWAY FROM THE REMARK 525 NEAREST POLYMER CHAIN (M = MODEL NUMBER; REMARK 525 RES=RESIDUE NAME; C=CHAIN IDENTIFIER; SSEQ=SEQUENCE REMARK 525 NUMBER; I=INSERTION CODE): REMARK 525 REMARK 525 M RES CSSEQI REMARK 525 HOH H 312 DISTANCE = 5.70 ANGSTROMS REMARK 525 HOH H 459 DISTANCE = 6.01 ANGSTROMS REMARK 525 HOH H 469 DISTANCE = 6.13 ANGSTROMS REMARK 525 HOH H 471 DISTANCE = 5.21 ANGSTROMS REMARK 525 HOH H 502 DISTANCE = 5.49 ANGSTROMS REMARK 525 HOH H 515 DISTANCE = 5.35 ANGSTROMS REMARK 525 HOH H 535 DISTANCE = 6.79 ANGSTROMS REMARK 525 HOH L 468 DISTANCE = 5.30 ANGSTROMS REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR CHAIN I OF HIRUDIN REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR CHAIN F OF FIBRINOPEPTIDE A REMARK 999 REMARK 999 SEQUENCE REMARK 999 THROMBIN IS CLEAVED BETWEEN RESIDUES 15 AND 16. CHAIN REMARK 999 INDICATOR *L* IS USED FOR RESIDUES 1H - 15 AND CHAIN REMARK 999 INDICATOR *H* IS USED FOR RESIDUES 16 - 247. CHAIN REMARK 999 INDICATOR *I* IS USED FOR HIRUDIN. CHAIN INDICATOR *F* REMARK 999 IS USED FOR FIBRINOPEPTIDE A. DBREF 1FPH L 1H 15 UNP P00734 THRB_HUMAN 328 363 DBREF 1FPH H 16 247 UNP P00734 THRB_HUMAN 364 622 DBREF 1FPH I 54 65 PDB 1FPH 1FPH 1 12 DBREF 1FPH F 6 17 PDB 1FPH 1FPH 1 12 SEQRES 1 L 36 THR PHE GLY SER GLY GLU ALA ASP CYS GLY LEU ARG PRO SEQRES 2 L 36 LEU PHE GLU LYS LYS SER LEU GLU ASP LYS THR GLU ARG SEQRES 3 L 36 GLU LEU LEU GLU SER TYR ILE ASP GLY ARG SEQRES 1 H 259 ILE VAL GLU GLY SER ASP ALA GLU ILE GLY MET SER PRO SEQRES 2 H 259 TRP GLN VAL MET LEU PHE ARG LYS SER PRO GLN GLU LEU SEQRES 3 H 259 LEU CYS GLY ALA SER LEU ILE SER ASP ARG TRP VAL LEU SEQRES 4 H 259 THR ALA ALA HIS CYS LEU LEU TYR PRO PRO TRP ASP LYS SEQRES 5 H 259 ASN PHE THR GLU ASN ASP LEU LEU VAL ARG ILE GLY LYS SEQRES 6 H 259 HIS SER ARG THR ARG TYR GLU ARG ASN ILE GLU LYS ILE SEQRES 7 H 259 SER MET LEU GLU LYS ILE TYR ILE HIS PRO ARG TYR ASN SEQRES 8 H 259 TRP ARG GLU ASN LEU ASP ARG ASP ILE ALA LEU MET LYS SEQRES 9 H 259 LEU LYS LYS PRO VAL ALA PHE SER ASP TYR ILE HIS PRO SEQRES 10 H 259 VAL CYS LEU PRO ASP ARG GLU THR ALA ALA SER LEU LEU SEQRES 11 H 259 GLN ALA GLY TYR LYS GLY ARG VAL THR GLY TRP GLY ASN SEQRES 12 H 259 LEU LYS GLU THR TRP THR ALA ASN VAL GLY LYS GLY GLN SEQRES 13 H 259 PRO SER VAL LEU GLN VAL VAL ASN LEU PRO ILE VAL GLU SEQRES 14 H 259 ARG PRO VAL CYS LYS ASP SER THR ARG ILE ARG ILE THR SEQRES 15 H 259 ASP ASN MET PHE CYS ALA GLY TYR LYS PRO ASP GLU GLY SEQRES 16 H 259 LYS ARG GLY ASP ALA CYS GLU GLY ASP SER GLY GLY PRO SEQRES 17 H 259 PHE VAL MET LYS SER PRO PHE ASN ASN ARG TRP TYR GLN SEQRES 18 H 259 MET GLY ILE VAL SER TRP GLY GLU GLY CYS ASP ARG ASP SEQRES 19 H 259 GLY LYS TYR GLY PHE TYR THR HIS VAL PHE ARG LEU LYS SEQRES 20 H 259 LYS TRP ILE GLN LYS VAL ILE ASP GLN PHE GLY GLU SEQRES 1 I 12 GLY ASP PHE GLU GLU ILE PRO GLU GLU TYR LEU GLN SEQRES 1 F 12 ACE ASP PHE LEU ALA GLU GLY GLY GLY VAL AR7 0QE MODRES 1FPH AR7 F 16 ARG HET ACE F 6 3 HET AR7 F 16 11 HET 0QE F 17 1 HETNAM ACE ACETYL GROUP HETNAM AR7 AMINO{[(4S)-4-AMINO-5,5- HETNAM 2 AR7 DIHYDROXYPENTYL]AMINO}METHANIMINIUM HETNAM 0QE CHLOROMETHANE HETSYN 0QE CHLORO METHYL GROUP FORMUL 4 ACE C2 H4 O FORMUL 4 AR7 C6 H17 N4 O2 1+ FORMUL 4 0QE C H3 CL FORMUL 5 HOH *168(H2 O) HELIX 1 1 GLU L 14C SER L 14I 13.6/13 7 SHEET 1 A 7 SER H 20 ASP H 21 0 SHEET 2 A 7 GLN H 156 PRO H 161 -1 N VAL H 157 O SER H 20 SHEET 3 A 7 LYS H 135 GLY H 140 -1 N GLY H 136 O LEU H 160 SHEET 4 A 7 PRO H 198 LYS H 202 -1 O PRO H 198 N THR H 139 SHEET 5 A 7 TRP H 207 GLY H 216 -1 N TYR H 208 O MET H 201 SHEET 6 A 7 GLY H 226 THR H 229 -1 N PHE H 227 O TRP H 215 SHEET 7 A 7 MET H 180 ALA H 183 -1 O PHE H 181 N TYR H 228 SHEET 1 B 6 SER H 20 ASP H 21 0 SHEET 2 B 6 GLN H 156 PRO H 161 -1 N VAL H 157 O SER H 20 SHEET 3 B 6 LYS H 135 GLY H 140 -1 N GLY H 136 O LEU H 160 SHEET 4 B 6 PRO H 198 LYS H 202 -1 O PRO H 198 N THR H 139 SHEET 5 B 6 TRP H 207 GLY H 216 -1 N TYR H 208 O MET H 201 SHEET 6 B 6 GLY F 14 VAL F 15 -1 O GLY F 14 N GLY H 216 SHEET 1 C 7 LYS H 81 SER H 83 0 SHEET 2 C 7 LEU H 64 ILE H 68 -1 O VAL H 66 N SER H 83 SHEET 3 C 7 GLN H 30 ARG H 35 -1 N MET H 32 O ARG H 67 SHEET 4 C 7 GLU H 39 LEU H 46 -1 O GLU H 39 N ARG H 35 SHEET 5 C 7 TRP H 51 THR H 54 -1 N LEU H 53 O SER H 45 SHEET 6 C 7 ALA H 104 LEU H 108 -1 O ALA H 104 N THR H 54 SHEET 7 C 7 LEU H 85 ILE H 90 -1 N GLU H 86 O LYS H 107 SSBOND 1 CYS L 1 CYS H 122 1555 1555 2.04 SSBOND 2 CYS H 42 CYS H 58 1555 1555 2.07 SSBOND 3 CYS H 168 CYS H 182 1555 1555 2.03 SSBOND 4 CYS H 191 CYS H 220 1555 1555 2.06 LINK C ACE F 6 N ASP F 7 1555 1555 1.32 LINK NE2 HIS H 57 C1 0QE F 17 1555 1555 1.39 CISPEP 1 SER H 37 PRO H 37A 0 -11.24 SITE 1 AC1 25 PHE H 34 LYS H 36 LEU H 40 LEU H 65 SITE 2 AC1 25 ARG H 73 THR H 74 ARG H 75 TYR H 76 SITE 3 AC1 25 ARG H 77A ARG H 93 ARG H 101 LYS H 149E SITE 4 AC1 25 SER H 153 LYS H 236 TRP H 237 GLN H 239 SITE 5 AC1 25 LYS H 240 HOH H 389 HOH H 475 HOH H 482 SITE 6 AC1 25 HOH H 485 HOH H 536 HOH I 387 HOH I 392 SITE 7 AC1 25 HOH I 399 SITE 1 AC2 19 HIS H 57 TYR H 60A PRO H 60C TRP H 60D SITE 2 AC2 19 ARG H 97 GLU H 97A LEU H 99 ARG H 173 SITE 3 AC2 19 ILE H 174 ASP H 189 ALA H 190 CYS H 191 SITE 4 AC2 19 GLY H 193 SER H 195 SER H 214 TRP H 215 SITE 5 AC2 19 GLY H 216 GLU H 217 GLY H 219 CRYST1 90.340 90.340 132.340 90.00 90.00 90.00 P 43 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 0.011069 0.000000 0.000000 0.00000 SCALE2 0.000000 0.011069 0.000000 0.00000 SCALE3 0.000000 0.000000 0.007556 0.00000