PDB Short entry for 1C1U HEADER BLOOD CLOTTING/HYDROLASE INHIBITOR 21-JUL-99 1C1U TITLE RECRUITING ZINC TO MEDIATE POTENT, SPECIFIC INHIBITION OF SERINE TITLE 2 PROTEASES COMPND MOL_ID: 1; COMPND 2 MOLECULE: ALPHA THROMBIN; COMPND 3 CHAIN: L; COMPND 4 FRAGMENT: LIGHT CHAIN; COMPND 5 EC: 3.4.21.5; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: ALPHA THROMBIN; COMPND 8 CHAIN: H; COMPND 9 FRAGMENT: HEAVY CHAIN; COMPND 10 EC: 3.4.21.5; COMPND 11 OTHER_DETAILS: COMPLEXED WITH (5-AMIDINO-2-BENZIMIDAZOLYL)(2- COMPND 12 BENZIMIDAZOLYL)METHANE; COMPND 13 MOL_ID: 3; COMPND 14 MOLECULE: ACETYL HIRUDIN; COMPND 15 CHAIN: I; 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 ORGANISM_SCIENTIFIC: HIRUDO MEDICINALIS; SOURCE 12 ORGANISM_TAXID: 6421 KEYWDS ZN(II)-MEDIATED SERINE PROTEASE INHIBITORS, PH DEPENDENCE, ZN(II) KEYWDS 2 AFFINITY STUCTURE-BASED DRUG DESIGN, SERINE PROTEASE/INHIBITOR, KEYWDS 3 BLOOD CLOTTING-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR B.A.KATZ,C.LUONG REVDAT 7 15-NOV-23 1C1U 1 REMARK LINK ATOM REVDAT 6 04-OCT-17 1C1U 1 REMARK REVDAT 5 13-JUL-11 1C1U 1 VERSN REVDAT 4 02-MAR-10 1C1U 1 REMARK HETATM REVDAT 3 24-FEB-09 1C1U 1 VERSN REVDAT 2 26-SEP-01 1C1U 3 ATOM REVDAT 1 26-JUL-00 1C1U 0 JRNL AUTH B.A.KATZ,J.M.CLARK,J.S.FINER-MOORE,T.E.JENKINS,C.R.JOHNSON, JRNL AUTH 2 M.J.ROSS,C.LUONG,W.R.MOORE,R.M.STROUD JRNL TITL DESIGN OF POTENT SELECTIVE ZINC-MEDIATED SERINE PROTEASE JRNL TITL 2 INHIBITORS. JRNL REF NATURE V. 391 608 1998 JRNL REFN ISSN 0028-0836 JRNL PMID 9468142 JRNL DOI 10.1038/35422 REMARK 2 REMARK 2 RESOLUTION. 1.75 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.1 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 1.75 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 7.50 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 DATA CUTOFF HIGH (ABS(F)) : NULL REMARK 3 DATA CUTOFF LOW (ABS(F)) : NULL REMARK 3 COMPLETENESS (WORKING+TEST) (%) : 77.0 REMARK 3 NUMBER OF REFLECTIONS : 27971 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : X-PLOR REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING SET) : 0.206 REMARK 3 FREE R VALUE : 0.235 REMARK 3 FREE R VALUE TEST SET SIZE (%) : 10.000 REMARK 3 FREE R VALUE TEST SET COUNT : 2799 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 : 8 REMARK 3 BIN RESOLUTION RANGE HIGH (A) : 1.75 REMARK 3 BIN RESOLUTION RANGE LOW (A) : 1.83 REMARK 3 BIN COMPLETENESS (WORKING+TEST) (%) : 50.00 REMARK 3 REFLECTIONS IN BIN (WORKING SET) : 2048 REMARK 3 BIN R VALUE (WORKING SET) : 0.3950 REMARK 3 BIN FREE R VALUE : 0.4230 REMARK 3 BIN FREE R VALUE TEST SET SIZE (%) : 10.00 REMARK 3 BIN FREE R VALUE TEST SET COUNT : 213 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 : 2430 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 24 REMARK 3 SOLVENT ATOMS : 288 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) : 0.018 REMARK 3 BOND ANGLES (DEGREES) : 4.100 REMARK 3 DIHEDRAL ANGLES (DEGREES) : 26.10 REMARK 3 IMPROPER ANGLES (DEGREES) : 0.500 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 : PARMALLH3X_TH1706ZN.PRO REMARK 3 PARAMETER FILE 2 : NULL REMARK 3 TOPOLOGY FILE 1 : TOPALLH6X_TH1706ZN.PRO REMARK 3 TOPOLOGY FILE 2 : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: BULK SOLVENT TERMS INCLUDED IN FOB FILE REMARK 3 CREATED WITH STANDARD X-PLOR SCRIPT. REMARK 4 REMARK 4 1C1U COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-JUL-99. REMARK 100 THE DEPOSITION ID IS D_1000001267. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 23-JAN-98 REMARK 200 TEMPERATURE (KELVIN) : 298.0 REMARK 200 PH : 8.2 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 : NULL REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NULL REMARK 200 OPTICS : MSC MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU RAXIS IV++ REMARK 200 INTENSITY-INTEGRATION SOFTWARE : BIOTEX (MSC) REMARK 200 DATA SCALING SOFTWARE : BIOTEX REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 35066 REMARK 200 RESOLUTION RANGE HIGH (A) : 1.450 REMARK 200 RESOLUTION RANGE LOW (A) : 38.780 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 1.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 77.0 REMARK 200 DATA REDUNDANCY : 1.900 REMARK 200 R MERGE (I) : 0.08500 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 7.8000 REMARK 200 REMARK 200 IN THE HIGHEST RESOLUTION SHELL. REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.75 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 1.83 REMARK 200 COMPLETENESS FOR SHELL (%) : 50.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.25000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 1.800 REMARK 200 REMARK 200 DIFFRACTION PROTOCOL: SINGLE WAVELENGTH REMARK 200 METHOD USED TO DETERMINE THE STRUCTURE: DIFFERENCE FOURIER PLUS REMARK 200 REFINEMENT REMARK 200 SOFTWARE USED: X-PLOR REMARK 200 STARTING MODEL: NULL REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 36.70 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.62 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: THROMBIN WAS PURCHASED FROM REMARK 280 HAEMATOLOGIC TECHNOLOGIES, INC. AND ACETYL-HIRUDIN FROM BACHEM. REMARK 280 THROMBIN WAS PREPARED AS DESCRIBED (SKRZPCZAK-JANKUN ET AL., REMARK 280 1991) .THROMBIN (1.0 MG/ML IN 50 MM HEPES, 50 % GLYCEROL, PH 7.0) REMARK 280 WAS INCUBATED WITH 1.0 MM ACETYL-HIRUDIN, 1.0 MM HEMI-BABIM, REMARK 280 1.0 MM ZN+2 FOR 1 HR AT 4 DEG C. GLYCEROL WAS REMOVED AND THE REMARK 280 COMPLEX CONCENTRATED WITH A CENTRICON 10 ( AMICON) TO 8.6 MG/ML REMARK 280 AS DETERMINED BY THE BIORAD PROTEIN ASSAY KIT USING BOVINE SERUM REMARK 280 ALBUMIN. CRYSTALS OF THROMBIN-ACETYL-HIRUDIN-HEMI-BABIM-ZN+2 REMARK 280 WERE GROWN IN HANGING DROPS BY VAPOR DIFFUSION AFTER STREAK REMARK 280 SEEDING. THE DROPS WERE MADE FROM 5 MICROLITERS OF COMPLEX AND 5 REMARK 280 MICROLITERS OF RESERVOIR SOLUTION ( 0.10 M TRIS,0.50 M NACL, 22 % REMARK 280 (BY VOLUME) PEG 4K, PH 8.20). 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 35.84000 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 36.06000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 35.84000 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 36.06000 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, 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 412 LIES ON A SPECIAL POSITION. REMARK 400 REMARK 400 COMPOUND REMARK 400 HIS_H57 IS MONOPROTONATED ON THE DELTA NITROGEN. REMARK 400 HIS_H91 AND HIS_H119 ARE MONOPROTONATED ON THE REMARK 400 EPSILON NITROGEN. 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 TRP H 148 REMARK 465 THR H 149 REMARK 465 ALA H 150 REMARK 465 ASN H 151 REMARK 465 VAL H 152 REMARK 465 GLY H 153 REMARK 465 LYS H 154 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 H1 HOH H 413 O HOH H 445 1.42 REMARK 500 O ARG H 193 H1 HOH H 491 1.53 REMARK 500 O LEU H 64 H2 HOH H 449 1.53 REMARK 500 O LYS H 192D H2 HOH H 442 1.55 REMARK 500 O ALA H 22 H1 HOH H 503 1.59 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 H1 HOH H 412 H2 HOH H 412 2555 0.34 REMARK 500 O HOH H 412 H2 HOH H 412 2555 0.89 REMARK 500 O HOH H 413 H1 HOH H 413 2555 0.98 REMARK 500 O HOH H 413 O HOH H 413 2555 1.05 REMARK 500 O HOH H 412 H1 HOH H 412 2555 1.08 REMARK 500 HD22 ASN H 210B H1 HOH H 505 4556 1.16 REMARK 500 H2 HOH H 412 H2 HOH H 412 2555 1.25 REMARK 500 HE ARG H 77A H2 HOH H 452 2555 1.29 REMARK 500 O THR H 177 H1 HOH H 564 4546 1.53 REMARK 500 O HOH H 445 O HOH H 445 2555 1.60 REMARK 500 O HOH H 413 O HOH H 445 2555 2.09 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 HIS H 57 NE2 HIS H 57 CD2 -0.067 REMARK 500 HIS H 91 NE2 HIS H 91 CD2 -0.079 REMARK 500 HIS H 236 CG HIS H 236 ND1 -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 GLY L 1D N - CA - C ANGL. DEV. = 17.1 DEGREES REMARK 500 ARG L 4 NE - CZ - NH2 ANGL. DEV. = -3.4 DEGREES REMARK 500 TRP H 29 CG - CD1 - NE1 ANGL. DEV. = -7.5 DEGREES REMARK 500 TRP H 29 CD1 - NE1 - CE2 ANGL. DEV. = 7.8 DEGREES REMARK 500 TRP H 29 NE1 - CE2 - CZ2 ANGL. DEV. = 8.0 DEGREES REMARK 500 ARG H 35 NE - CZ - NH2 ANGL. DEV. = -4.4 DEGREES REMARK 500 TRP H 51 CD1 - NE1 - CE2 ANGL. DEV. = 8.0 DEGREES REMARK 500 TRP H 51 NE1 - CE2 - CZ2 ANGL. DEV. = 7.3 DEGREES REMARK 500 TRP H 60D CG - CD1 - NE1 ANGL. DEV. = -6.8 DEGREES REMARK 500 TRP H 60D CD1 - NE1 - CE2 ANGL. DEV. = 8.2 DEGREES REMARK 500 TRP H 60D NE1 - CE2 - CZ2 ANGL. DEV. = 7.5 DEGREES REMARK 500 ARG H 77A NE - CZ - NH1 ANGL. DEV. = 3.0 DEGREES REMARK 500 ARG H 77A NE - CZ - NH2 ANGL. DEV. = -5.8 DEGREES REMARK 500 TRP H 96 CG - CD1 - NE1 ANGL. DEV. = -7.0 DEGREES REMARK 500 TRP H 96 CD1 - NE1 - CE2 ANGL. DEV. = 8.4 DEGREES REMARK 500 TRP H 96 NE1 - CE2 - CZ2 ANGL. DEV. = 8.6 DEGREES REMARK 500 TRP H 96 NE1 - CE2 - CD2 ANGL. DEV. = -6.0 DEGREES REMARK 500 ARG H 101 NE - CZ - NH2 ANGL. DEV. = -3.3 DEGREES REMARK 500 TYR H 134 CB - CG - CD2 ANGL. DEV. = -3.8 DEGREES REMARK 500 TRP H 141 CG - CD1 - NE1 ANGL. DEV. = -6.8 DEGREES REMARK 500 TRP H 141 CD1 - NE1 - CE2 ANGL. DEV. = 8.0 DEGREES REMARK 500 TRP H 141 NE1 - CE2 - CZ2 ANGL. DEV. = 6.9 DEGREES REMARK 500 CYS H 187 CA - CB - SG ANGL. DEV. = 11.2 DEGREES REMARK 500 ARG H 193 NE - CZ - NH1 ANGL. DEV. = -3.2 DEGREES REMARK 500 PHE H 205 N - CA - C ANGL. DEV. = -19.1 DEGREES REMARK 500 ARG H 212 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES REMARK 500 TRP H 213 CG - CD1 - NE1 ANGL. DEV. = -6.3 DEGREES REMARK 500 TRP H 213 CD1 - NE1 - CE2 ANGL. DEV. = 8.2 DEGREES REMARK 500 TRP H 213 NE1 - CE2 - CZ2 ANGL. DEV. = 6.7 DEGREES REMARK 500 TRP H 221 CG - CD1 - NE1 ANGL. DEV. = -6.5 DEGREES REMARK 500 TRP H 221 CD1 - NE1 - CE2 ANGL. DEV. = 7.8 DEGREES REMARK 500 TRP H 221 NE1 - CE2 - CZ2 ANGL. DEV. = 7.7 DEGREES REMARK 500 ARG H 239 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES REMARK 500 TRP H 243 CG - CD1 - NE1 ANGL. DEV. = -7.2 DEGREES REMARK 500 TRP H 243 CD1 - NE1 - CE2 ANGL. DEV. = 8.9 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 1G -154.09 -123.86 REMARK 500 GLU L 1C -51.04 -137.12 REMARK 500 ALA L 1B -55.84 165.56 REMARK 500 PHE L 7 -84.70 -128.79 REMARK 500 ILE L 14K 37.44 32.44 REMARK 500 ASP L 14L 133.65 77.12 REMARK 500 TYR H 60A 83.60 -154.32 REMARK 500 ASN H 60G 85.30 -157.85 REMARK 500 HIS H 71 -61.04 -138.65 REMARK 500 GLU H 97A -69.44 -120.52 REMARK 500 GLU I 62 -9.25 -57.79 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 ARG H 50 0.09 SIDE CHAIN REMARK 500 ARG H 97 0.09 SIDE CHAIN REMARK 500 ARG H 193 0.16 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL 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 ZN H 254 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 HIS H 57 NE2 REMARK 620 2 SER H 201 OG 121.5 REMARK 620 3 BAI H 410 N4' 96.6 123.3 REMARK 620 4 BAI H 410 N3 131.6 95.7 85.5 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA H 409 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ARG H 227A O REMARK 620 2 LYS H 230 O 103.5 REMARK 620 3 HOH H 428 O 174.7 71.2 REMARK 620 4 HOH H 431 O 97.7 92.7 82.0 REMARK 620 5 HOH H 453 O 99.3 156.2 86.0 91.2 REMARK 620 6 HOH H 455 O 91.0 79.4 88.7 169.4 93.3 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN H 254 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA H 409 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE BAI H 410 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC4 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR CHAIN I OF ACETYL HIRUDIN REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1C2D RELATED DB: PDB REMARK 900 RELATED ID: 1C2F RELATED DB: PDB REMARK 900 RELATED ID: 1C2G RELATED DB: PDB REMARK 900 RELATED ID: 1C2H RELATED DB: PDB REMARK 900 RELATED ID: 1C2I RELATED DB: PDB REMARK 900 RELATED ID: 1C2L RELATED DB: PDB REMARK 900 RELATED ID: 1C2M RELATED DB: PDB REMARK 900 RELATED ID: 1C1N RELATED DB: PDB REMARK 900 RELATED ID: 1C1O RELATED DB: PDB REMARK 900 RELATED ID: 1C1P RELATED DB: PDB REMARK 900 RELATED ID: 1C1Q RELATED DB: PDB REMARK 900 RELATED ID: 1C1R RELATED DB: PDB REMARK 900 RELATED ID: 1C1S RELATED DB: PDB REMARK 900 RELATED ID: 1C1T RELATED DB: PDB REMARK 900 RELATED ID: 1C2E RELATED DB: PDB REMARK 900 RELATED ID: 1C1V RELATED DB: PDB REMARK 900 RELATED ID: 1C1W RELATED DB: PDB REMARK 900 RELATED ID: 1C2J RELATED DB: PDB DBREF 1C1U L 1H 15 UNP P00734 THRB_HUMAN 328 363 DBREF 1C1U H 16 247 UNP P00734 THRB_HUMAN 364 622 DBREF 1C1U I 55 65 UNP P28504 HIR2_HIRME 55 65 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 11 ASP PHE GLU GLU ILE PRO GLU GLU TYS LEU GLN MODRES 1C1U TYS I 63 TYR O-SULFO-L-TYROSINE HET TYS I 63 24 HET ZN H 254 1 HET NA H 409 1 HET BAI H 410 37 HETNAM TYS O-SULFO-L-TYROSINE HETNAM ZN ZINC ION HETNAM NA SODIUM ION HETNAM BAI (5-AMIDINO-2-BENZIMIDAZOLYL)(2-BENZIMIDAZOLYL)METHANE HETSYN BAI HEMI-BABIM FORMUL 3 TYS C9 H11 N O6 S FORMUL 4 ZN ZN 2+ FORMUL 5 NA NA 1+ FORMUL 6 BAI C16 H14 N6 FORMUL 7 HOH *288(H2 O) HELIX 1 1 PHE L 7 SER L 11 5 5 HELIX 2 2 THR L 14B TYR L 14J 1 9 HELIX 3 3 ALA H 55 CYS H 58 5 4 HELIX 4 4 PRO H 60B ASP H 60E 5 4 HELIX 5 5 THR H 60I ASN H 62 5 3 HELIX 6 6 ASP H 125 LEU H 130 1 9 HELIX 7 7 GLU H 169 ASP H 175 1 7 HELIX 8 8 LYS H 191 GLY H 192C 5 5 HELIX 9 9 LEU H 240 GLY H 252 1 13 SHEET 1 A 7 SER H 20 ASP H 21 0 SHEET 2 A 7 GLN H 161 PRO H 166 -1 O VAL H 162 N SER H 20 SHEET 3 A 7 LYS H 135 GLY H 140 -1 N GLY H 136 O LEU H 165 SHEET 4 A 7 PRO H 204 LYS H 208 -1 O PRO H 204 N THR H 139 SHEET 5 A 7 TRP H 213 TRP H 221 -1 N TYR H 214 O MET H 207 SHEET 6 A 7 GLY H 232 HIS H 236 -1 N PHE H 233 O TRP H 221 SHEET 7 A 7 MET H 185 ALA H 188 -1 O PHE H 186 N TYR H 234 SHEET 1 B 7 LYS H 81 SER H 83 0 SHEET 2 B 7 LEU H 64 ILE H 68 -1 O VAL H 66 N SER H 83 SHEET 3 B 7 GLN H 30 ARG H 35 -1 O MET H 32 N ARG H 67 SHEET 4 B 7 GLU H 39 LEU H 46 -1 O GLU H 39 N ARG H 35 SHEET 5 B 7 TRP H 51 THR H 54 -1 N LEU H 53 O SER H 45 SHEET 6 B 7 ALA H 104 LEU H 108 -1 O ALA H 104 N THR H 54 SHEET 7 B 7 LEU H 59 ILE H 90 -1 N GLU H 86 O LYS H 107 SHEET 1 C 2 LEU H 60 TYR H 60A 0 SHEET 2 C 2 LYS H 60F ASN H 60G-1 O LYS H 60F N TYR H 60A SSBOND 1 CYS L 1 CYS H 122 1555 1555 2.09 SSBOND 2 CYS H 42 CYS H 58 1555 1555 2.01 SSBOND 3 CYS H 173 CYS H 187 1555 1555 2.01 SSBOND 4 CYS H 197 CYS H 226 1555 1555 2.01 LINK C GLU I 62 N TYS I 63 1555 1555 1.32 LINK C TYS I 63 N LEU I 64 1555 1555 1.30 LINK NE2 HIS H 57 ZN ZN H 254 1555 1555 2.40 LINK OG SER H 201 ZN ZN H 254 1555 1555 2.40 LINK O ARG H 227A NA NA H 409 1555 1555 2.38 LINK O LYS H 230 NA NA H 409 1555 1555 2.39 LINK ZN ZN H 254 N4' BAI H 410 1555 1555 2.43 LINK ZN ZN H 254 N3 BAI H 410 1555 1555 2.38 LINK NA NA H 409 O HOH H 428 1555 1555 2.66 LINK NA NA H 409 O HOH H 431 1555 1555 2.69 LINK NA NA H 409 O HOH H 453 1555 1555 2.53 LINK NA NA H 409 O HOH H 455 1555 1555 2.66 CISPEP 1 SER H 36A PRO H 37 0 -12.89 SITE 1 AC1 3 HIS H 57 SER H 201 BAI H 410 SITE 1 AC2 6 ARG H 227A LYS H 230 HOH H 428 HOH H 431 SITE 2 AC2 6 HOH H 453 HOH H 455 SITE 1 AC3 12 HIS H 57 LYS H 60F ASP H 195 ALA H 196 SITE 2 AC3 12 GLU H 198 SER H 201 GLY H 222 GLY H 225 SITE 3 AC3 12 GLY H 232 ZN H 254 HOH H 554 HOH H 555 SITE 1 AC4 13 PHE H 34 LEU H 65 ARG H 67 ARG H 73 SITE 2 AC4 13 THR H 74 ARG H 75 TYR H 76 LYS H 81 SITE 3 AC4 13 ILE H 82 HOH H 509 HOH I 499 HOH I 535 SITE 4 AC4 13 HOH I 597 CRYST1 71.680 72.120 73.110 90.00 101.62 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 0.013951 0.000000 0.002869 0.00000 SCALE2 0.000000 0.013866 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013964 0.00000