HEADER HYDROLASE/HYDROLASE INHIBITOR 20-FEB-07 2JH6 TITLE HUMAN THROMBIN HIRUGEN INHIBITOR COMPLEX COMPND MOL_ID: 1; COMPND 2 MOLECULE: THROMBIN LIGHT CHAIN; COMPND 3 CHAIN: C; COMPND 4 FRAGMENT: LIGHT CHAIN, RESIDUES 328-363; COMPND 5 SYNONYM: COAGULATION FACTOR II, ALPHA THROMBIN; COMPND 6 EC: 3.4.21.5; COMPND 7 OTHER_DETAILS: LIGHT CHAIN HAS ONE DISULPHIDE BOND TO HEAVY CHAIN; COMPND 8 MOL_ID: 2; COMPND 9 MOLECULE: THROMBIN HEAVY CHAIN; COMPND 10 CHAIN: D; COMPND 11 FRAGMENT: HEAVY CHAIN, RESIDUES 364-622; COMPND 12 SYNONYM: COAGULATION FACTOR II, ALPHA THROMBIN; COMPND 13 EC: 3.4.21.5; COMPND 14 OTHER_DETAILS: LIGHT CHAIN HAS ONE DISULPHIDE BOND TO HEAVY CHAIN; COMPND 15 MOL_ID: 3; COMPND 16 MOLECULE: HIRUDIN IIIA; COMPND 17 CHAIN: H; COMPND 18 FRAGMENT: RESIDUES 55-64; COMPND 19 SYNONYM: HIRUGEN; COMPND 20 ENGINEERED: YES; COMPND 21 OTHER_DETAILS: RESIDUE 63 IS A SULFONATED TYROSINE SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 TISSUE: BLOOD PLASMA; 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 PLASMA; SOURCE 11 MOL_ID: 3; SOURCE 12 SYNTHETIC: YES; SOURCE 13 ORGANISM_SCIENTIFIC: HIRUDO MEDICINALIS; SOURCE 14 ORGANISM_COMMON: MEDICINAL LEECH; SOURCE 15 ORGANISM_TAXID: 6421 KEYWDS GLYCOPROTEIN, SERINE PROTEASE, KRINGLE, ZYMOGEN, THROMBIN, PROTEASE, KEYWDS 2 DISEASE MUTATION, BLOOD COAGULATION, GAMMA-CARBOXYGLUTAMIC ACID, KEYWDS 3 PROTEASE INHIBITOR, SERINE PROTEASE INHIBITOR, SULFATION, ACUTE KEYWDS 4 PHASE, HYDROLASE-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR S.SENGER,C.CHAN,M.A.CONVERY,J.A.HUBBARD,R.J.YOUNG,G.P.SHAH,N.S.WATSON REVDAT 4 07-AUG-13 2JH6 1 REMARK SITE REVDAT 3 13-JUL-11 2JH6 1 VERSN REVDAT 2 24-FEB-09 2JH6 1 VERSN REVDAT 1 08-MAY-07 2JH6 0 JRNL AUTH S.SENGER,C.CHAN,M.A.CONVERY,J.A.HUBBARD,G.P.SHAH,N.S.WATSON, JRNL AUTH 2 R.J.YOUNG JRNL TITL SULFONAMIDE-RELATED CONFORMATIONAL EFFECTS AND THEIR JRNL TITL 2 IMPORTANCE IN STRUCTURE-BASED DESIGN. JRNL REF BIOORG.MED.CHEM.LETT. V. 17 2931 2007 JRNL REFN ISSN 0960-894X JRNL PMID 17336062 JRNL DOI 10.1016/J.BMCL.2007.02.034 REMARK 2 REMARK 2 RESOLUTION. 2.21 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : REFMAC 5.3.0006 REMARK 3 AUTHORS : MURSHUDOV,VAGIN,DODSON REMARK 3 REMARK 3 REFINEMENT TARGET : MAXIMUM LIKELIHOOD REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.21 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 19.98 REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL REMARK 3 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 3 NUMBER OF REFLECTIONS : 16566 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) : 0.165 REMARK 3 R VALUE (WORKING SET) : 0.163 REMARK 3 FREE R VALUE : 0.196 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 5.100 REMARK 3 FREE R VALUE TEST SET COUNT : 882 REMARK 3 REMARK 3 FIT IN THE HIGHEST RESOLUTION BIN. REMARK 3 TOTAL NUMBER OF BINS USED : 20 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 2.21 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 2.27 REMARK 3 REFLECTION IN BIN (WORKING SET) : 1178 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : NULL REMARK 3 BIN R VALUE (WORKING SET) : 0.1620 REMARK 3 BIN FREE R VALUE SET COUNT : 50 REMARK 3 BIN FREE R VALUE : 0.2380 REMARK 3 REMARK 3 NUMBER OF NON-HYDROGEN ATOMS USED IN REFINEMENT. REMARK 3 PROTEIN ATOMS : 2351 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 30 REMARK 3 SOLVENT ATOMS : 182 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : NULL REMARK 3 MEAN B VALUE (OVERALL, A**2) : 34.20 REMARK 3 OVERALL ANISOTROPIC B VALUE. REMARK 3 B11 (A**2) : -0.19000 REMARK 3 B22 (A**2) : -0.40000 REMARK 3 B33 (A**2) : 0.34000 REMARK 3 B12 (A**2) : 0.00000 REMARK 3 B13 (A**2) : -0.68000 REMARK 3 B23 (A**2) : 0.00000 REMARK 3 REMARK 3 ESTIMATED OVERALL COORDINATE ERROR. REMARK 3 ESU BASED ON R VALUE (A): 0.234 REMARK 3 ESU BASED ON FREE R VALUE (A): 0.173 REMARK 3 ESU BASED ON MAXIMUM LIKELIHOOD (A): 0.111 REMARK 3 ESU FOR B VALUES BASED ON MAXIMUM LIKELIHOOD (A**2): 4.307 REMARK 3 REMARK 3 CORRELATION COEFFICIENTS. REMARK 3 CORRELATION COEFFICIENT FO-FC : 0.959 REMARK 3 CORRELATION COEFFICIENT FO-FC FREE : 0.944 REMARK 3 REMARK 3 RMS DEVIATIONS FROM IDEAL VALUES COUNT RMS WEIGHT REMARK 3 BOND LENGTHS REFINED ATOMS (A): 2441 ; 0.014 ; 0.022 REMARK 3 BOND LENGTHS OTHERS (A): NULL ; NULL ; NULL REMARK 3 BOND ANGLES REFINED ATOMS (DEGREES): 3299 ; 1.538 ; 1.979 REMARK 3 BOND ANGLES OTHERS (DEGREES): NULL ; NULL ; NULL REMARK 3 TORSION ANGLES, PERIOD 1 (DEGREES): 285 ; 4.297 ; 5.000 REMARK 3 TORSION ANGLES, PERIOD 2 (DEGREES): 117 ;28.769 ;23.504 REMARK 3 TORSION ANGLES, PERIOD 3 (DEGREES): 430 ;10.678 ;15.000 REMARK 3 TORSION ANGLES, PERIOD 4 (DEGREES): 20 ;11.942 ;15.000 REMARK 3 CHIRAL-CENTER RESTRAINTS (A**3): 339 ; 0.105 ; 0.200 REMARK 3 GENERAL PLANES REFINED ATOMS (A): 1854 ; 0.006 ; 0.020 REMARK 3 GENERAL PLANES OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED CONTACTS REFINED ATOMS (A): 1091 ; 0.204 ; 0.200 REMARK 3 NON-BONDED CONTACTS OTHERS (A): NULL ; NULL ; NULL REMARK 3 NON-BONDED TORSION REFINED ATOMS (A): 1635 ; 0.313 ; 0.200 REMARK 3 NON-BONDED TORSION OTHERS (A): NULL ; NULL ; NULL REMARK 3 H-BOND (X...Y) REFINED ATOMS (A): 209 ; 0.146 ; 0.200 REMARK 3 H-BOND (X...Y) OTHERS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 POTENTIAL METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY VDW REFINED ATOMS (A): 28 ; 0.202 ; 0.200 REMARK 3 SYMMETRY VDW OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY H-BOND REFINED ATOMS (A): 9 ; 0.230 ; 0.200 REMARK 3 SYMMETRY H-BOND OTHERS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION REFINED ATOMS (A): NULL ; NULL ; NULL REMARK 3 SYMMETRY METAL-ION OTHERS (A): NULL ; NULL ; NULL REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 MAIN-CHAIN BOND REFINED ATOMS (A**2): 1435 ; 1.253 ; 2.000 REMARK 3 MAIN-CHAIN BOND OTHER ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 MAIN-CHAIN ANGLE REFINED ATOMS (A**2): 2312 ; 2.474 ; 4.000 REMARK 3 SIDE-CHAIN BOND REFINED ATOMS (A**2): 1059 ; 3.167 ; 4.000 REMARK 3 SIDE-CHAIN ANGLE REFINED ATOMS (A**2): 987 ; 4.663 ; 6.000 REMARK 3 REMARK 3 ANISOTROPIC THERMAL FACTOR RESTRAINTS. COUNT RMS WEIGHT REMARK 3 RIGID-BOND RESTRAINTS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; FREE ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 SPHERICITY; BONDED ATOMS (A**2): NULL ; NULL ; NULL REMARK 3 REMARK 3 NCS RESTRAINTS STATISTICS REMARK 3 NUMBER OF DIFFERENT NCS GROUPS : NULL REMARK 3 REMARK 3 TLS DETAILS REMARK 3 NUMBER OF TLS GROUPS : NULL REMARK 3 REMARK 3 BULK SOLVENT MODELLING. REMARK 3 METHOD USED : BABINET MODEL WITH MASK REMARK 3 PARAMETERS FOR MASK CALCULATION REMARK 3 VDW PROBE RADIUS : 1.20 REMARK 3 ION PROBE RADIUS : 0.80 REMARK 3 SHRINKAGE RADIUS : 0.80 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: HYDROGENS HAVE BEEN ADDED IN THE RIDING REMARK 3 POSITIONS. REMARK 4 REMARK 4 2JH6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBE ON 22-FEB-07. REMARK 100 THE PDBE ID CODE IS EBI-31530. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 09-MAY-02 REMARK 200 TEMPERATURE (KELVIN) : 100.0 REMARK 200 PH : 6.80 REMARK 200 NUMBER OF CRYSTALS USED : 1 REMARK 200 REMARK 200 SYNCHROTRON (Y/N) : N REMARK 200 RADIATION SOURCE : ROTATING ANODE REMARK 200 BEAMLINE : NULL REMARK 200 X-RAY GENERATOR MODEL : RIGAKU RU200 REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : CCD REMARK 200 DETECTOR MANUFACTURER : RIGAKU REMARK 200 INTENSITY-INTEGRATION SOFTWARE : DENZO REMARK 200 DATA SCALING SOFTWARE : SCALEPACK REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 16566 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.200 REMARK 200 RESOLUTION RANGE LOW (A) : 19.980 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 0.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 100.0 REMARK 200 DATA REDUNDANCY : 3.500 REMARK 200 R MERGE (I) : 0.55000 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) : 2.20 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.26 REMARK 200 COMPLETENESS FOR SHELL (%) : 98.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.33000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : NULL REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: MOLECULAR REPLACEMENT 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 (%): 49.81 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.47 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 6.80 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 35.06750 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 35.84150 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 35.06750 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 35.84150 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: 4420 ANGSTROM**2 REMARK 350 SURFACE AREA OF THE COMPLEX: 13060 ANGSTROM**2 REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -39.0 KCAL/MOL REMARK 350 APPLY THE FOLLOWING TO CHAINS: C, D, H 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 C 1H REMARK 465 PHE C 1G REMARK 465 GLY C 1F REMARK 465 SER C 1E REMARK 465 GLY C 1D REMARK 465 GLU C 1C REMARK 465 GLY C 16 REMARK 465 ARG C 17 REMARK 465 TRP D 147A REMARK 465 THR D 147B REMARK 465 ALA D 147C REMARK 465 ASN D 147D REMARK 465 VAL D 147E REMARK 465 GLY D 148 REMARK 465 LYS D 149 REMARK 465 GLU D 247 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 THR D 147 OG1 CG2 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 O HOH D 2128 O HOH D 2143 2.14 REMARK 500 O HOH D 2109 O HOH D 2110 2.17 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 C 7 -91.32 -129.89 REMARK 500 TYR D 60A 78.90 -152.93 REMARK 500 ASN D 60G 75.64 -152.05 REMARK 500 HIS D 71 -59.14 -127.44 REMARK 500 ASN D 78 -2.70 74.18 REMARK 500 GLU D 97A -87.86 -103.84 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 D2001 DISTANCE = 6.78 ANGSTROMS REMARK 525 HOH D2020 DISTANCE = 5.17 ANGSTROMS REMARK 525 HOH D2024 DISTANCE = 5.29 ANGSTROMS 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 D1247 CA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 PHE D 204A O REMARK 620 2 HOH D2104 O 80.7 REMARK 620 3 HOH D2136 O 86.9 103.4 REMARK 620 4 LYS D 169 O 95.3 84.1 172.4 REMARK 620 5 THR D 172 O 92.7 158.5 96.6 76.1 REMARK 620 6 HOH D2111 O 165.7 109.3 100.1 76.2 74.2 REMARK 620 N 1 2 3 4 5 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA D1248 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ARG D 221 O REMARK 620 2 LYS D 224 O 94.8 REMARK 620 3 HOH D2150 O 96.1 77.7 REMARK 620 4 HOH D2145 O 102.6 162.6 101.4 REMARK 620 5 HOH D2149 O 164.5 70.8 86.5 91.8 REMARK 620 6 HOH D2116 O 88.9 93.7 170.4 85.5 86.6 REMARK 620 N 1 2 3 4 5 REMARK 700 REMARK 700 SHEET REMARK 700 DETERMINATION METHOD: DSSP REMARK 700 THE SHEETS PRESENTED AS "DB" 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 D1247 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA D1248 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 894 D1249 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR CHAIN H OF HIRUDIN IIIA REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2JH0 RELATED DB: PDB REMARK 900 HUMAN THROMBIN HIRUGEN INHIBITOR COMPLEX. REMARK 900 RELATED ID: 2JH5 RELATED DB: PDB REMARK 900 HUMAN THROMBIN HIRUGEN INHIBITOR COMPLEX. DBREF 2JH6 C 1H 15 UNP P00734 THRB_HUMAN 328 363 DBREF 2JH6 D 16 247 UNP P00734 THRB_HUMAN 364 622 DBREF 2JH6 H 55 64 UNP P28507 ITHG_HIRME 55 64 SEQRES 1 C 36 THR PHE GLY SER GLY GLU ALA ASP CYS GLY LEU ARG PRO SEQRES 2 C 36 LEU PHE GLU LYS LYS SER LEU GLU ASP LYS THR GLU ARG SEQRES 3 C 36 GLU LEU LEU GLU SER TYR ILE ASP GLY ARG SEQRES 1 D 259 ILE VAL GLU GLY SER ASP ALA GLU ILE GLY MET SER PRO SEQRES 2 D 259 TRP GLN VAL MET LEU PHE ARG LYS SER PRO GLN GLU LEU SEQRES 3 D 259 LEU CYS GLY ALA SER LEU ILE SER ASP ARG TRP VAL LEU SEQRES 4 D 259 THR ALA ALA HIS CYS LEU LEU TYR PRO PRO TRP ASP LYS SEQRES 5 D 259 ASN PHE THR GLU ASN ASP LEU LEU VAL ARG ILE GLY LYS SEQRES 6 D 259 HIS SER ARG THR ARG TYR GLU ARG ASN ILE GLU LYS ILE SEQRES 7 D 259 SER MET LEU GLU LYS ILE TYR ILE HIS PRO ARG TYR ASN SEQRES 8 D 259 TRP ARG GLU ASN LEU ASP ARG ASP ILE ALA LEU MET LYS SEQRES 9 D 259 LEU LYS LYS PRO VAL ALA PHE SER ASP TYR ILE HIS PRO SEQRES 10 D 259 VAL CYS LEU PRO ASP ARG GLU THR ALA ALA SER LEU LEU SEQRES 11 D 259 GLN ALA GLY TYR LYS GLY ARG VAL THR GLY TRP GLY ASN SEQRES 12 D 259 LEU LYS GLU THR TRP THR ALA ASN VAL GLY LYS GLY GLN SEQRES 13 D 259 PRO SER VAL LEU GLN VAL VAL ASN LEU PRO ILE VAL GLU SEQRES 14 D 259 ARG PRO VAL CYS LYS ASP SER THR ARG ILE ARG ILE THR SEQRES 15 D 259 ASP ASN MET PHE CYS ALA GLY TYR LYS PRO ASP GLU GLY SEQRES 16 D 259 LYS ARG GLY ASP ALA CYS GLU GLY ASP SER GLY GLY PRO SEQRES 17 D 259 PHE VAL MET LYS SER PRO PHE ASN ASN ARG TRP TYR GLN SEQRES 18 D 259 MET GLY ILE VAL SER TRP GLY GLU GLY CYS ASP ARG ASP SEQRES 19 D 259 GLY LYS TYR GLY PHE TYR THR HIS VAL PHE ARG LEU LYS SEQRES 20 D 259 LYS TRP ILE GLN LYS VAL ILE ASP GLN PHE GLY GLU SEQRES 1 H 10 ASP PHE GLU GLU ILE PRO GLU GLU TYS LEU MODRES 2JH6 TYS H 63 TYR O-SULFO-L-TYROSINE HET TYS H 63 16 HET CA D1247 1 HET NA D1248 1 HET 894 D1249 28 HETNAM TYS O-SULFO-L-TYROSINE HETNAM CA CALCIUM ION HETNAM NA SODIUM ION HETNAM 894 2-(5-CHLORO-2-THIENYL)-N-{(3S)-1-[(1S)-1-METHYL-2- HETNAM 2 894 MORPHOLIN-4-YL-2-OXOETHYL]-2-OXOPYRROLIDIN-3- HETNAM 3 894 YL}ETHANESULFONAMIDE FORMUL 3 TYS C9 H11 N O6 S FORMUL 4 CA CA 2+ FORMUL 5 NA NA 1+ FORMUL 6 894 C17 H24 CL N3 O5 S2 FORMUL 7 HOH *182(H2 O) HELIX 1 1 PHE C 7 SER C 11 5 5 HELIX 2 2 THR C 14B TYR C 14J 1 9 HELIX 3 3 ALA D 55 CYS D 58 5 4 HELIX 4 4 PRO D 60B ASP D 60E 5 4 HELIX 5 5 THR D 60I ASN D 62 5 3 HELIX 6 6 ASP D 125 LEU D 130 1 9 HELIX 7 7 GLU D 164 SER D 171 1 8 HELIX 8 8 LEU D 234 GLY D 246 1 13 HELIX 9 9 PRO H 60 LEU H 64 5 5 SHEET 1 DA 7 SER D 20 ASP D 21 0 SHEET 2 DA 7 GLN D 156 PRO D 161 -1 O VAL D 157 N SER D 20 SHEET 3 DA 7 LYS D 135 GLY D 140 -1 O GLY D 136 N LEU D 160 SHEET 4 DA 7 PRO D 198 LYS D 202 -1 O PRO D 198 N THR D 139 SHEET 5 DA 7 TRP D 207 TRP D 215 -1 O TYR D 208 N MET D 201 SHEET 6 DA 7 GLY D 226 HIS D 230 -1 O PHE D 227 N SER D 214 SHEET 7 DA 7 MET D 180 ALA D 183 -1 O PHE D 181 N TYR D 228 SHEET 1 DB 7 GLN D 30 ARG D 35 0 SHEET 2 DB 7 GLU D 39 LEU D 46 -1 O GLU D 39 N ARG D 35 SHEET 3 DB 7 TRP D 51 THR D 54 -1 O LEU D 53 N SER D 45 SHEET 4 DB 7 ALA D 104 LEU D 108 -1 O ALA D 104 N THR D 54 SHEET 5 DB 7 LYS D 81 ILE D 90 -1 N GLU D 86 O LYS D 107 SHEET 6 DB 7 LEU D 64 ILE D 68 -1 O LEU D 64 N LEU D 85 SHEET 7 DB 7 GLN D 30 ARG D 35 -1 O MET D 32 N ARG D 67 SHEET 1 DC 2 LEU D 60 TYR D 60A 0 SHEET 2 DC 2 LYS D 60F ASN D 60G-1 O LYS D 60F N TYR D 60A SSBOND 1 CYS C 1 CYS D 122 1555 1555 2.05 SSBOND 2 CYS D 42 CYS D 58 1555 1555 2.03 SSBOND 3 CYS D 168 CYS D 182 1555 1555 1.99 SSBOND 4 CYS D 191 CYS D 220 1555 1555 2.03 LINK CA CA D1247 O PHE D 204A 1555 4546 2.39 LINK CA CA D1247 O HOH D2104 1555 1555 2.49 LINK CA CA D1247 O HOH D2136 1555 4546 2.28 LINK CA CA D1247 O LYS D 169 1555 1555 2.49 LINK CA CA D1247 O THR D 172 1555 1555 2.36 LINK CA CA D1247 O HOH D2111 1555 1555 2.64 LINK NA NA D1248 O ARG D 221 1555 1555 2.26 LINK NA NA D1248 O LYS D 224 1555 1555 2.37 LINK NA NA D1248 O HOH D2150 1555 1555 2.22 LINK NA NA D1248 O HOH D2145 1555 1555 2.36 LINK NA NA D1248 O HOH D2149 1555 1555 2.53 LINK C GLU H 62 N TYS H 63 1555 1555 1.33 LINK C TYS H 63 N LEU H 64 1555 1555 1.33 LINK NA NA D1248 O HOH D2116 1555 1555 2.71 CISPEP 1 SER D 37 PRO D 37A 0 -2.58 SITE 1 AC1 6 LYS D 169 THR D 172 PHE D 204A HOH D2104 SITE 2 AC1 6 HOH D2111 HOH D2136 SITE 1 AC2 6 ARG D 221 LYS D 224 HOH D2116 HOH D2145 SITE 2 AC2 6 HOH D2149 HOH D2150 SITE 1 AC3 17 HIS D 57 TYR D 60A TRP D 60D LEU D 99 SITE 2 AC3 17 ASP D 189 ALA D 190 GLU D 192 VAL D 213 SITE 3 AC3 17 TRP D 215 GLY D 216 GLY D 219 CYS D 220 SITE 4 AC3 17 GLY D 226 PHE D 227 TYR D 228 HOH D2131 SITE 5 AC3 17 HOH D2156 SITE 1 AC4 15 PHE D 34 LEU D 40 LEU D 65 ARG D 67 SITE 2 AC4 15 ARG D 73 THR D 74 ARG D 75 TYR D 76 SITE 3 AC4 15 GLU D 80 LYS D 81 ILE D 82 HOH D2041 SITE 4 AC4 15 HOH H2003 HOH H2005 HOH H2006 CRYST1 70.135 71.683 71.648 90.00 100.22 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 0.014258 0.000000 0.002571 0.00000 SCALE2 0.000000 0.013950 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014182 0.00000