HEADER HYDROLASE/HYDROLASE INHIBITOR 16-OCT-94 1FPC TITLE ACTIVE SITE MIMETIC INHIBITION OF THROMBIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: THROMBIN; COMPND 3 CHAIN: L; COMPND 4 SYNONYM: COAGULATION FACTOR II; COMPND 5 EC: 3.4.21.5; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: THROMBIN; COMPND 8 CHAIN: H; COMPND 9 SYNONYM: COAGULATION FACTOR II; COMPND 10 EC: 3.4.21.5; COMPND 11 MOL_ID: 3; COMPND 12 MOLECULE: HIRUDIN; COMPND 13 CHAIN: I; COMPND 14 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 ORGAN: BLOOD; SOURCE 6 TISSUE: BLOOD; SOURCE 7 MOL_ID: 2; SOURCE 8 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 9 ORGANISM_COMMON: HUMAN; SOURCE 10 ORGANISM_TAXID: 9606; SOURCE 11 ORGAN: BLOOD; SOURCE 12 TISSUE: BLOOD; SOURCE 13 MOL_ID: 3; SOURCE 14 ORGANISM_SCIENTIFIC: HIRUDO MEDICINALIS; SOURCE 15 ORGANISM_COMMON: MEDICINAL LEECH; SOURCE 16 ORGANISM_TAXID: 6421 KEYWDS SERINE PROTEASE-INHIBITOR COMPLEX, HYDROLASE-HYDROLASE INHIBITOR KEYWDS 2 COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR A.TULINSKY,I.I.MATHEWS REVDAT 5 30-OCT-24 1FPC 1 REMARK REVDAT 4 05-JUN-24 1FPC 1 REMARK SEQADV REVDAT 3 13-JUL-11 1FPC 1 VERSN REVDAT 2 24-FEB-09 1FPC 1 VERSN REVDAT 1 27-FEB-95 1FPC 0 JRNL AUTH I.I.MATHEWS,A.TULINSKY JRNL TITL ACTIVE-SITE MIMETIC INHIBITION OF THROMBIN. JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 51 550 1995 JRNL REFN ISSN 0907-4449 JRNL PMID 15299843 JRNL DOI 10.1107/S0907444994013132 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH T.-P.WU,V.YEE,A.TULINSKY,R.A.CHRUSCIEL,H.NAKANISHI,R.SHEN, REMARK 1 AUTH 2 C.PRIEBE,M.KAHN REMARK 1 TITL THE STRUCTURE OF A DESIGNED PEPTIDOMIMETIC INHIBITOR COMPLEX REMARK 1 TITL 2 OF ALPHA-THROMBIN REMARK 1 REF PROTEIN ENG. V. 6 471 1993 REMARK 1 REFN ISSN 0269-2139 REMARK 1 REFERENCE 2 REMARK 1 AUTH A.TULINSKY,X.QIU REMARK 1 TITL ACTIVE SITE AND EXOSITE BINDING OF ALPHA-THROMBIN REMARK 1 REF BLOOD COAGULATION V. 4 305 1993 REMARK 1 REF 2 FIBRINOLYSIS REMARK 1 REFN ISSN 0957-5235 REMARK 1 REFERENCE 3 REMARK 1 AUTH M.E.NESHEIM,F.G.PRENDERGAST,K.G.MANN REMARK 1 TITL INTERACTIONS OF A FLUORESCENT ACTIVE-SITE-DIRECTED INHIBITOR REMARK 1 TITL 2 OF THROMBIN: DANSYLARGININE N-(3-ETHYL-1,5-PENTANEDIYL)AMIDE REMARK 1 REF BIOCHEMISTRY V. 18 996 1979 REMARK 1 REFN ISSN 0006-2960 REMARK 2 REMARK 2 RESOLUTION. 2.30 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PROLSQ REMARK 3 AUTHORS : KONNERT,HENDRICKSON REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.30 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : NULL REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 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 + TEST SET) : 0.147 REMARK 3 R VALUE (WORKING SET) : NULL 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 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 TOTAL NUMBER OF REFLECTIONS (NO CUTOFF) : NULL REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2291 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 35 REMARK 3 SOLVENT ATOMS : 201 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 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 DISTANCE RESTRAINTS. RMS SIGMA REMARK 3 BOND LENGTH (A) : 0.200 ; NULL REMARK 3 ANGLE DISTANCE (A) : 5.700 ; NULL REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : NULL ; NULL REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : NULL ; NULL REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : NULL ; NULL REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : NULL ; NULL REMARK 3 MULTIPLE TORSION (A) : NULL ; NULL REMARK 3 H-BOND (X...Y) (A) : NULL ; NULL REMARK 3 H-BOND (X-H...Y) (A) : NULL ; NULL REMARK 3 REMARK 3 CONFORMATIONAL TORSION ANGLE RESTRAINTS. REMARK 3 SPECIFIED (DEGREES) : NULL ; NULL REMARK 3 PLANAR (DEGREES) : NULL ; NULL REMARK 3 STAGGERED (DEGREES) : NULL ; NULL REMARK 3 TRANSVERSE (DEGREES) : NULL ; 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 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1FPC 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_1000173362. 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 (%): 54.11 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.68 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: NULL REMARK 290 REMARK 290 CRYSTALLOGRAPHIC SYMMETRY REMARK 290 SYMMETRY OPERATORS FOR SPACE GROUP: C 1 2 1 REMARK 290 REMARK 290 SYMOP SYMMETRY REMARK 290 NNNMMM OPERATOR REMARK 290 1555 X,Y,Z REMARK 290 2555 -X,Y,-Z REMARK 290 3555 X+1/2,Y+1/2,Z 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 0.00000 REMARK 290 SMTRY2 2 0.000000 1.000000 0.000000 0.00000 REMARK 290 SMTRY3 2 0.000000 0.000000 -1.000000 0.00000 REMARK 290 SMTRY1 3 1.000000 0.000000 0.000000 36.05000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 36.30000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 36.05000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 36.30000 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: TRIMERIC REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TRIMERIC REMARK 350 SOFTWARE USED: PISA REMARK 350 TOTAL BURIED SURFACE AREA: 4940 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 12040 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -4.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: L, H, 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 375 REMARK 375 SPECIAL POSITION REMARK 375 THE FOLLOWING ATOMS ARE FOUND TO BE WITHIN 0.15 ANGSTROMS REMARK 375 OF A SYMMETRY RELATED ATOM AND ARE ASSUMED TO BE ON SPECIAL REMARK 375 POSITIONS. REMARK 375 REMARK 375 ATOM RES CSSEQI REMARK 375 HOH H 409 LIES ON A SPECIAL POSITION. REMARK 400 REMARK 400 COMPOUND REMARK 400 THROMBIN IS CLEAVED BETWEEN RESIDUES 15 AND 16. CHAIN REMARK 400 IDENTIFIER *L* IS USED FOR RESIDUES 1H - 15 AND CHAIN REMARK 400 IDENTIFIER *H* IS USED FOR RESIDUES 16 - 247. CHAIN REMARK 400 IDENTIFIER *I* IS USED FOR HIRUGEN, THE CARBOXYL TERMINUS REMARK 400 OF HIRUDIN, WHICH OCCUPIES THE EXOSITE. 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 THR L 1H REMARK 465 PHE L 1G REMARK 465 GLY L 1F REMARK 465 SER L 1E REMARK 465 GLY L 1D REMARK 465 GLU L 1C REMARK 465 ALA L 1B REMARK 465 ASP L 14L REMARK 465 GLY L 14M REMARK 465 ARG L 14N REMARK 465 THR H 146A REMARK 465 TRP H 146B REMARK 465 THR H 146C REMARK 465 ALA H 146D REMARK 465 ASN H 146E REMARK 465 VAL H 146F REMARK 465 GLY H 146G REMARK 465 LYS H 146H REMARK 465 PHE H 245 REMARK 465 GLY H 246 REMARK 465 GLU H 247 REMARK 465 ASN I 53 REMARK 465 GLY I 54 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 L 14D CD NE CZ NH1 NH2 REMARK 470 LYS H 110 CG CD CE NZ REMARK 470 LYS H 145 CG CD CE NZ REMARK 470 LYS H 240 CD CE NZ REMARK 470 ASP H 243 CG OD1 OD2 REMARK 470 GLU I 61 CB CG CD OE1 OE2 REMARK 470 GLU I 62 CG CD OE1 OE2 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 NH1 ARG H 50 OE1 GLU H 86 2.13 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 CD - NE - CZ ANGL. DEV. = 8.5 DEGREES REMARK 500 ASP H 21 CB - CG - OD1 ANGL. DEV. = 5.7 DEGREES REMARK 500 ALA H 22 N - CA - CB ANGL. DEV. = -8.7 DEGREES REMARK 500 ARG H 35 NH1 - CZ - NH2 ANGL. DEV. = 7.1 DEGREES REMARK 500 ARG H 35 NE - CZ - NH2 ANGL. DEV. = -7.5 DEGREES REMARK 500 CYS H 42 CA - CB - SG ANGL. DEV. = 8.9 DEGREES REMARK 500 ASP H 49 CB - CG - OD2 ANGL. DEV. = 7.3 DEGREES REMARK 500 ARG H 50 NE - CZ - NH1 ANGL. DEV. = 6.0 DEGREES REMARK 500 TYR H 60A CB - CG - CD2 ANGL. DEV. = 5.2 DEGREES REMARK 500 TYR H 60A CB - CG - CD1 ANGL. DEV. = -7.7 DEGREES REMARK 500 ARG H 67 NE - CZ - NH2 ANGL. DEV. = 5.5 DEGREES REMARK 500 ARG H 73 NE - CZ - NH2 ANGL. DEV. = 3.4 DEGREES REMARK 500 THR H 74 N - CA - CB ANGL. DEV. = -12.6 DEGREES REMARK 500 ARG H 77A N - CA - CB ANGL. DEV. = 12.4 DEGREES REMARK 500 ARG H 77A NE - CZ - NH1 ANGL. DEV. = -4.2 DEGREES REMARK 500 ARG H 77A CA - C - O ANGL. DEV. = -19.0 DEGREES REMARK 500 ARG H 77A CA - C - N ANGL. DEV. = 20.8 DEGREES REMARK 500 TYR H 94 CB - CG - CD2 ANGL. DEV. = -4.7 DEGREES REMARK 500 ARG H 97 CD - NE - CZ ANGL. DEV. = -9.2 DEGREES REMARK 500 ARG H 97 NE - CZ - NH1 ANGL. DEV. = -3.3 DEGREES REMARK 500 ARG H 101 NE - CZ - NH1 ANGL. DEV. = 5.9 DEGREES REMARK 500 ARG H 101 NE - CZ - NH2 ANGL. DEV. = -6.7 DEGREES REMARK 500 ASP H 102 CB - CG - OD2 ANGL. DEV. = -8.2 DEGREES REMARK 500 ASP H 116 CB - CG - OD1 ANGL. DEV. = 6.5 DEGREES REMARK 500 ASP H 125 CB - CG - OD1 ANGL. DEV. = -7.8 DEGREES REMARK 500 ASP H 125 CB - CG - OD2 ANGL. DEV. = 6.9 DEGREES REMARK 500 ARG H 126 NE - CZ - NH2 ANGL. DEV. = 4.3 DEGREES REMARK 500 ALA H 129A N - CA - CB ANGL. DEV. = 10.2 DEGREES REMARK 500 ARG H 165 NE - CZ - NH1 ANGL. DEV. = 4.1 DEGREES REMARK 500 ARG H 165 NE - CZ - NH2 ANGL. DEV. = -5.5 DEGREES REMARK 500 ARG H 173 CD - NE - CZ ANGL. DEV. = 9.0 DEGREES REMARK 500 ARG H 173 NE - CZ - NH1 ANGL. DEV. = 6.0 DEGREES REMARK 500 ARG H 175 NE - CZ - NH1 ANGL. DEV. = -5.2 DEGREES REMARK 500 ILE H 176 CA - CB - CG2 ANGL. DEV. = 12.7 DEGREES REMARK 500 TYR H 184A CB - CG - CD2 ANGL. DEV. = -3.8 DEGREES REMARK 500 ARG H 187 NE - CZ - NH1 ANGL. DEV. = 6.2 DEGREES REMARK 500 ARG H 187 NE - CZ - NH2 ANGL. DEV. = -6.8 DEGREES REMARK 500 GLU H 192 CA - CB - CG ANGL. DEV. = 15.0 DEGREES REMARK 500 ARG H 206 CD - NE - CZ ANGL. DEV. = 56.3 DEGREES REMARK 500 TYR H 208 CB - CG - CD1 ANGL. DEV. = -4.7 DEGREES REMARK 500 ARG H 221A CD - NE - CZ ANGL. DEV. = -11.1 DEGREES REMARK 500 ARG H 221A NH1 - CZ - NH2 ANGL. DEV. = 6.9 DEGREES REMARK 500 ARG H 221A NE - CZ - NH1 ANGL. DEV. = -10.2 DEGREES REMARK 500 ARG H 221A NE - CZ - NH2 ANGL. DEV. = 3.2 DEGREES REMARK 500 ARG H 233 NE - CZ - NH1 ANGL. DEV. = 3.9 DEGREES REMARK 500 ARG H 233 NE - CZ - NH2 ANGL. DEV. = -6.3 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 PHE L 7 -76.28 -138.83 REMARK 500 SER H 36A 107.49 -166.65 REMARK 500 TYR H 60A 78.83 -153.28 REMARK 500 ASN H 60G 79.67 -169.75 REMARK 500 HIS H 71 -50.42 -130.79 REMARK 500 GLU H 97A -51.82 -131.77 REMARK 500 SER H 115 -177.69 -173.29 REMARK 500 SER H 195 136.74 -31.19 REMARK 500 SER H 214 -96.29 -85.93 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 H 94 0.07 SIDE CHAIN REMARK 500 ARG H 165 0.12 SIDE CHAIN 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 ARG H 233 10.14 REMARK 500 REMARK 500 REMARK: NULL REMARK 630 REMARK 630 MOLECULE TYPE: PEPTIDE-LIKE INHIBITOR REMARK 630 MOLECULE NAME: AMINO{[(4S)-4-({[5-(DIMETHYLAMINO)NAPHTHALEN-1-YL] REMARK 630 SULFONYL}AMINO)-5-(4-ETHYLPIPERIDIN-1-YL)-5-OXOPENTYL]AMINO} REMARK 630 METHANIMINIUM REMARK 630 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 630 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 630 REMARK 630 M RES C SSSEQI REMARK 630 0ZI H 371 REMARK 630 SOURCE: NULL REMARK 630 TAXONOMY: NULL REMARK 630 SUBCOMP: ANS ARG EPI REMARK 630 DETAILS: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 0ZI H 371 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR CHAIN I OF HIRUDIN DBREF 1FPC L 1H 14N UNP P00734 THRB_HUMAN 328 363 DBREF 1FPC H 16 247 UNP P00734 THRB_HUMAN 364 622 DBREF 1FPC I 53 64 UNP P28504 HIR2_HIRME 53 64 SEQADV 1FPC ASN I 53 UNP P28504 ASP 53 CONFLICT 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 ASN GLY ASP PHE GLU GLU ILE PRO GLU GLU TYS LEU MODRES 1FPC TYS I 63 TYR O-SULFO-L-TYROSINE HET TYS I 63 16 HET 0ZI H 371 35 HETNAM TYS O-SULFO-L-TYROSINE HETNAM 0ZI AMINO{[(4S)-4-({[5-(DIMETHYLAMINO)NAPHTHALEN-1- HETNAM 2 0ZI YL]SULFONYL}AMINO)-5-(4-ETHYLPIPERIDIN-1-YL)-5- HETNAM 3 0ZI OXOPENTYL]AMINO}METHANIMINIUM HETSYN 0ZI DAPA FORMUL 3 TYS C9 H11 N O6 S FORMUL 4 0ZI C25 H39 N6 O3 S 1+ FORMUL 5 HOH *201(H2 O) HELIX 1 H1 ALA H 55 LEU H 60 1 6 HELIX 2 H2 GLU H 164 SER H 171 1 8 HELIX 3 H3 ASP H 125 LEU H 129C 1 8 HELIX 4 H4 VAL H 231 GLN H 244 1 14 SHEET 1 B1 7 PRO H 28 ARG H 35 0 SHEET 2 B1 7 CYS H 42 ASP H 49 -1 SHEET 3 B1 7 ARG H 50 ALA H 56 -1 SHEET 4 B1 7 ARG H 101 LYS H 110 -1 SHEET 5 B1 7 LYS H 81 PRO H 92 -1 SHEET 6 B1 7 ASP H 63 GLY H 69 -1 SHEET 7 B1 7 PRO H 28 ARG H 35 -1 SHEET 1 B2 7 GLY H 133 TRP H 141 0 SHEET 2 B2 7 LEU H 155 ILE H 162 -1 SHEET 3 B2 7 ASN H 179 PRO H 186 -1 SHEET 4 B2 7 GLY H 223 THR H 229 -1 SHEET 5 B2 7 ILE H 212 GLU H 217 -1 SHEET 6 B2 7 GLY H 193 MET H 201 -1 SHEET 7 B2 7 GLY H 133 TRP H 141 -1 SSBOND 1 CYS L 1 CYS H 122 1555 1555 2.04 SSBOND 2 CYS H 42 CYS H 58 1555 1555 2.04 SSBOND 3 CYS H 168 CYS H 182 1555 1555 2.04 SSBOND 4 CYS H 191 CYS H 220 1555 1555 2.14 CISPEP 1 SER H 36A PRO H 37 0 -1.61 SITE 1 AC1 16 HIS H 57 TYR H 60A LYS H 60F GLU H 97A SITE 2 AC1 16 LEU H 99 ASP H 189 ALA H 190 CYS H 191 SITE 3 AC1 16 GLU H 192 TRP H 215 GLY H 216 GLY H 219 SITE 4 AC1 16 CYS H 220 HOH H 454 HOH H 476 HOH H 564 SITE 1 AC2 16 PHE H 34 LYS H 36 GLN H 38 ARG H 73 SITE 2 AC2 16 THR H 74 ARG H 75 TYR H 76 GLU H 80 SITE 3 AC2 16 LYS H 81 ILE H 82 MET H 84 SER H 153 SITE 4 AC2 16 HOH H 462 HOH H 488 HOH I 487 HOH I 526 CRYST1 72.100 72.600 73.800 90.00 101.00 90.00 C 1 2 1 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 0.013870 0.000000 0.002696 0.00000 SCALE2 0.000000 0.013774 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013804 0.00000