PDB Short entry for 1BB0 HEADER HYDROLASE/HYDROLASE INHIBITOR 28-APR-98 1BB0 TITLE THROMBIN INHIBITORS WITH RIGID TRIPEPTIDYL ALDEHYDES COMPND MOL_ID: 1; COMPND 2 MOLECULE: THROMBIN; COMPND 3 CHAIN: A; COMPND 4 EC: 3.4.21.5; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: THROMBIN; COMPND 7 CHAIN: B; COMPND 8 EC: 3.4.21.5; COMPND 9 MOL_ID: 3; COMPND 10 MOLECULE: HIRUGEN; COMPND 11 CHAIN: C; COMPND 12 ENGINEERED: YES 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; SOURCE 11 MOL_ID: 3; SOURCE 12 ORGANISM_SCIENTIFIC: HIRUDO MEDICINALIS; SOURCE 13 ORGANISM_COMMON: MEDICINAL LEECH; SOURCE 14 ORGANISM_TAXID: 6421 KEYWDS HYDROLASE-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR R.KRISHNAN,E.ZHANG,K.HAKANSSON,R.K.ARNI,A.TULINSKY,M.S.L.LIM-WILBY, AUTHOR 2 O.E.LEVY,J.E.SEMPLE,T.K.BRUNCK REVDAT 5 02-AUG-23 1BB0 1 REMARK LINK REVDAT 4 27-JUL-11 1BB0 1 DBREF REVDAT 3 13-JUL-11 1BB0 1 VERSN REVDAT 2 24-FEB-09 1BB0 1 VERSN REVDAT 1 27-APR-99 1BB0 0 JRNL AUTH R.KRISHNAN,E.ZHANG,K.HAKANSSON,R.K.ARNI,A.TULINSKY, JRNL AUTH 2 M.S.LIM-WILBY,O.E.LEVY,J.E.SEMPLE,T.K.BRUNCK JRNL TITL HIGHLY SELECTIVE MECHANISM-BASED THROMBIN INHIBITORS: JRNL TITL 2 STRUCTURES OF THROMBIN AND TRYPSIN INHIBITED WITH RIGID JRNL TITL 3 PEPTIDYL ALDEHYDES. JRNL REF BIOCHEMISTRY V. 37 12094 1998 JRNL REFN ISSN 0006-2960 JRNL PMID 9724521 JRNL DOI 10.1021/BI980840E REMARK 2 REMARK 2 RESOLUTION. 2.10 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) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 7.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 4.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 75.0 REMARK 3 NUMBER OF REFLECTIONS : 17909 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) : NULL REMARK 3 R VALUE (WORKING SET) : 0.157 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 : 2241 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 37 REMARK 3 SOLVENT ATOMS : 134 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 27.50 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) : 0.20 REMARK 3 ESD FROM SIGMAA (A) : NULL REMARK 3 LOW RESOLUTION CUTOFF (A) : 7.00 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES. REMARK 3 DISTANCE RESTRAINTS. RMS SIGMA REMARK 3 BOND LENGTH (A) : 0.012 ; 0.020 REMARK 3 ANGLE DISTANCE (A) : 0.042 ; 0.030 REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : 0.055 ; 0.050 REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : 0.027 ; 0.030 REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : 0.150 ; 0.200 REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : 0.220 ; 0.600 REMARK 3 MULTIPLE TORSION (A) : 0.310 ; 0.600 REMARK 3 H-BOND (X...Y) (A) : 0.280 ; 0.600 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) : 4.000 ; 3.000 REMARK 3 STAGGERED (DEGREES) : 20.000; 15.000 REMARK 3 TRANSVERSE (DEGREES) : 30.000; 20.000 REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.100 ; 1.000 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 1.800 ; 1.500 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.600 ; 2.000 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 3.800 ; 2.500 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1BB0 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_1000171544. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-SEP-95 REMARK 200 TEMPERATURE (KELVIN) : 300 REMARK 200 PH : 7.5 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : NULL REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NI FILTER REMARK 200 OPTICS : NULL REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU REMARK 200 INTENSITY-INTEGRATION SOFTWARE : R-AXIS II REMARK 200 DATA SCALING SOFTWARE : R-AXIS II REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 19592 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800 REMARK 200 RESOLUTION RANGE LOW (A) : NULL REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.500 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 86.0 REMARK 200 DATA REDUNDANCY : 2.000 REMARK 200 R MERGE (I) : 0.05900 REMARK 200 R SYM (I) : 0.12000 REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 12.2000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.40 REMARK 200 COMPLETENESS FOR SHELL (%) : 39.0 REMARK 200 DATA REDUNDANCY IN SHELL : 2.00 REMARK 200 R MERGE FOR SHELL (I) : 0.13000 REMARK 200 R SYM FOR SHELL (I) : 0.25000 REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.500 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: NULL REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT REMARK 200 SOFTWARE USED: X-PLOR REMARK 200 STARTING MODEL: PDB ENTRY 1TMB REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 51.00 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.50 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 7.5 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 35.57000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 36.13000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 35.57000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 36.13000 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: A, B, C 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 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 A 1H REMARK 465 PHE A 1G REMARK 465 GLY A 1F REMARK 465 SER A 1E REMARK 465 GLY A 1D REMARK 465 GLU A 1C REMARK 465 ILE A 14K REMARK 465 ASP A 14L REMARK 465 GLY A 14M REMARK 465 ARG A 14N REMARK 465 SER B 36A REMARK 465 THR B 146A REMARK 465 TRP B 146B REMARK 465 THR B 146C REMARK 465 ALA B 146D REMARK 465 ASN B 146E REMARK 465 VAL B 146F REMARK 465 GLY B 146G REMARK 465 LYS B 146H REMARK 465 GLU B 247 REMARK 465 ACE C 52 REMARK 465 ASP C 53 REMARK 465 GLY C 54 REMARK 465 ASP C 55 REMARK 465 LEU C 64 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 14D CG CD NE CZ NH1 NH2 REMARK 470 GLN B 38 CB CG CD OE1 NE2 REMARK 470 ASN B 62 CG OD1 ND2 REMARK 470 MET B 84 SD CE REMARK 470 LYS B 110 CD CE NZ REMARK 470 ARG B 126 CD NE CZ NH1 NH2 REMARK 470 GLU B 127 CG CD OE1 OE2 REMARK 470 ASP B 186A CG OD1 OD2 REMARK 470 GLU B 192 CG CD OE1 OE2 REMARK 470 LYS B 240 CG CD CE NZ REMARK 470 ASP B 243 CG OD1 OD2 REMARK 470 GLN B 244 CG CD OE1 NE2 REMARK 470 PHE B 245 CG CD1 CD2 CE1 CE2 CZ REMARK 470 GLU C 58 CB CG CD OE1 OE2 REMARK 470 GLU C 61 CB CG CD OE1 OE2 REMARK 470 GLU C 62 CB 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 OG SER B 195 C9 0IV B 1 1.94 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 A 4 NE - CZ - NH2 ANGL. DEV. = 3.6 DEGREES REMARK 500 ARG B 35 NE - CZ - NH2 ANGL. DEV. = -4.4 DEGREES REMARK 500 CYS B 42 CA - CB - SG ANGL. DEV. = 10.1 DEGREES REMARK 500 TYR B 60A CB - CG - CD1 ANGL. DEV. = -4.1 DEGREES REMARK 500 ARG B 67 NE - CZ - NH1 ANGL. DEV. = 3.7 DEGREES REMARK 500 ARG B 75 CD - NE - CZ ANGL. DEV. = 9.1 DEGREES REMARK 500 ARG B 97 NE - CZ - NH2 ANGL. DEV. = -7.1 DEGREES REMARK 500 ARG B 101 NE - CZ - NH1 ANGL. DEV. = 5.5 DEGREES REMARK 500 ARG B 101 NE - CZ - NH2 ANGL. DEV. = -4.2 DEGREES REMARK 500 ASP B 125 CB - CG - OD1 ANGL. DEV. = 6.8 DEGREES REMARK 500 GLU B 164 OE1 - CD - OE2 ANGL. DEV. = -7.2 DEGREES REMARK 500 ARG B 165 CD - NE - CZ ANGL. DEV. = 9.9 DEGREES REMARK 500 ILE B 176 C - N - CA ANGL. DEV. = 15.4 DEGREES REMARK 500 TYR B 184A CB - CG - CD1 ANGL. DEV. = -3.8 DEGREES REMARK 500 ASP B 189 CB - CG - OD2 ANGL. DEV. = 6.5 DEGREES REMARK 500 ARG B 221A NE - CZ - NH1 ANGL. DEV. = -3.7 DEGREES REMARK 500 ARG B 221A NE - CZ - NH2 ANGL. DEV. = 3.8 DEGREES REMARK 500 ARG B 233 CD - NE - CZ ANGL. DEV. = 8.8 DEGREES REMARK 500 ARG B 233 NE - CZ - NH1 ANGL. DEV. = 7.6 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 A 7 -85.01 -128.82 REMARK 500 TYR B 60A 82.28 -152.59 REMARK 500 HIS B 71 -53.53 -131.14 REMARK 500 ASN B 78 -4.01 76.56 REMARK 500 GLU B 97A -65.91 -134.98 REMARK 500 GLN B 244 8.03 -69.92 REMARK 500 PHE B 245 5.41 -170.57 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 PRO A 5 -12.38 REMARK 500 CYS B 122 -10.77 REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 THE ACTIVE SITE INHIBITOR IS IN ITS R CHIRAL FORM. REMARK 600 THE ACTIVE SITE SER 195 IS CLOSE TO THE CARBONYL CARBON REMARK 600 (C9) OF THE ALDEHYDE GROUP OF THE INHIBITOR BUT DOES NOT REMARK 600 FORM A TETRAHEDRAL INTERMEDIATE 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 NA B 651 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LYS B 169 O REMARK 620 2 THR B 172 O 81.4 REMARK 620 3 PHE B 204A O 102.9 104.8 REMARK 620 4 HOH B 446 O 69.4 77.0 171.9 REMARK 620 5 HOH B 595 O 168.5 96.5 88.5 99.2 REMARK 620 6 HOH B 596 O 90.4 170.2 82.2 95.1 90.4 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA B 650 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ARG B 221A O REMARK 620 2 LYS B 224 O 97.2 REMARK 620 3 HOH B 428 O 162.8 71.8 REMARK 620 4 HOH B 473 O 91.1 90.7 76.1 REMARK 620 5 HOH B 501 O 96.9 165.7 94.9 91.2 REMARK 620 6 HOH B 518 O 90.2 80.6 100.7 171.2 97.2 REMARK 620 N 1 2 3 4 5 REMARK 630 REMARK 630 MOLECULE TYPE: PEPTIDE-LIKE INHIBITOR REMARK 630 MOLECULE NAME: 2-{(3S)-3-[(BENZYLSULFONYL)AMINO]-2-OXOPIPERIDIN-1- REMARK 630 YL}-N-{(2S)-1-[(3R)-1-CARBAMIMIDOYLPIPERIDIN-3-YL]-3-OXOPROPAN-2- REMARK 630 YL}ACETAMIDE 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 0IV B 1 REMARK 630 SOURCE: NULL REMARK 630 TAXONOMY: NULL REMARK 630 SUBCOMP: PMS NVA GLY 1PI REMARK 630 DETAILS: NULL REMARK 650 REMARK 650 HELIX REMARK 650 DETERMINATION METHOD: TAKEN FROM RELEASED PDB ENTRY 1AY6 REMARK 700 REMARK 700 SHEET REMARK 700 DETERMINATION METHOD: TAKEN FROM RELEASED PDB ENTRY 1AY6 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: CAT REMARK 800 EVIDENCE_CODE: AUTHOR REMARK 800 SITE_DESCRIPTION: ACTIVE SITE REMARK 800 REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA B 650 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA B 651 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 0IV B 1 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR CHAIN C OF HIRUGEN DBREF 1BB0 A 1H 14N UNP P00734 THRB_HUMAN 328 363 DBREF 1BB0 B 16 247 UNP P00734 THRB_HUMAN 364 622 DBREF 1BB0 C 53 64 PDB 1BB0 1BB0 53 64 SEQRES 1 A 36 THR PHE GLY SER GLY GLU ALA ASP CYS GLY LEU ARG PRO SEQRES 2 A 36 LEU PHE GLU LYS LYS SER LEU GLU ASP LYS THR GLU ARG SEQRES 3 A 36 GLU LEU LEU GLU SER TYR ILE ASP GLY ARG SEQRES 1 B 259 ILE VAL GLU GLY SER ASP ALA GLU ILE GLY MET SER PRO SEQRES 2 B 259 TRP GLN VAL MET LEU PHE ARG LYS SER PRO GLN GLU LEU SEQRES 3 B 259 LEU CYS GLY ALA SER LEU ILE SER ASP ARG TRP VAL LEU SEQRES 4 B 259 THR ALA ALA HIS CYS LEU LEU TYR PRO PRO TRP ASP LYS SEQRES 5 B 259 ASN PHE THR GLU ASN ASP LEU LEU VAL ARG ILE GLY LYS SEQRES 6 B 259 HIS SER ARG THR ARG TYR GLU ARG ASN ILE GLU LYS ILE SEQRES 7 B 259 SER MET LEU GLU LYS ILE TYR ILE HIS PRO ARG TYR ASN SEQRES 8 B 259 TRP ARG GLU ASN LEU ASP ARG ASP ILE ALA LEU MET LYS SEQRES 9 B 259 LEU LYS LYS PRO VAL ALA PHE SER ASP TYR ILE HIS PRO SEQRES 10 B 259 VAL CYS LEU PRO ASP ARG GLU THR ALA ALA SER LEU LEU SEQRES 11 B 259 GLN ALA GLY TYR LYS GLY ARG VAL THR GLY TRP GLY ASN SEQRES 12 B 259 LEU LYS GLU THR TRP THR ALA ASN VAL GLY LYS GLY GLN SEQRES 13 B 259 PRO SER VAL LEU GLN VAL VAL ASN LEU PRO ILE VAL GLU SEQRES 14 B 259 ARG PRO VAL CYS LYS ASP SER THR ARG ILE ARG ILE THR SEQRES 15 B 259 ASP ASN MET PHE CYS ALA GLY TYR LYS PRO ASP GLU GLY SEQRES 16 B 259 LYS ARG GLY ASP ALA CYS GLU GLY ASP SER GLY GLY PRO SEQRES 17 B 259 PHE VAL MET LYS SER PRO PHE ASN ASN ARG TRP TYR GLN SEQRES 18 B 259 MET GLY ILE VAL SER TRP GLY GLU GLY CYS ASP ARG ASP SEQRES 19 B 259 GLY LYS TYR GLY PHE TYR THR HIS VAL PHE ARG LEU LYS SEQRES 20 B 259 LYS TRP ILE GLN LYS VAL ILE ASP GLN PHE GLY GLU SEQRES 1 C 13 ACE ASP GLY ASP PHE GLU GLU ILE PRO GLU GLU TYS LEU MODRES 1BB0 TYS C 63 TYR O-SULFO-L-TYROSINE HET TYS C 63 16 HET NA B 650 1 HET NA B 651 1 HET 0IV B 1 35 HETNAM TYS O-SULFO-L-TYROSINE HETNAM NA SODIUM ION HETNAM 0IV 2-{(3S)-3-[(BENZYLSULFONYL)AMINO]-2-OXOPIPERIDIN-1-YL}- HETNAM 2 0IV N-{(2S)-1-[(3R)-1-CARBAMIMIDOYLPIPERIDIN-3-YL]-3- HETNAM 3 0IV OXOPROPAN-2-YL}ACETAMIDE HETSYN 0IV CVS1694 FORMUL 3 TYS C9 H11 N O6 S FORMUL 4 NA 2(NA 1+) FORMUL 6 0IV C23 H34 N6 O5 S FORMUL 7 HOH *134(H2 O) HELIX 1 1 GLU A 8 LYS A 10 5 3 HELIX 2 2 GLU A 14C GLU A 14H 1 6 HELIX 3 3 ALA B 56 CYS B 58 5 3 HELIX 4 4 PRO B 60B TRP B 60D 5 3 HELIX 5 5 GLU B 61 ASP B 63 5 3 HELIX 6 6 ARG B 126 LEU B 129C 1 7 HELIX 7 7 ARG B 165 SER B 171 1 7 HELIX 8 8 PRO B 186 GLU B 186B 5 3 HELIX 9 9 PHE B 232 ASP B 243 5 12 SHEET 1 A 4 LYS B 81 MET B 84 0 SHEET 2 A 4 LEU B 64 ILE B 68 -1 N ILE B 68 O LYS B 81 SHEET 3 A 4 GLN B 30 ARG B 35 -1 N PHE B 34 O LEU B 65 SHEET 4 A 4 GLU B 39 SER B 45 -1 N ALA B 44 O VAL B 31 SHEET 1 B 3 TRP B 51 THR B 54 0 SHEET 2 B 3 ALA B 104 LEU B 108 -1 N MET B 106 O VAL B 52 SHEET 3 B 3 LEU B 85 ILE B 90 -1 N TYR B 89 O LEU B 105 SHEET 1 C 2 LYS B 135 GLY B 140 0 SHEET 2 C 2 GLN B 156 PRO B 161 -1 N LEU B 160 O GLY B 136 SHEET 1 D 4 MET B 180 ALA B 183 0 SHEET 2 D 4 GLY B 226 HIS B 230 -1 N TYR B 228 O PHE B 181 SHEET 3 D 4 TRP B 207 TRP B 215 -1 N TRP B 215 O PHE B 227 SHEET 4 D 4 PRO B 198 LYS B 202 -1 N MET B 201 O TYR B 208 SSBOND 1 CYS A 1 CYS B 122 1555 1555 2.03 SSBOND 2 CYS B 42 CYS B 58 1555 1555 2.05 SSBOND 3 CYS B 168 CYS B 182 1555 1555 2.02 SSBOND 4 CYS B 191 CYS B 220 1555 1555 2.05 LINK C GLU C 62 N TYS C 63 1555 1555 1.33 LINK O LYS B 169 NA NA B 651 1555 1555 2.46 LINK O THR B 172 NA NA B 651 1555 1555 2.22 LINK O PHE B 204A NA NA B 651 4546 1555 2.30 LINK O ARG B 221A NA NA B 650 1555 1555 2.50 LINK O LYS B 224 NA NA B 650 1555 1555 2.35 LINK O HOH B 428 NA NA B 650 1555 1555 2.53 LINK O HOH B 446 NA NA B 651 1555 1555 2.75 LINK O HOH B 473 NA NA B 650 1555 1555 2.64 LINK O HOH B 501 NA NA B 650 1555 1555 2.35 LINK O HOH B 518 NA NA B 650 1555 1555 2.27 LINK O HOH B 595 NA NA B 651 1555 1555 2.39 LINK O HOH B 596 NA NA B 651 1555 1555 2.43 SITE 1 CAT 3 HIS B 57 ASP B 102 SER B 195 SITE 1 AC1 6 ARG B 221A LYS B 224 HOH B 428 HOH B 473 SITE 2 AC1 6 HOH B 501 HOH B 518 SITE 1 AC2 6 LYS B 169 THR B 172 PHE B 204A HOH B 446 SITE 2 AC2 6 HOH B 595 HOH B 596 SITE 1 AC3 19 HIS B 57 TYR B 60A TRP B 60D GLU B 97A SITE 2 AC3 19 LEU B 99 ILE B 174 ASP B 189 CYS B 191 SITE 3 AC3 19 GLY B 193 SER B 195 SER B 214 TRP B 215 SITE 4 AC3 19 GLY B 216 GLU B 217 GLY B 219 GLY B 226 SITE 5 AC3 19 HOH B 407 HOH B 459 HOH B 527 SITE 1 AC4 13 PHE B 34 ARG B 67 ARG B 73 THR B 74 SITE 2 AC4 13 ARG B 75 TYR B 76 LYS B 81 ILE B 82 SITE 3 AC4 13 HOH B 450 HOH B 588 HOH C 457 HOH C 537 SITE 4 AC4 13 HOH C 565 CRYST1 71.140 72.260 72.730 90.00 100.70 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 0.014057 0.000000 0.002656 0.00000 SCALE2 0.000000 0.013839 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013993 0.00000