HEADER HYDROLASE/HYDROLASE INHIBITOR 27-MAY-93 1TMB
TITLE MOLECULAR BASIS FOR THE INHIBITION OF HUMAN ALPHA-THROMBIN BY THE
TITLE 2 MACROCYCLIC PEPTIDE CYCLOTHEONAMIDE A
COMPND MOL_ID: 1;
COMPND 2 MOLECULE: ALPHA-THROMBIN (SMALL SUBUNIT);
COMPND 3 CHAIN: L;
COMPND 4 EC: 3.4.21.5;
COMPND 5 MOL_ID: 2;
COMPND 6 MOLECULE: ALPHA-THROMBIN (LARGE SUBUNIT);
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 ENGINEERED: YES;
COMPND 13 MOL_ID: 4;
COMPND 14 MOLECULE: CYCLOTHEONAMIDE A;
COMPND 15 CHAIN: T
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 MOL_ID: 4;
SOURCE 12 ORGANISM_SCIENTIFIC: THEONELLA SP.;
SOURCE 13 ORGANISM_COMMON: SPONGES;
SOURCE 14 ORGANISM_TAXID: 73791
KEYWDS SERINE PROTEINASE, HYDROLASE-HYDROLASE INHIBITOR COMPLEX
EXPDTA X-RAY DIFFRACTION
AUTHOR X.QIU,K.P.PADMANABHAN,B.E.MARYANOFF,A.TULINSKY
REVDAT 7 15-NOV-23 1TMB 1 SEQADV LINK ATOM
REVDAT 6 05-JUN-13 1TMB 1 DBREF
REVDAT 5 27-FEB-13 1TMB 1 REMARK
REVDAT 4 13-JUL-11 1TMB 1 VERSN
REVDAT 3 24-FEB-09 1TMB 1 VERSN
REVDAT 2 01-APR-03 1TMB 1 JRNL
REVDAT 1 31-JAN-94 1TMB 0
JRNL AUTH B.E.MARYANOFF,X.QIU,K.P.PADMANABHAN,A.TULINSKY,
JRNL AUTH 2 H.R.ALMOND JR.,P.ANDRADE-GORDON,M.N.GRECO,J.A.KAUFFMAN,
JRNL AUTH 3 K.C.NICOLAOU,A.LIU
JRNL TITL MOLECULAR BASIS FOR THE INHIBITION OF HUMAN ALPHA-THROMBIN
JRNL TITL 2 BY THE MACROCYCLIC PEPTIDE CYCLOTHEONAMIDE A.
JRNL REF PROC.NATL.ACAD.SCI.USA V. 90 8048 1993
JRNL REFN ISSN 0027-8424
JRNL PMID 8367461
JRNL DOI 10.1073/PNAS.90.17.8048
REMARK 2
REMARK 2 RESOLUTION. 2.30 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) : 2.30
REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : NULL
REMARK 3 DATA CUTOFF (SIGMA(F)) : NULL
REMARK 3 COMPLETENESS FOR RANGE (%) : NULL
REMARK 3 NUMBER OF REFLECTIONS : NULL
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) : 0.138
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 : 2405
REMARK 3 NUCLEIC ACID ATOMS : 0
REMARK 3 HETEROGEN ATOMS : 0
REMARK 3 SOLVENT ATOMS : 239
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) : 0.200 ; NULL
REMARK 3 ANGLE DISTANCE (A) : 5.000 ; NULL
REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : NULL ; NULL
REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL
REMARK 3
REMARK 3 PLANE RESTRAINT (A) : NULL ; NULL
REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : NULL ; NULL
REMARK 3
REMARK 3 NON-BONDED CONTACT RESTRAINTS.
REMARK 3 SINGLE TORSION (A) : NULL ; NULL
REMARK 3 MULTIPLE TORSION (A) : NULL ; NULL
REMARK 3 H-BOND (X...Y) (A) : NULL ; NULL
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) : NULL ; NULL
REMARK 3 STAGGERED (DEGREES) : NULL ; NULL
REMARK 3 TRANSVERSE (DEGREES) : NULL ; 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 OTHER REFINEMENT REMARKS: NULL
REMARK 4
REMARK 4 1TMB 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_1000176727.
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 (%): 51.65
REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.54
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 35.30500
REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 36.19000
REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000
REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 35.30500
REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 36.19000
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: TETRAMERIC
REMARK 350 SOFTWARE DETERMINED QUATERNARY STRUCTURE: TETRAMERIC
REMARK 350 SOFTWARE USED: PISA
REMARK 350 TOTAL BURIED SURFACE AREA: 5560 ANGSTROM**2
REMARK 350 SURFACE AREA OF THE COMPLEX: 12290 ANGSTROM**2
REMARK 350 CHANGE IN SOLVENT FREE ENERGY: -22.0 KCAL/MOL
REMARK 350 APPLY THE FOLLOWING TO CHAINS: L, H, I, T
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 432 LIES ON A SPECIAL POSITION.
REMARK 375 HOH H 551 LIES ON A SPECIAL POSITION.
REMARK 375 HOH I 459 LIES ON A SPECIAL POSITION.
REMARK 400
REMARK 400 COMPOUND
REMARK 400 THROMBIN IS CLEAVED BETWEEN RESIDUES 15 AND 16. CHAIN INDICATOR *L*
REMARK 400 IS USED FOR RESIDUES 1H - 15 AND CHAIN INDICATOR *H* IS USED FOR
REMARK 400 RESIDUES 16 - 247. CHAIN INDICATOR *I* IS USED FOR HIRUGEN.
REMARK 400
REMARK 400 THE CYCLOTHEONAMIDE A IS CYCLIC PEPTIDE, A MEMBER OF THROMBIN
REMARK 400 INHIBITOR CLASS.
REMARK 400
REMARK 400 GROUP: 1
REMARK 400 NAME: CYCLOTHEONAMIDE A
REMARK 400 CHAIN: T
REMARK 400 COMPONENT_1: PEPTIDE LIKE POLYMER
REMARK 400 DESCRIPTION: NULL
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 LYS H 81 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 OG1 THR H 60I ND2 ASN H 62 2.01
REMARK 500 NH1 ARG H 50 O LEU H 108 2.03
REMARK 500 OG SER H 195 O1 0MG T 48 2.11
REMARK 500 NH2 ARG H 187 OD1 ASP H 222 2.18
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 OE1 GLU I 57 2555 2.18
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. = 8.8 DEGREES
REMARK 500 CYS L 1 CA - CB - SG ANGL. DEV. = 6.9 DEGREES
REMARK 500 GLU L 13 CB - CA - C ANGL. DEV. = -13.8 DEGREES
REMARK 500 GLU L 13 OE1 - CD - OE2 ANGL. DEV. = 10.1 DEGREES
REMARK 500 GLU L 14C CG - CD - OE1 ANGL. DEV. = 12.9 DEGREES
REMARK 500 ARG L 14D NE - CZ - NH2 ANGL. DEV. = -4.6 DEGREES
REMARK 500 ASP H 21 CB - CG - OD1 ANGL. DEV. = 7.2 DEGREES
REMARK 500 ASP H 21 CB - CG - OD2 ANGL. DEV. = -5.5 DEGREES
REMARK 500 ARG H 35 NE - CZ - NH1 ANGL. DEV. = 3.5 DEGREES
REMARK 500 ARG H 35 NE - CZ - NH2 ANGL. DEV. = -6.2 DEGREES
REMARK 500 GLN H 38 CB - CA - C ANGL. DEV. = -13.9 DEGREES
REMARK 500 GLN H 38 CA - CB - CG ANGL. DEV. = 14.0 DEGREES
REMARK 500 ASP H 49 CB - CG - OD2 ANGL. DEV. = 8.7 DEGREES
REMARK 500 ARG H 50 NE - CZ - NH1 ANGL. DEV. = 4.6 DEGREES
REMARK 500 TYR H 60A CB - CG - CD1 ANGL. DEV. = -6.0 DEGREES
REMARK 500 ARG H 67 CD - NE - CZ ANGL. DEV. = 8.9 DEGREES
REMARK 500 ARG H 67 NE - CZ - NH1 ANGL. DEV. = 3.3 DEGREES
REMARK 500 ARG H 73 CD - NE - CZ ANGL. DEV. = 55.0 DEGREES
REMARK 500 ARG H 73 NE - CZ - NH1 ANGL. DEV. = -5.9 DEGREES
REMARK 500 ARG H 73 NE - CZ - NH2 ANGL. DEV. = 3.8 DEGREES
REMARK 500 THR H 74 OG1 - CB - CG2 ANGL. DEV. = 14.6 DEGREES
REMARK 500 ARG H 75 CD - NE - CZ ANGL. DEV. = 19.3 DEGREES
REMARK 500 ARG H 75 NE - CZ - NH1 ANGL. DEV. = 4.8 DEGREES
REMARK 500 ARG H 77A CA - C - O ANGL. DEV. = -14.0 DEGREES
REMARK 500 ARG H 77A CA - C - N ANGL. DEV. = 17.0 DEGREES
REMARK 500 GLU H 80 CG - CD - OE2 ANGL. DEV. = 13.3 DEGREES
REMARK 500 GLU H 86 OE1 - CD - OE2 ANGL. DEV. = 7.5 DEGREES
REMARK 500 ARG H 93 CD - NE - CZ ANGL. DEV. = 8.7 DEGREES
REMARK 500 ARG H 93 NE - CZ - NH2 ANGL. DEV. = -5.4 DEGREES
REMARK 500 ARG H 101 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES
REMARK 500 PHE H 114 CB - CG - CD1 ANGL. DEV. = -6.5 DEGREES
REMARK 500 SER H 115 CB - CA - C ANGL. DEV. = 11.9 DEGREES
REMARK 500 ASP H 116 CB - CG - OD1 ANGL. DEV. = 7.8 DEGREES
REMARK 500 ASP H 116 CB - CG - OD2 ANGL. DEV. = -8.6 DEGREES
REMARK 500 ASP H 125 CB - CG - OD1 ANGL. DEV. = 6.0 DEGREES
REMARK 500 ASP H 125 CB - CG - OD2 ANGL. DEV. = -7.7 DEGREES
REMARK 500 ARG H 126 NE - CZ - NH1 ANGL. DEV. = 4.9 DEGREES
REMARK 500 ARG H 126 NE - CZ - NH2 ANGL. DEV. = -6.1 DEGREES
REMARK 500 ARG H 137 NE - CZ - NH1 ANGL. DEV. = 4.5 DEGREES
REMARK 500 VAL H 154 N - CA - CB ANGL. DEV. = -13.5 DEGREES
REMARK 500 GLU H 164 OE1 - CD - OE2 ANGL. DEV. = -10.4 DEGREES
REMARK 500 ARG H 165 NE - CZ - NH1 ANGL. DEV. = 5.3 DEGREES
REMARK 500 VAL H 167 CG1 - CB - CG2 ANGL. DEV. = 11.2 DEGREES
REMARK 500 ARG H 173 NE - CZ - NH1 ANGL. DEV. = 3.8 DEGREES
REMARK 500 TYR H 184A CB - CG - CD2 ANGL. DEV. = 4.2 DEGREES
REMARK 500 TYR H 184A CB - CG - CD1 ANGL. DEV. = -5.6 DEGREES
REMARK 500 ARG H 187 CD - NE - CZ ANGL. DEV. = -13.6 DEGREES
REMARK 500 ARG H 187 NE - CZ - NH1 ANGL. DEV. = -6.8 DEGREES
REMARK 500 ARG H 187 NE - CZ - NH2 ANGL. DEV. = 3.5 DEGREES
REMARK 500 GLU H 192 CB - CG - CD ANGL. DEV. = 20.9 DEGREES
REMARK 500
REMARK 500 THIS ENTRY HAS 65 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 GLU L 1C 85.37 -48.33
REMARK 500 ALA L 1B -28.02 -161.83
REMARK 500 PHE L 7 -92.36 -129.37
REMARK 500 TYR L 14J 37.80 -88.47
REMARK 500 SER H 36A 113.57 -174.53
REMARK 500 SER H 48 -177.42 -171.58
REMARK 500 ASN H 60G 62.37 -155.28
REMARK 500 HIS H 71 -58.77 -127.42
REMARK 500 GLU H 77 67.84 -55.59
REMARK 500 ARG H 77A -61.50 -27.12
REMARK 500 ILE H 79 -63.31 -94.84
REMARK 500 ASN H 98 23.21 -152.98
REMARK 500 ARG H 101 35.61 71.21
REMARK 500 ASP H 102 78.10 -65.73
REMARK 500 ASN H 205 43.98 38.05
REMARK 500 SER H 214 -69.48 -107.00
REMARK 500 0FL T 51 -88.05 150.59
REMARK 500
REMARK 500 REMARK: NULL
REMARK 500
REMARK 500 GEOMETRY AND STEREOCHEMISTRY
REMARK 500 SUBTOPIC: NON-CIS, NON-TRANS
REMARK 500
REMARK 500 THE FOLLOWING PEPTIDE BONDS DEVIATE SIGNIFICANTLY FROM BOTH
REMARK 500 CIS AND TRANS CONFORMATION. CIS BONDS, IF ANY, ARE LISTED
REMARK 500 ON CISPEP RECORDS. TRANS IS DEFINED AS 180 +/- 30 AND
REMARK 500 CIS IS DEFINED AS 0 +/- 30 DEGREES.
REMARK 500 MODEL OMEGA
REMARK 500 VLT T 50 0FL T 51 -137.96
REMARK 500
REMARK 500 REMARK: NULL
REMARK 600
REMARK 600 HETEROGEN
REMARK 600
REMARK 600 CAUTION SHOULD BE TAKEN IF SOLVENT MOLECULES WITH OCCUPANCY
REMARK 600 LESS THAN 0.5 ARE USED IN ANY STRUCTURAL OR BIOLOGICAL
REMARK 600 DISCUSSIONS.
REMARK 800
REMARK 800 SITE
REMARK 800 SITE_IDENTIFIER: CAT
REMARK 800 EVIDENCE_CODE: UNKNOWN
REMARK 800 SITE_DESCRIPTION: CATALYTIC SITE
REMARK 800
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 CHAIN T OF CYCLOTHEONAMIDE A
REMARK 999
REMARK 999 SEQUENCE
REMARK 999 THE HIRUGEN RESIDUE NUMBERING CORRESPONDS TO THE C-TERMINAL
REMARK 999 RESIDUES OF HIRUDIN.
DBREF 1TMB L 1H 14N UNP P00734 THRB_HUMAN 328 363
DBREF 1TMB H 16 247 UNP P00734 THRB_HUMAN 364 622
DBREF 1TMB I 53 64 UNP P09945 ITH3_HIRME 60 71
DBREF 1TMB T 48 52 NOR NOR00471 NOR00471 1 5
SEQADV 1TMB GLU I 54 UNP P09945 GLY 61 CONFLICT
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
SEQRES 1 T 5 0MG DPN VLT 0FL PRO
MODRES 1TMB TYS I 63 TYR O-SULFO-L-TYROSINE
MODRES 1TMB 0FL T 51 ALA 3-AMINO-N-FORMYL-L-ALANINE
HET TYS I 63 16
HET 0MG T 48 13
HET DPN T 49 11
HET VLT T 50 14
HET 0FL T 51 8
HETNAM TYS O-SULFO-L-TYROSINE
HETNAM 0MG AMINO{[(4S)-4-AMINO-5-CARBOXY-5-
HETNAM 2 0MG OXOPENTYL]AMINO}METHANIMINIUM
HETNAM DPN D-PHENYLALANINE
HETNAM VLT (2E,4S)-4-AMINO-5-(4-HYDROXYPHENYL)PENT-2-ENOIC ACID
HETNAM 0FL 3-AMINO-N-FORMYL-L-ALANINE
FORMUL 3 TYS C9 H11 N O6 S
FORMUL 4 0MG C7 H15 N4 O3 1+
FORMUL 4 DPN C9 H11 N O2
FORMUL 4 VLT C11 H13 N O3
FORMUL 4 0FL C4 H8 N2 O3
FORMUL 5 HOH *239(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 164 SER H 171 1 8
HELIX 8 8 LYS H 185 GLY H 186C 5 5
HELIX 9 9 LEU H 234 GLY H 246 1 13
HELIX 10 10 PRO I 60 LEU I 64 5 5
SHEET 1 A 7 SER H 20 ASP H 21 0
SHEET 2 A 7 GLN H 156 PRO H 161 -1 N VAL H 157 O SER H 20
SHEET 3 A 7 LYS H 135 GLY H 140 -1 O GLY H 136 N LEU H 160
SHEET 4 A 7 PRO H 198 LYS H 202 -1 O PRO H 198 N THR H 139
SHEET 5 A 7 TRP H 207 TRP H 215 -1 N TYR H 208 O MET H 201
SHEET 6 A 7 GLY H 226 HIS H 230 -1 O PHE H 227 N SER H 214
SHEET 7 A 7 MET H 180 ALA H 183 -1 O PHE H 181 N TYR H 228
SHEET 1 B 7 GLN H 30 ARG H 35 0
SHEET 2 B 7 GLU H 39 LEU H 46 -1 O GLU H 39 N ARG H 35
SHEET 3 B 7 TRP H 51 THR H 54 -1 N LEU H 53 O SER H 45
SHEET 4 B 7 ALA H 104 LEU H 108 -1 O ALA H 104 N THR H 54
SHEET 5 B 7 LYS H 81 ILE H 90 -1 N GLU H 86 O LYS H 107
SHEET 6 B 7 LEU H 64 ILE H 68 -1 O LEU H 64 N LEU H 85
SHEET 7 B 7 GLN H 30 ARG H 35 -1 N MET H 32 O ARG H 67
SSBOND 1 CYS L 1 CYS H 122 1555 1555 2.08
SSBOND 2 CYS H 42 CYS H 58 1555 1555 2.03
SSBOND 3 CYS H 168 CYS H 182 1555 1555 2.03
SSBOND 4 CYS H 191 CYS H 220 1555 1555 2.04
LINK OG SER H 195 CA 0MG T 48 1555 1555 1.76
LINK C GLU I 62 N TYS I 63 1555 1555 1.33
LINK C TYS I 63 N LEU I 64 1555 1555 1.33
LINK C 0MG T 48 N DPN T 49 1555 1555 1.34
LINK N 0MG T 48 C PRO T 52 1555 1555 1.32
LINK C DPN T 49 N VLT T 50 1555 1555 1.31
LINK C VLT T 50 N 0FL T 51 1555 1555 1.30
LINK C 0FL T 51 N PRO T 52 1555 1555 1.30
CISPEP 1 SER H 36A PRO H 37 0 -0.89
SITE 1 CAT 3 HIS H 57 ASP H 102 SER H 195
SITE 1 AC1 13 PHE H 34 LYS H 36 GLN H 38 ARG H 73
SITE 2 AC1 13 THR H 74 ARG H 75 TYR H 76 LYS H 81
SITE 3 AC1 13 ILE H 82 MET H 84 HOH H 424 HOH I 519
SITE 4 AC1 13 HOH I 588
SITE 1 AC2 19 LEU H 40 LEU H 41 HIS H 57 TYR H 60A
SITE 2 AC2 19 TRP H 60D LEU H 99 ASP H 189 ALA H 190
SITE 3 AC2 19 CYS H 191 GLU H 192 GLY H 193 ASP H 194
SITE 4 AC2 19 SER H 195 SER H 214 TRP H 215 GLY H 216
SITE 5 AC2 19 GLY H 219 HOH T 401 HOH T 610
CRYST1 70.610 72.380 73.350 90.00 101.10 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 0.014162 0.000000 0.002779 0.00000
SCALE2 0.000000 0.013816 0.000000 0.00000
SCALE3 0.000000 0.000000 0.013893 0.00000