PDB Short entry for 1NRR HEADER HYDROLASE/HYDROLASE INHIBITOR 18-JAN-94 1NRR TITLE CRYSTALLOGRAPHIC STRUCTURES OF THROMBIN COMPLEXED WITH THROMBIN TITLE 2 RECEPTOR PEPTIDES: EXISTENCE OF EXPECTED AND NOVEL BINDING MODES CAVEAT 1NRR THE OG SER H 195 - C2 0G6 AND NE2 HIS H 57 - C3 0G6 BONDS CAVEAT 2 1NRR ARE OUTSIDE ACCEPTED RANGE COMPND MOL_ID: 1; COMPND 2 MOLECULE: THROMBIN LIGHT CHAIN; COMPND 3 CHAIN: L; COMPND 4 FRAGMENT: RESIDUES 328-363; COMPND 5 SYNONYM: COAGULATION FACTOR II; COMPND 6 EC: 3.4.21.5; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: THROMBIN HEAVY CHAIN; COMPND 9 CHAIN: H; COMPND 10 FRAGMENT: RESIDUES 364-622; COMPND 11 SYNONYM: COAGULATION FACTOR II; COMPND 12 EC: 3.4.21.5; COMPND 13 MOL_ID: 3; COMPND 14 MOLECULE: PROTEINASE-ACTIVATED RECEPTOR 1; COMPND 15 CHAIN: R; COMPND 16 FRAGMENT: UNP RESIDUES 43-60; COMPND 17 SYNONYM: THROMBIN RECEPTOR, COAGULATION FACTOR II RECEPTOR 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 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 11 ORGANISM_COMMON: HUMAN; SOURCE 12 ORGANISM_TAXID: 9606 KEYWDS HYDROLASE-HYDROLASE INHIBITOR COMPLEX, BLOOD CLOTTING EXPDTA X-RAY DIFFRACTION AUTHOR A.TULINSKY,I.I.MATHEWS REVDAT 4 13-JUL-11 1NRR 1 VERSN REVDAT 3 24-FEB-09 1NRR 1 VERSN REVDAT 2 30-SEP-03 1NRR 1 JRNL DBREF REVDAT 1 31-MAY-94 1NRR 0 JRNL AUTH I.I.MATHEWS,K.P.PADMANABHAN,V.GANESH,A.TULINSKY,M.ISHII, JRNL AUTH 2 J.CHEN,C.W.TURCK,S.R.COUGHLIN,J.W.FENTON 2ND. JRNL TITL CRYSTALLOGRAPHIC STRUCTURES OF THROMBIN COMPLEXED WITH JRNL TITL 2 THROMBIN RECEPTOR PEPTIDES: EXISTENCE OF EXPECTED AND NOVEL JRNL TITL 3 BINDING MODES. JRNL REF BIOCHEMISTRY V. 33 3266 1994 JRNL REFN ISSN 0006-2960 JRNL PMID 8136362 JRNL DOI 10.1021/BI00177A018 REMARK 1 REMARK 1 REFERENCE 1 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 1 REFERENCE 2 REMARK 1 AUTH E.SKRZYPCZAK-JANKUN,V.E.CARPEROS,K.G.RAVICHANDRAN, REMARK 1 AUTH 2 A.TULINSKY,M.WESTBROOK,J.M.MARAGANORE REMARK 1 TITL STRUCTURE OF THE HIRUGEN AND HIRULOG 1 COMPLEXES OF REMARK 1 TITL 2 ALPHA-THROMBIN REMARK 1 REF J.MOL.BIOL. V. 221 1379 1991 REMARK 1 REFN ISSN 0022-2836 REMARK 2 REMARK 2 RESOLUTION. 2.40 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) : 2.40 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 7.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 COMPLETENESS FOR RANGE (%) : NULL REMARK 3 NUMBER OF REFLECTIONS : 12963 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) : 0.145 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 : 2271 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 30 REMARK 3 SOLVENT ATOMS : 207 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) : 0.023 ; 0.025 REMARK 3 ANGLE DISTANCE (A) : 0.044 ; 0.035 REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : 0.051 ; 0.050 REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : 0.025 ; 0.030 REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : 0.170 ; 0.150 REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : 0.200 ; 0.500 REMARK 3 MULTIPLE TORSION (A) : 0.250 ; 0.500 REMARK 3 H-BOND (X...Y) (A) : NULL ; NULL REMARK 3 H-BOND (X-H...Y) (A) : 0.230 ; 0.500 REMARK 3 REMARK 3 CONFORMATIONAL TORSION ANGLE RESTRAINTS. REMARK 3 SPECIFIED (DEGREES) : NULL ; NULL REMARK 3 PLANAR (DEGREES) : 3.800 ; 3.000 REMARK 3 STAGGERED (DEGREES) : 20.500; 15.000 REMARK 3 TRANSVERSE (DEGREES) : NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 0.910 ; 1.000 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 1.580 ; 1.500 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.240 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 3.370 ; 2.500 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1NRR 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 (%): 50.77 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.50 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 35.65000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 36.10000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 35.65000 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: TRIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: L, H, R 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 570 LIES ON A SPECIAL POSITION. REMARK 375 HOH H 638 LIES ON A SPECIAL POSITION. 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 -5 REMARK 465 PHE L -4 REMARK 465 GLY L -3 REMARK 465 SER L -2 REMARK 465 GLY L -1 REMARK 465 GLU L 0 REMARK 465 ILE L 15 REMARK 465 ASP L 16 REMARK 465 GLY L 17 REMARK 465 ARG L 18 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 GLY H 246 REMARK 465 GLU H 247 REMARK 465 PHE R 43 REMARK 465 LEU R 44 REMARK 465 LEU R 45 REMARK 465 ARG R 46 REMARK 465 ASN R 47 REMARK 465 PRO R 48 REMARK 465 ASN R 49 REMARK 465 ASP R 50 REMARK 465 TRP R 56 REMARK 465 GLU R 57 REMARK 465 ASP R 58 REMARK 465 GLU R 59 REMARK 465 GLU R 60 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 145 CG CD CE NZ 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 OG SER H 195 C3 0G6 H 301 2.06 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 NE ARG H 75 OE1 GLU R 53 2555 2.19 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 ASP L 1A CA - CB - CG ANGL. DEV. = -13.5 DEGREES REMARK 500 ARG L 4 NE - CZ - NH2 ANGL. DEV. = 4.4 DEGREES REMARK 500 SER H 27 CB - CA - C ANGL. DEV. = 14.9 DEGREES REMARK 500 SER H 27 N - CA - CB ANGL. DEV. = -9.3 DEGREES REMARK 500 ARG H 35 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 ARG H 35 NE - CZ - NH2 ANGL. DEV. = -6.3 DEGREES REMARK 500 ASP H 49 CB - CG - OD1 ANGL. DEV. = 5.4 DEGREES REMARK 500 TYR H 60A CB - CG - CD1 ANGL. DEV. = -3.9 DEGREES REMARK 500 VAL H 66 CA - CB - CG1 ANGL. DEV. = 9.2 DEGREES REMARK 500 ARG H 73 NE - CZ - NH1 ANGL. DEV. = -3.7 DEGREES REMARK 500 ARG H 73 NE - CZ - NH2 ANGL. DEV. = 5.0 DEGREES REMARK 500 THR H 74 N - CA - CB ANGL. DEV. = -12.2 DEGREES REMARK 500 THR H 74 OG1 - CB - CG2 ANGL. DEV. = 15.8 DEGREES REMARK 500 ARG H 75 CG - CD - NE ANGL. DEV. = 15.1 DEGREES REMARK 500 ARG H 75 NE - CZ - NH1 ANGL. DEV. = 5.7 DEGREES REMARK 500 ARG H 75 NE - CZ - NH2 ANGL. DEV. = -4.8 DEGREES REMARK 500 ARG H 93 NE - CZ - NH1 ANGL. DEV. = 7.9 DEGREES REMARK 500 ARG H 97 NE - CZ - NH1 ANGL. DEV. = 6.9 DEGREES REMARK 500 ARG H 97 NE - CZ - NH2 ANGL. DEV. = -6.8 DEGREES REMARK 500 ASP H 100 CB - CG - OD1 ANGL. DEV. = 8.4 DEGREES REMARK 500 ASP H 100 CB - CG - OD2 ANGL. DEV. = -6.2 DEGREES REMARK 500 ARG H 101 NE - CZ - NH1 ANGL. DEV. = 7.8 DEGREES REMARK 500 ARG H 101 NE - CZ - NH2 ANGL. DEV. = -8.0 DEGREES REMARK 500 ASP H 102 CB - CG - OD2 ANGL. DEV. = -8.2 DEGREES REMARK 500 LEU H 108 CA - CB - CG ANGL. DEV. = 14.5 DEGREES REMARK 500 ASP H 116 CB - CG - OD1 ANGL. DEV. = 9.7 DEGREES REMARK 500 TYR H 117 CB - CG - CD2 ANGL. DEV. = -7.1 DEGREES REMARK 500 TYR H 117 CB - CG - CD1 ANGL. DEV. = 5.3 DEGREES REMARK 500 ARG H 126 CD - NE - CZ ANGL. DEV. = 10.0 DEGREES REMARK 500 ARG H 126 NE - CZ - NH1 ANGL. DEV. = 6.7 DEGREES REMARK 500 ALA H 132 N - CA - CB ANGL. DEV. = 8.7 DEGREES REMARK 500 ARG H 165 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES REMARK 500 ARG H 165 NE - CZ - NH2 ANGL. DEV. = -3.1 DEGREES REMARK 500 ASP H 170 CB - CG - OD1 ANGL. DEV. = 9.4 DEGREES REMARK 500 ARG H 175 NE - CZ - NH2 ANGL. DEV. = 5.0 DEGREES REMARK 500 ILE H 176 CA - CB - CG2 ANGL. DEV. = 12.5 DEGREES REMARK 500 GLY H 184 CA - C - O ANGL. DEV. = 12.4 DEGREES REMARK 500 ARG H 206 NE - CZ - NH1 ANGL. DEV. = 11.0 DEGREES REMARK 500 ARG H 206 NE - CZ - NH2 ANGL. DEV. = -10.4 DEGREES REMARK 500 ARG H 221A NE - CZ - NH1 ANGL. DEV. = -4.6 DEGREES REMARK 500 ARG H 221A NE - CZ - NH2 ANGL. DEV. = 4.9 DEGREES REMARK 500 TYR H 225 CB - CG - CD2 ANGL. DEV. = -6.0 DEGREES REMARK 500 TYR H 225 CB - CG - CD1 ANGL. DEV. = 4.5 DEGREES REMARK 500 HIS H 230 CE1 - NE2 - CD2 ANGL. DEV. = 5.6 DEGREES REMARK 500 ARG H 233 NE - CZ - NH2 ANGL. DEV. = -8.5 DEGREES REMARK 500 GLU R 53 CA - CB - CG ANGL. DEV. = 15.0 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 -83.24 -130.54 REMARK 500 SER H 36A 119.00 -163.72 REMARK 500 TYR H 60A 82.03 -155.75 REMARK 500 ASN H 60G 85.56 -155.87 REMARK 500 HIS H 71 -59.26 -132.85 REMARK 500 SER H 195 150.68 -44.62 REMARK 500 PRO R 54 171.12 -58.24 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 50 10.87 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 ARG H 165 24.7 L L OUTSIDE RANGE REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 THE INHIBITOR IS BOUND TO THE ACTIVE SITE OF THE ENZYME. THE REMARK 600 UNBOUND FORM OF THE INHIBITOR IS D-PHE-PRO-ARG-CHLOROMETHYLKETONE. REMARK 600 UPON REACTION WITH PROTEIN IT FORMS TWO COVALENT BONDS: 1) A REMARK 600 COVALENT BOND TO SER 195 FORMING A HEMIKETAL AR7 AND 2) A COVALENT REMARK 600 BOND TO NE2 OF HIS 57 REMARK 630 REMARK 630 MOLECULE TYPE: NULL REMARK 630 MOLECULE NAME: D-PHENYLALANYL-N-[(2S,3S)-6-{[AMINO(IMINIO)METHYL] REMARK 630 AMINO}-1-CHLORO-2-HYDROXYHEXAN-3-YL]-L-PROLINAMIDE 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 0G6 H 301 REMARK 630 SOURCE: NULL REMARK 630 TAXONOMY: NULL REMARK 630 SUBCOMP: DPN PRO AR7 0QE 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 0G6 H 301 REMARK 999 REMARK 999 SEQUENCE REMARK 999 CHYMOTRYPSIN NUMBERING SYSTEM IS USED, BASED ON THE TOPOLOGICAL REMARK 999 ALIGNMENT WITH THE STRUCTURE OF CHYMOTRYPSIN (W.BODE ET AL., 1989, REMARK 999 EMBO J. 8, 3467-3475). THROMBIN IS CLEAVED BETWEEN RESIDUES 15 AND REMARK 999 16. CHAIN INDICATOR *L* IS USED FOR RESIDUES 1H - 15 CHAIN REMARK 999 INDICATOR *H* IS USED FOR RESIDUES 16 - 247. CHAIN INDICATOR *R* IS REMARK 999 USED FOR XA. DBREF 1NRR L -5 18 UNP P00734 THRB_HUMAN 328 363 DBREF 1NRR H 16 247 UNP P00734 THRB_HUMAN 364 622 DBREF 1NRR R 43 60 UNP P25116 PAR1_HUMAN 43 60 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 R 18 PHE LEU LEU ARG ASN PRO ASN ASP LYS TYR GLU PRO PHE SEQRES 2 R 18 TRP GLU ASP GLU GLU HET 0G6 H 301 30 HETNAM 0G6 D-PHENYLALANYL-N-[(2S,3S)-6-{[AMINO(IMINIO) HETNAM 2 0G6 METHYL]AMINO}-1-CHLORO-2-HYDROXYHEXAN-3-YL]-L- HETNAM 3 0G6 PROLINAMIDE HETSYN 0G6 PPACK FORMUL 4 0G6 C21 H34 CL N6 O3 1+ FORMUL 5 HOH *207(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 2.01 SSBOND 2 CYS H 42 CYS H 58 1555 1555 2.05 SSBOND 3 CYS H 168 CYS H 182 1555 1555 2.11 SSBOND 4 CYS H 191 CYS H 220 1555 1555 2.02 LINK NE2 HIS H 57 C3 0G6 H 301 1555 1555 1.89 LINK OG SER H 195 C2 0G6 H 301 1555 1555 1.95 CISPEP 1 SER H 36A PRO H 37 0 -2.17 SITE 1 AC1 17 HIS H 57 TYR H 60A GLU H 97A LEU H 99 SITE 2 AC1 17 ASP H 189 ALA H 190 GLY H 193 SER H 195 SITE 3 AC1 17 SER H 214 TRP H 215 GLY H 216 GLY H 219 SITE 4 AC1 17 GLY H 226 HOH H 413 HOH H 414 HOH H 435 SITE 5 AC1 17 HOH H 468 CRYST1 71.300 72.200 72.300 90.00 100.00 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 0.014025 0.000000 0.002473 0.00000 SCALE2 0.000000 0.013850 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014045 0.00000