HEADER HYDROLASE/HYDROLASE INHIBITOR 26-FEB-99 7KME TITLE CRYSTAL STRUCTURE OF HUMAN ALPHA-THROMBIN INHIBITED WITH SEL2711. COMPND MOL_ID: 1; COMPND 2 MOLECULE: THROMBIN L-CHAIN; COMPND 3 CHAIN: L; COMPND 4 EC: 3.4.21.5; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: THROMBIN H-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 ENGINEERED: YES; COMPND 13 MOL_ID: 4; COMPND 14 MOLECULE: SEL2711; COMPND 15 CHAIN: J; 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 MOL_ID: 4; SOURCE 12 SYNTHETIC: YES KEYWDS SELECTIDE INHIBITOR, HYDROLASE-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR I.MOCHALKIN,A.TULINSKY REVDAT 9 15-NOV-23 7KME 1 REMARK REVDAT 8 27-SEP-23 7KME 1 REMARK REVDAT 7 20-SEP-23 7KME 1 REMARK LINK REVDAT 6 04-OCT-17 7KME 1 REMARK REVDAT 5 13-JUL-11 7KME 1 VERSN REVDAT 4 24-FEB-09 7KME 1 VERSN REVDAT 3 07-FEB-00 7KME 1 HEADER COMPND SEQRES SEQADV REVDAT 3 2 1 MODRES REVDAT 2 25-MAR-99 7KME 1 JRNL REVDAT 1 09-MAR-99 7KME 0 JRNL AUTH I.MOCHALKIN,A.TULINSKY JRNL TITL STRUCTURES OF THROMBIN RETRO-INHIBITED WITH SEL2711 AND JRNL TITL 2 SEL2770 AS THEY RELATE TO FACTOR XA BINDING. JRNL REF ACTA CRYSTALLOGR.,SECT.D V. 55 785 1999 JRNL REFN ISSN 0907-4449 JRNL PMID 10089309 JRNL DOI 10.1107/S0907444999000359 REMARK 2 REMARK 2 RESOLUTION. 2.10 ANGSTROMS. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : PROFFT REMARK 3 AUTHORS : KONNERT,HENDRICKSON,FINZEL REMARK 3 REMARK 3 DATA USED IN REFINEMENT. REMARK 3 RESOLUTION RANGE HIGH (ANGSTROMS) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 9.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 1.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 78.0 REMARK 3 NUMBER OF REFLECTIONS : 14194 REMARK 3 REMARK 3 FIT TO DATA USED IN REFINEMENT. REMARK 3 CROSS-VALIDATION METHOD : NULL REMARK 3 FREE R VALUE TEST SET SELECTION : NULL REMARK 3 R VALUE (WORKING + TEST SET) : NULL REMARK 3 R VALUE (WORKING SET) : 0.165 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 : 2333 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 2 REMARK 3 SOLVENT ATOMS : 130 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) : 0.015 ; 0.011 REMARK 3 ANGLE DISTANCE (A) : 0.030 ; 0.037 REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : 0.050 ; 0.047 REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : 0.040 ; 0.034 REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : 0.150 ; 0.170 REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : 0.600 ; 0.220 REMARK 3 MULTIPLE TORSION (A) : 0.600 ; 0.250 REMARK 3 H-BOND (X...Y) (A) : 0.600 ; 0.250 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) : 1.000 ; 1.000 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 1.500 ; 1.700 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.000 ; 2.500 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 3.000 ; 3.600 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 7KME COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 02-MAR-99. REMARK 100 THE DEPOSITION ID IS D_1000000554. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : 15-FEB-97 REMARK 200 TEMPERATURE (KELVIN) : 293.0 REMARK 200 PH : 7.30 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 : NI FILTER REMARK 200 OPTICS : MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : NULL REMARK 200 INTENSITY-INTEGRATION SOFTWARE : R-AXIS (RIGAKU) REMARK 200 DATA SCALING SOFTWARE : NULL REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 17688 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 20.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : NULL REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 78.0 REMARK 200 DATA REDUNDANCY : 1.600 REMARK 200 R MERGE (I) : 0.06900 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) : 2.10 REMARK 200 HIGHEST RESOLUTION SHELL, RANGE LOW (A) : 2.30 REMARK 200 COMPLETENESS FOR SHELL (%) : 52.0 REMARK 200 DATA REDUNDANCY IN SHELL : NULL REMARK 200 R MERGE FOR SHELL (I) : 0.14800 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 FOR SHELL : 3.200 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: 1HAH REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.08 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.57 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 7.30 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 35.52500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 35.91000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 35.52500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 35.91000 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 APPLY THE FOLLOWING TO CHAINS: L, H, I, J 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 481 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 53 - 64 REMARK 400 WITH SULFATO-TYR AT 63. REMARK 400 REMARK 400 THE N-{(2S)-2-[(N-ACETYL-4-CARBAMIMIDOYL-L-PHENYLALANYL)AMINO]-2- REMARK 400 CYCLOHEXYLACETYL}-3-(1-METHYLPYRIDINIUM-3-YL)- L-ALANYL-D-LEUCYL-L- REMARK 400 PROLINAMIDE IS PEPTIDE-LIKE, A MEMBER OF INHIBITOR CLASS. REMARK 400 REMARK 400 GROUP: 1 REMARK 400 NAME: N-{(2S)-2-[(N-ACETYL-4-CARBAMIMIDOYL-L-PHENYLALANYL)AMINO]- REMARK 400 2-CYCLOHEXYLACETYL}-3-(1-METHYLPYRIDINIUM-3-YL)- L-ALANYL-D- REMARK 400 LEUCYL-L-PROLINAMIDE REMARK 400 CHAIN: J 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 GLY L 1D REMARK 465 GLU L 1C REMARK 465 ALA L 0B REMARK 465 ILE L 14K 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 LEU J 383 REMARK 465 PRO J 384 REMARK 465 NH2 J 385 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 L 14A CD CE NZ REMARK 470 ARG L 14D CD NE CZ NH1 NH2 REMARK 470 ARG H 50 NH1 NH2 REMARK 470 ARG H 75 CG CD NE CZ NH1 NH2 REMARK 470 LYS H 236 CG CD CE NZ REMARK 470 ASP H 243 CG OD1 OD2 REMARK 470 GLN H 244 CB CG CD OE1 NE2 REMARK 470 GLU H 247 CB CG CD OE1 OE2 REMARK 470 GLU I 358 CB CG CD OE1 OE2 REMARK 470 GLU I 361 CB CG CD OE1 OE2 REMARK 470 GLU I 362 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 O TYR L 14J O HOH L 490 2.13 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 GLY H 246 CA GLY H 246 C -0.200 REMARK 500 CHG J 381 C PRR J 382 N 0.165 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 SER H 27 CB - CA - C ANGL. DEV. = 12.1 DEGREES REMARK 500 ARG H 35 NE - CZ - NH2 ANGL. DEV. = -4.3 DEGREES REMARK 500 CYS H 42 CA - CB - SG ANGL. DEV. = 9.2 DEGREES REMARK 500 ARG H 73 CD - NE - CZ ANGL. DEV. = 12.6 DEGREES REMARK 500 ARG H 73 NE - CZ - NH1 ANGL. DEV. = 5.6 DEGREES REMARK 500 ARG H 77A CD - NE - CZ ANGL. DEV. = 9.4 DEGREES REMARK 500 ARG H 77A NE - CZ - NH1 ANGL. DEV. = 3.6 DEGREES REMARK 500 ARG H 97 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 ASP H 116 CB - CG - OD1 ANGL. DEV. = 6.8 DEGREES REMARK 500 CYS H 122 CA - CB - SG ANGL. DEV. = 7.1 DEGREES REMARK 500 ARG H 126 CD - NE - CZ ANGL. DEV. = 12.7 DEGREES REMARK 500 ARG H 126 NE - CZ - NH1 ANGL. DEV. = 9.0 DEGREES REMARK 500 ARG H 126 NE - CZ - NH2 ANGL. DEV. = -7.8 DEGREES REMARK 500 ARG H 165 NE - CZ - NH1 ANGL. DEV. = 4.3 DEGREES REMARK 500 ARG H 206 NE - CZ - NH2 ANGL. DEV. = -4.2 DEGREES REMARK 500 ARG H 221A NH1 - CZ - NH2 ANGL. DEV. = -11.6 DEGREES REMARK 500 ARG H 221A NE - CZ - NH1 ANGL. DEV. = 17.1 DEGREES REMARK 500 ARG H 221A NE - CZ - NH2 ANGL. DEV. = -11.7 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 7 -75.75 -122.81 REMARK 500 GLU H 18 41.51 70.33 REMARK 500 SER H 36A 118.49 -165.74 REMARK 500 ASN H 60G 74.99 -160.15 REMARK 500 HIS H 71 -47.60 -131.56 REMARK 500 GLU H 97A -64.89 -120.48 REMARK 500 HIS H 119 135.47 -177.81 REMARK 500 LEU H 130 76.65 -68.66 REMARK 500 ALA H 132 123.75 -38.62 REMARK 500 GLU H 192 140.26 -38.49 REMARK 500 SER H 195 142.17 -38.13 REMARK 500 SER H 214 -71.04 -105.70 REMARK 500 PHE H 245 84.18 179.74 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 97 0.18 SIDE CHAIN REMARK 500 ARG H 126 0.11 SIDE CHAIN REMARK 500 ARG H 165 0.14 SIDE CHAIN REMARK 500 ARG H 187 0.09 SIDE CHAIN REMARK 500 ARG H 221A 0.31 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 ASP L 14 15.06 REMARK 500 ILE H 24 10.47 REMARK 500 TYR H 117 10.40 REMARK 500 LEU H 160 -11.25 REMARK 500 CYS H 191 10.54 REMARK 500 REMARK 500 REMARK: NULL REMARK 600 REMARK 600 HETEROGEN REMARK 600 REMARK 600 OCCUPIES THE SPECIFICITY REMARK 600 SITE OF THROMBIN REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA H 950 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 LYS H 169 O REMARK 620 2 THR H 172 O 65.8 REMARK 620 3 HOH H 493 O 67.7 87.8 REMARK 620 4 HOH H 495 O 160.1 104.1 130.9 REMARK 620 5 HOH H 535 O 78.0 133.5 104.9 100.4 REMARK 620 N 1 2 3 4 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NA H 951 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ARG H 221A O REMARK 620 2 LYS H 224 O 80.1 REMARK 620 3 HOH H 492 O 120.4 156.7 REMARK 620 4 HOH H 522 O 93.1 95.8 94.1 REMARK 620 5 HOH H 531 O 133.3 54.2 106.3 83.5 REMARK 620 6 HOH H 548 O 85.4 63.8 104.2 159.6 82.8 REMARK 620 N 1 2 3 4 5 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: CAT REMARK 800 EVIDENCE_CODE: AUTHOR 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 RESIDUE NA H 950 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA H 951 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR CHAIN J OF SEL2711 DBREF 7KME L 1H 14N UNP P00734 THRB_HUMAN 328 363 DBREF 7KME H 16 247 UNP P00734 THRB_HUMAN 364 622 DBREF 7KME I 355 364 PDB 7KME 7KME 355 364 DBREF 7KME J 379 385 PDB 7KME 7KME 379 385 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 10 ASP PHE GLU GLU ILE PRO GLU GLU TYS LEU SEQRES 1 J 7 ACE 0BN CHG PRR LEU PRO NH2 MODRES 7KME TYS I 363 TYR O-SULFO-L-TYROSINE MODRES 7KME 0BN J 380 PHE 4-CARBAMIMIDOYL-L-PHENYLALANINE HET TYS I 363 16 HET ACE J 379 3 HET 0BN J 380 14 HET CHG J 381 10 HET PRR J 382 12 HET NA H 950 1 HET NA H 951 1 HETNAM TYS O-SULFO-L-TYROSINE HETNAM ACE ACETYL GROUP HETNAM 0BN 4-CARBAMIMIDOYL-L-PHENYLALANINE HETNAM CHG CYCLOHEXYL-GLYCINE HETNAM PRR 3-(METHYL-PYRIDINIUM)ALANINE HETNAM NA SODIUM ION FORMUL 3 TYS C9 H11 N O6 S FORMUL 4 ACE C2 H4 O FORMUL 4 0BN C10 H13 N3 O2 FORMUL 4 CHG C8 H15 N O2 FORMUL 4 PRR C9 H13 N2 O2 1+ FORMUL 5 NA 2(NA 1+) FORMUL 7 HOH *130(H2 O) HELIX 1 1 GLU L 8 LYS L 10 5 3 HELIX 2 2 GLU L 14C GLU L 14H 1 6 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 VAL H 231 GLN H 244 1 14 SHEET 1 A 4 LYS H 81 SER H 83 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 LEU H 40 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 17 SHEET 3 B 3 LEU H 59 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 GLY H 216 -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 2.03 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 2.03 LINK C GLU I 362 N TYS I 363 1555 1555 1.33 LINK C TYS I 363 N LEU I 364 1555 1555 1.32 LINK C ACE J 379 N 0BN J 380 1555 1555 1.29 LINK C 0BN J 380 N CHG J 381 1555 1555 1.30 LINK C CHG J 381 N PRR J 382 1555 1555 1.50 LINK O LYS H 169 NA NA H 950 1555 1555 2.71 LINK O THR H 172 NA NA H 950 1555 1555 2.59 LINK O ARG H 221A NA NA H 951 1555 1555 2.62 LINK O LYS H 224 NA NA H 951 1555 1555 2.54 LINK O HOH H 492 NA NA H 951 1555 1555 2.44 LINK O HOH H 493 NA NA H 950 1555 1555 2.66 LINK O HOH H 495 NA NA H 950 1555 1555 2.68 LINK O HOH H 522 NA NA H 951 1555 1555 2.62 LINK O HOH H 531 NA NA H 951 1555 1555 2.70 LINK O HOH H 535 NA NA H 950 4546 1555 2.50 LINK O HOH H 548 NA NA H 951 1555 1555 2.52 CISPEP 1 SER H 36A PRO H 37 0 -4.22 CISPEP 2 GLY H 246 GLU H 247 0 29.47 SITE 1 CAT 3 HIS H 57 ASP H 102 SER H 195 SITE 1 AC1 6 LYS H 169 THR H 172 PHE H 204A HOH H 493 SITE 2 AC1 6 HOH H 495 HOH H 535 SITE 1 AC2 6 ARG H 221A LYS H 224 HOH H 492 HOH H 522 SITE 2 AC2 6 HOH H 531 HOH H 548 SITE 1 AC3 13 HIS H 57 GLU H 97A LEU H 99 ILE H 174 SITE 2 AC3 13 ASP H 189 ALA H 190 GLU H 192 SER H 195 SITE 3 AC3 13 SER H 214 TRP H 215 GLY H 216 GLY H 219 SITE 4 AC3 13 HOH H 438 CRYST1 71.050 71.820 73.450 90.00 101.20 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 0.014075 0.000000 0.002787 0.00000 SCALE2 0.000000 0.013924 0.000000 0.00000 SCALE3 0.000000 0.000000 0.013879 0.00000