HEADER HYDROLASE/HYDROLASE INHIBITOR 14-NOV-97 1AY6
TITLE THROMBIN INHIBITOR FROM THEONALLA, CYCLOTHEANAMIDE-BASED MACROCYCLIC
TITLE 2 TRIPEPTIDE MOTIF
COMPND MOL_ID: 1;
COMPND 2 MOLECULE: THROMBIN LIGHT CHAIN;
COMPND 3 CHAIN: L;
COMPND 4 EC: 3.4.21.5;
COMPND 5 MOL_ID: 2;
COMPND 6 MOLECULE: THROMBIN HEAVY CHAIN;
COMPND 7 CHAIN: H;
COMPND 8 EC: 3.4.21.5;
COMPND 9 MOL_ID: 3;
COMPND 10 MOLECULE: HIRUGEN;
COMPND 11 CHAIN: I;
COMPND 12 FRAGMENT: RESIDUES 55-64;
COMPND 13 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 SYNTHETIC: YES;
SOURCE 13 ORGANISM_SCIENTIFIC: HIRUDO MEDICINALIS;
SOURCE 14 ORGANISM_TAXID: 6421;
SOURCE 15 OTHER_DETAILS: ACETYL HIRUGEN
KEYWDS COMPLEX OF SERINE PROTEASE-INHIBITOR, HYDROLASE, HYDROLASE-HYDROLASE
KEYWDS 2 INHIBITOR COMPLEX
EXPDTA X-RAY DIFFRACTION
AUTHOR V.GANESH,B.E.MARYANOFF,A.TULINSKY
REVDAT 6 20-NOV-24 1AY6 1 REMARK
REVDAT 5 02-AUG-23 1AY6 1 REMARK SEQADV LINK
REVDAT 4 13-JUL-11 1AY6 1 VERSN
REVDAT 3 24-FEB-09 1AY6 1 VERSN
REVDAT 2 01-APR-03 1AY6 1 JRNL
REVDAT 1 18-MAR-98 1AY6 0
JRNL AUTH M.N.GRECO,E.T.POWELL,L.R.HECKER,P.ANDRADE-GORDON,
JRNL AUTH 2 J.A.KAUFFMAN,J.M.LEWIS,V.GANESH,A.TULINSKY,B.E.MARYANOFF
JRNL TITL NOVEL THROMBIN INHIBITORS THAT ARE BASED ON A MACROCYCLIC
JRNL TITL 2 TRIPEPTIDE MOTIF
JRNL REF BIOORG.MED.CHEM.LETT. V. 6 2947 1996
JRNL REFN ISSN 0960-894X
JRNL PMID 8367461
JRNL DOI 10.1016/S0960-894X(96)00554-9
REMARK 2
REMARK 2 RESOLUTION. 1.80 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) : 1.80
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 : 18408
REMARK 3
REMARK 3 FIT TO DATA USED IN REFINEMENT.
REMARK 3 CROSS-VALIDATION METHOD : THROUGHOUT
REMARK 3 FREE R VALUE TEST SET SELECTION : NULL
REMARK 3 R VALUE (WORKING + TEST SET) : NULL
REMARK 3 R VALUE (WORKING SET) : 0.166
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 : 2350
REMARK 3 NUCLEIC ACID ATOMS : 0
REMARK 3 HETEROGEN ATOMS : 42
REMARK 3 SOLVENT ATOMS : 176
REMARK 3
REMARK 3 B VALUES.
REMARK 3 FROM WILSON PLOT (A**2) : NULL
REMARK 3 MEAN B VALUE (OVERALL, A**2) : 28.00
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) : 0.018 ; 0.020
REMARK 3 ANGLE DISTANCE (A) : 0.025 ; 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) : 0.030 ; 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 1AY6 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_1000171399.
REMARK 200
REMARK 200 EXPERIMENTAL DETAILS
REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION
REMARK 200 DATE OF DATA COLLECTION : 15-AUG-93
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 : 25408
REMARK 200 RESOLUTION RANGE HIGH (A) : 1.800
REMARK 200 RESOLUTION RANGE LOW (A) : NULL
REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.500
REMARK 200
REMARK 200 OVERALL.
REMARK 200 COMPLETENESS FOR RANGE (%) : 74.0
REMARK 200 DATA REDUNDANCY : 2.500
REMARK 200 R MERGE (I) : 0.04500
REMARK 200 R SYM (I) : 0.12000
REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 14.0000
REMARK 200
REMARK 200 IN THE HIGHEST RESOLUTION SHELL.
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE HIGH (A) : 1.80
REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.00
REMARK 200 COMPLETENESS FOR SHELL (%) : 65.0
REMARK 200 DATA REDUNDANCY IN SHELL : 2.00
REMARK 200 R MERGE FOR SHELL (I) : 0.06000
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: CRYSTALLIZED FROM 25% PEG 8K, 0.1M
REMARK 280 SOD. PHOSPHATE BUFFER PH 7.5. MACROSEEDED TO MAKE LARGER CRYSTALS
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 35.54000
REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 36.07000
REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000
REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 35.54000
REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 36.07000
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 457 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 1H
REMARK 465 PHE L 1G
REMARK 465 GLY L 1F
REMARK 465 SER L 1E
REMARK 465 ASP L 14L
REMARK 465 GLY L 14M
REMARK 465 ARG L 14N
REMARK 465 TRP H 147A
REMARK 465 THR H 147B
REMARK 465 ALA H 147C
REMARK 465 ASN H 147D
REMARK 465 VAL H 147E
REMARK 465 GLY H 147F
REMARK 465 LYS H 147G
REMARK 465 ACE I 52
REMARK 465 ASN I 53
REMARK 465 GLU 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 SER H 36A O
REMARK 470 LYS H 81 CG CD CE NZ
REMARK 470 GLN H 244 CG CD OE1 NE2
REMARK 470 GLU I 58 CB CG CD OE1 OE2
REMARK 470 GLU I 61 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 NH2 ARG L 14D OE1 GLU L 14H 1.73
REMARK 500 NH2 ARG H 187 OD1 ASP H 222 1.93
REMARK 500 NH1 ARG H 50 O LEU H 108 1.95
REMARK 500 NE2 HIS H 57 O3 1ZV H 5 2.17
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 NH1 ARG H 75 OE2 GLU I 57 2555 2.06
REMARK 500 O THR H 172 O HOH H 422 4546 2.10
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 GLU H 77 CD GLU H 77 OE2 -0.084
REMARK 500 GLY H 211 N GLY H 211 CA 0.096
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 GLU L 1C OE1 - CD - OE2 ANGL. DEV. = 10.3 DEGREES
REMARK 500 GLU L 1C CG - CD - OE2 ANGL. DEV. = -13.3 DEGREES
REMARK 500 ASP L 1A CB - CG - OD1 ANGL. DEV. = -11.3 DEGREES
REMARK 500 ASP L 1A O - C - N ANGL. DEV. = 10.1 DEGREES
REMARK 500 ARG L 4 NH1 - CZ - NH2 ANGL. DEV. = -7.6 DEGREES
REMARK 500 ARG L 4 NE - CZ - NH2 ANGL. DEV. = 5.6 DEGREES
REMARK 500 ARG L 14D N - CA - CB ANGL. DEV. = 17.3 DEGREES
REMARK 500 ARG L 14D CD - NE - CZ ANGL. DEV. = -9.1 DEGREES
REMARK 500 ARG L 14D NE - CZ - NH1 ANGL. DEV. = 6.4 DEGREES
REMARK 500 ARG L 14D NE - CZ - NH2 ANGL. DEV. = -6.9 DEGREES
REMARK 500 TYR L 14J CB - CG - CD2 ANGL. DEV. = 4.8 DEGREES
REMARK 500 ASP H 21 CB - CG - OD2 ANGL. DEV. = -6.9 DEGREES
REMARK 500 SER H 27 CB - CA - C ANGL. DEV. = 13.2 DEGREES
REMARK 500 ARG H 35 NE - CZ - NH1 ANGL. DEV. = 5.6 DEGREES
REMARK 500 ARG H 35 NE - CZ - NH2 ANGL. DEV. = -6.7 DEGREES
REMARK 500 LYS H 36 CG - CD - CE ANGL. DEV. = 18.8 DEGREES
REMARK 500 ALA H 44 O - C - N ANGL. DEV. = 12.0 DEGREES
REMARK 500 ASP H 49 CB - CG - OD2 ANGL. DEV. = 7.3 DEGREES
REMARK 500 TYR H 60A CB - CG - CD2 ANGL. DEV. = -4.1 DEGREES
REMARK 500 ASP H 60E CB - CG - OD1 ANGL. DEV. = -5.6 DEGREES
REMARK 500 VAL H 66 CA - CB - CG1 ANGL. DEV. = 9.8 DEGREES
REMARK 500 THR H 74 N - CA - CB ANGL. DEV. = -14.8 DEGREES
REMARK 500 THR H 74 N - CA - C ANGL. DEV. = 16.3 DEGREES
REMARK 500 ARG H 75 NE - CZ - NH1 ANGL. DEV. = 3.2 DEGREES
REMARK 500 ARG H 77A NH1 - CZ - NH2 ANGL. DEV. = 6.7 DEGREES
REMARK 500 ARG H 77A NE - CZ - NH2 ANGL. DEV. = -6.7 DEGREES
REMARK 500 ARG H 77A CA - C - O ANGL. DEV. = -13.9 DEGREES
REMARK 500 ARG H 77A CA - C - N ANGL. DEV. = 15.2 DEGREES
REMARK 500 ASN H 78 C - N - CA ANGL. DEV. = -16.6 DEGREES
REMARK 500 GLU H 86 CG - CD - OE1 ANGL. DEV. = -14.9 DEGREES
REMARK 500 GLU H 86 CG - CD - OE2 ANGL. DEV. = 12.9 DEGREES
REMARK 500 HIS H 91 CE1 - NE2 - CD2 ANGL. DEV. = 4.4 DEGREES
REMARK 500 ARG H 93 CD - NE - CZ ANGL. DEV. = 28.7 DEGREES
REMARK 500 ARG H 93 NE - CZ - NH1 ANGL. DEV. = -7.6 DEGREES
REMARK 500 ARG H 93 NE - CZ - NH2 ANGL. DEV. = 3.2 DEGREES
REMARK 500 TYR H 94 CB - CG - CD2 ANGL. DEV. = -4.4 DEGREES
REMARK 500 ARG H 97 CB - CG - CD ANGL. DEV. = 23.9 DEGREES
REMARK 500 ARG H 97 CD - NE - CZ ANGL. DEV. = -16.6 DEGREES
REMARK 500 GLU H 97A CA - CB - CG ANGL. DEV. = 18.1 DEGREES
REMARK 500 ASP H 100 CB - CG - OD2 ANGL. DEV. = -6.4 DEGREES
REMARK 500 ARG H 101 NE - CZ - NH1 ANGL. DEV. = 6.7 DEGREES
REMARK 500 ARG H 101 NE - CZ - NH2 ANGL. DEV. = -10.0 DEGREES
REMARK 500 ASP H 102 CB - CG - OD2 ANGL. DEV. = -5.8 DEGREES
REMARK 500 LEU H 123 CA - CB - CG ANGL. DEV. = 17.2 DEGREES
REMARK 500 ASP H 125 CB - CG - OD1 ANGL. DEV. = -10.1 DEGREES
REMARK 500 ASP H 125 CB - CG - OD2 ANGL. DEV. = 11.7 DEGREES
REMARK 500 ARG H 126 NE - CZ - NH1 ANGL. DEV. = 8.0 DEGREES
REMARK 500 ARG H 126 NE - CZ - NH2 ANGL. DEV. = -7.9 DEGREES
REMARK 500 GLU H 127 CA - CB - CG ANGL. DEV. = 15.6 DEGREES
REMARK 500 TYR H 134 CG - CD1 - CE1 ANGL. DEV. = 4.8 DEGREES
REMARK 500
REMARK 500 THIS ENTRY HAS 88 ANGLE DEVIATIONS.
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 ALA L 1B -41.47 167.06
REMARK 500 PHE L 7 -79.88 -131.38
REMARK 500 TYR L 14J 46.93 -91.84
REMARK 500 TYR H 60A 83.12 -155.97
REMARK 500 ASN H 60G 66.85 -158.74
REMARK 500 HIS H 71 -55.64 -129.12
REMARK 500 ARG H 77A -57.79 -24.75
REMARK 500 ILE H 79 -64.05 -101.80
REMARK 500 GLU H 97A -51.59 -120.99
REMARK 500 ASN H 98 10.87 -141.13
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 126 0.15 SIDE CHAIN
REMARK 500 ARG H 233 0.11 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 GLU H 77 10.01
REMARK 500
REMARK 500 REMARK: NULL
REMARK 600
REMARK 600 HETEROGEN
REMARK 600
REMARK 600 THE CYCLIC LIGAND 1ZV COVALENTLY BINDS TO THROMBIN HEAVY CHAIN
REMARK 600 BETWEEN C8 ATOM OF 1ZV5H AND OG ATOM OF SER195H, FORMING A HEMIKETAL
REMARK 630
REMARK 630 MOLECULE TYPE: PEPTIDE-LIKE INHIBITOR
REMARK 630 MOLECULE NAME: AMINO({3-[(3R,5R,14S,16S,21AR)-5,14-DIHYDROXY-1,4,
REMARK 630 17-TRIOXO-16-(2-PHENYLETHYL)ICOSAHYDRO-1H-PYRROLO[1,2-D][1,4,7,11]
REMARK 630 TETRAAZACYCLONONADECIN-3-YL]PROPYL}AMINO)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 1ZV H 5
REMARK 630 SOURCE: NULL
REMARK 630 TAXONOMY: NULL
REMARK 630 SUBCOMP: HMF PRO 00W 8AC
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 CHAIN I OF HIRUGEN
REMARK 800
REMARK 800 SITE_IDENTIFIER: AC2
REMARK 800 EVIDENCE_CODE: SOFTWARE
REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE 1ZV H 5
REMARK 800
REMARK 800 SITE_IDENTIFIER: CAT
REMARK 800 EVIDENCE_CODE: UNKNOWN
REMARK 800 SITE_DESCRIPTION: ACTIVE SITE
DBREF 1AY6 L 1H 14N UNP P00734 THRB_HUMAN 328 363
DBREF 1AY6 H 16 247 UNP P00734 THRB_HUMAN 364 622
DBREF 1AY6 I 55 64 UNP P01050 ITHB_HIRME 55 64
SEQADV 1AY6 ACE I 52 UNP P01050 INSERTION
SEQADV 1AY6 ASN I 53 UNP P01050 INSERTION
SEQADV 1AY6 GLU I 54 UNP P01050 INSERTION
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 13 ACE ASN GLU ASP PHE GLU GLU ILE PRO GLU GLU TYS LEU
MODRES 1AY6 TYS I 63 TYR O-SULFO-L-TYROSINE
HET TYS I 63 16
HET 1ZV H 5 42
HETNAM TYS O-SULFO-L-TYROSINE
HETNAM 1ZV AMINO({3-[(3R,5R,14S,16S,21AR)-5,14-DIHYDROXY-1,4,17-
HETNAM 2 1ZV TRIOXO-16-(2-PHENYLETHYL)ICOSAHYDRO-1H-PYRROLO[1,2-
HETNAM 3 1ZV D][1,4,7,11]TETRAAZACYCLONONADECIN-3-YL]PROPYL}AMINO)
HETNAM 4 1ZV METHANIMINIUM
FORMUL 3 TYS C9 H11 N O6 S
FORMUL 4 1ZV C30 H50 N7 O5 1+
FORMUL 5 HOH *176(H2 O)
HELIX 1 1 GLU L 8 LYS L 10 5 3
HELIX 2 2 GLU L 14C SER L 14I 1 7
HELIX 3 3 ALA H 56 CYS H 58 5 3
HELIX 4 4 PRO H 60B TRP H 60D 5 3
HELIX 5 5 GLU H 61 ASP H 63 5 3
HELIX 6 6 ARG H 126 LEU H 129C 1 7
HELIX 7 7 ARG H 165 SER H 171 1 7
HELIX 8 8 PRO H 186 GLU H 186B 5 3
HELIX 9 9 PHE H 232 PHE H 245 5 14
SHEET 1 A 4 LYS H 81 MET H 84 0
SHEET 2 A 4 LEU H 64 ILE H 68 -1 N ILE H 68 O LYS H 81
SHEET 3 A 4 GLN H 30 ARG H 35 -1 N PHE H 34 O LEU H 65
SHEET 4 A 4 GLU H 39 SER H 45 -1 N ALA H 44 O VAL H 31
SHEET 1 B 3 TRP H 51 THR H 54 0
SHEET 2 B 3 ALA H 104 LEU H 108 -1 N MET H 106 O VAL H 52
SHEET 3 B 3 LEU H 85 ILE H 90 -1 N TYR H 89 O LEU H 105
SHEET 1 C 2 LYS H 135 GLY H 140 0
SHEET 2 C 2 GLN H 156 PRO H 161 -1 N LEU H 160 O GLY H 136
SHEET 1 D 4 MET H 180 ALA H 183 0
SHEET 2 D 4 GLY H 226 HIS H 230 -1 N TYR H 228 O PHE H 181
SHEET 3 D 4 TRP H 207 TRP H 215 -1 N TRP H 215 O PHE H 227
SHEET 4 D 4 PRO H 198 LYS H 202 -1 N MET H 201 O TYR H 208
SSBOND 1 CYS L 1 CYS H 122 1555 1555 1.99
SSBOND 2 CYS H 42 CYS H 58 1555 1555 1.98
SSBOND 3 CYS H 168 CYS H 182 1555 1555 1.98
SSBOND 4 CYS H 191 CYS H 220 1555 1555 2.05
LINK C8 1ZV H 5 OG SER H 195 1555 1555 1.60
LINK C TYS I 63 N LEU I 64 1555 1555 1.34
CISPEP 1 SER H 36A PRO H 37 0 0.54
SITE 1 AC1 13 PHE H 34 LYS H 36 GLN H 38 ARG H 67
SITE 2 AC1 13 ARG H 73 THR H 74 ARG H 75 TYR H 76
SITE 3 AC1 13 GLU H 80 LYS H 81 ILE H 82 HOH H 803
SITE 4 AC1 13 HOH I 552
SITE 1 AC2 13 HIS H 57 ASN H 98 ILE H 174 ASP H 189
SITE 2 AC2 13 ALA H 190 GLU H 192 GLY H 193 SER H 195
SITE 3 AC2 13 SER H 214 TRP H 215 GLY H 216 GLY H 219
SITE 4 AC2 13 GLY H 226
SITE 1 CAT 3 HIS H 57 ASP H 102 SER H 195
CRYST1 71.080 72.140 72.820 90.00 100.80 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 0.014069 0.000000 0.002684 0.00000
SCALE2 0.000000 0.013862 0.000000 0.00000
SCALE3 0.000000 0.000000 0.013980 0.00000