PDB Short entry for 1A2C HEADER HYDROLASE/HYDROLASE INHIBITOR 26-DEC-97 1A2C TITLE STRUCTURE OF THROMBIN INHIBITED BY AERUGINOSIN298-A FROM A BLUE-GREEN TITLE 2 ALGA CAVEAT 1A2C THE C-N BOND DISTANCE IS TOO LONG BETWEEN ASP 14L AND GLY CAVEAT 2 1A2C 14M IN CHAIN L. 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: HIRUDIN VARIANT-2; COMPND 11 CHAIN: I; COMPND 12 FRAGMENT: UNP RESIDUES 60-71; COMPND 13 ENGINEERED: YES; COMPND 14 MOL_ID: 4; COMPND 15 MOLECULE: AERUGINOSIN 298-A; COMPND 16 CHAIN: J 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 MOL_ID: 4; SOURCE 11 ORGANISM_SCIENTIFIC: MICROCYSTIS AERUGINOSA; SOURCE 12 ORGANISM_TAXID: 1126 KEYWDS HYDROLASE, SERINE PROTEASE, HYDROLASE-HYDROLASE INHIBITOR COMPLEX EXPDTA X-RAY DIFFRACTION AUTHOR J.L.RIOS-STEINER,M.MURAKAMI,A.TULINSKY REVDAT 7 15-NOV-23 1A2C 1 LINK ATOM REVDAT 6 02-AUG-23 1A2C 1 REMARK LINK REVDAT 5 05-JUN-13 1A2C 1 HETATM REVDAT 4 13-JUL-11 1A2C 1 VERSN REVDAT 3 07-APR-10 1A2C 1 DBREF REVDAT 2 24-FEB-09 1A2C 1 VERSN REVDAT 1 01-JUL-98 1A2C 0 JRNL AUTH J.L.R.STEINER,M.MURAKAMI,A.TULINSKY JRNL TITL STRUCTURE OF THROMBIN INHIBITED BY AERUGINOSIN 298-A FROM A JRNL TITL 2 BLUE-GREEN ALGA JRNL REF J.AM.CHEM.SOC. V. 120 597 1998 JRNL REFN ISSN 0002-7863 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH M.MURAKAMI,Y.OKITA,H.MATSUDA,T.OKINO,K.YAMAGUCHI REMARK 1 TITL AERUGINOSIN 298-A, A THROMBIN AND TRYPSIN INHIBITOR FROM THE REMARK 1 TITL 2 BLUE-GREEN ALGA MICROCYSTIS AERUGINOSA (NIES-298) REMARK 1 REF TETRAHEDRON LETT. V. 35 3129 1994 REMARK 1 REFN ISSN 0040-4039 REMARK 1 REFERENCE 2 REMARK 1 AUTH T.J.RYDEL,A.TULINSKY,W.BODE,R.HUBER REMARK 1 TITL REFINED STRUCTURE OF THE HIRUDIN-THROMBIN COMPLEX REMARK 1 REF J.MOL.BIOL. V. 221 583 1991 REMARK 1 REFN ISSN 0022-2836 REMARK 1 REFERENCE 3 REMARK 1 AUTH T.J.RYDEL,K.G.RAVICHANDRAN,A.TULINSKY,W.BODE,R.HUBER, REMARK 1 AUTH 2 C.ROITSCH,J.W.FENTON II REMARK 1 TITL THE STRUCTURE OF A COMPLEX OF RECOMBINANT HIRUDIN AND HUMAN REMARK 1 TITL 2 ALPHA-THROMBIN REMARK 1 REF SCIENCE V. 249 277 1990 REMARK 1 REFN ISSN 0036-8075 REMARK 2 REMARK 2 RESOLUTION. 2.10 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) : 2.10 REMARK 3 RESOLUTION RANGE LOW (ANGSTROMS) : 7.00 REMARK 3 DATA CUTOFF (SIGMA(F)) : 2.000 REMARK 3 COMPLETENESS FOR RANGE (%) : 70.0 REMARK 3 NUMBER OF REFLECTIONS : 15999 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) : 0.150 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 : 2452 REMARK 3 NUCLEIC ACID ATOMS : 0 REMARK 3 HETEROGEN ATOMS : 1 REMARK 3 SOLVENT ATOMS : 176 REMARK 3 REMARK 3 B VALUES. REMARK 3 FROM WILSON PLOT (A**2) : 29.60 REMARK 3 MEAN B VALUE (OVERALL, A**2) : 31.50 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) : 0.018 ; 0.020 REMARK 3 ANGLE DISTANCE (A) : 0.040 ; 0.044 REMARK 3 INTRAPLANAR 1-4 DISTANCE (A) : 0.060 ; 0.068 REMARK 3 H-BOND OR METAL COORDINATION (A) : NULL ; NULL REMARK 3 REMARK 3 PLANE RESTRAINT (A) : 0.036 ; 0.040 REMARK 3 CHIRAL-CENTER RESTRAINT (A**3) : 0.197 ; 0.150 REMARK 3 REMARK 3 NON-BONDED CONTACT RESTRAINTS. REMARK 3 SINGLE TORSION (A) : 0.250 ; 0.600 REMARK 3 MULTIPLE TORSION (A) : 0.345 ; 0.600 REMARK 3 H-BOND (X...Y) (A) : 0.323 ; 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) : 3.100 ; 3.000 REMARK 3 STAGGERED (DEGREES) : 24.000; 15.000 REMARK 3 TRANSVERSE (DEGREES) : 31.900; 20.000 REMARK 3 REMARK 3 ISOTROPIC THERMAL FACTOR RESTRAINTS. RMS SIGMA REMARK 3 MAIN-CHAIN BOND (A**2) : 1.300 ; 1.500 REMARK 3 MAIN-CHAIN ANGLE (A**2) : 2.140 ; 2.000 REMARK 3 SIDE-CHAIN BOND (A**2) : 2.660 ; 2.500 REMARK 3 SIDE-CHAIN ANGLE (A**2) : 3.800 ; 3.000 REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1A2C 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_1000170306. REMARK 200 REMARK 200 EXPERIMENTAL DETAILS REMARK 200 EXPERIMENT TYPE : X-RAY DIFFRACTION REMARK 200 DATE OF DATA COLLECTION : MAR-95 REMARK 200 TEMPERATURE (KELVIN) : 287 REMARK 200 PH : 7.3 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 RUH2R REMARK 200 MONOCHROMATIC OR LAUE (M/L) : M REMARK 200 WAVELENGTH OR RANGE (A) : 1.5418 REMARK 200 MONOCHROMATOR : NI FILTER REMARK 200 OPTICS : NO MIRRORS REMARK 200 REMARK 200 DETECTOR TYPE : IMAGE PLATE REMARK 200 DETECTOR MANUFACTURER : RIGAKU REMARK 200 INTENSITY-INTEGRATION SOFTWARE : RIGAKU REMARK 200 DATA SCALING SOFTWARE : RIGAKU REMARK 200 REMARK 200 NUMBER OF UNIQUE REFLECTIONS : 15999 REMARK 200 RESOLUTION RANGE HIGH (A) : 2.100 REMARK 200 RESOLUTION RANGE LOW (A) : 15.000 REMARK 200 REJECTION CRITERIA (SIGMA(I)) : 2.000 REMARK 200 REMARK 200 OVERALL. REMARK 200 COMPLETENESS FOR RANGE (%) : 70.0 REMARK 200 DATA REDUNDANCY : 3.300 REMARK 200 R MERGE (I) : 0.08200 REMARK 200 R SYM (I) : NULL REMARK 200 <I/SIGMA(I)> FOR THE DATA SET : 8.0000 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) : 2.25 REMARK 200 COMPLETENESS FOR SHELL (%) : 47.0 REMARK 200 DATA REDUNDANCY IN SHELL : 2.50 REMARK 200 R MERGE FOR SHELL (I) : 0.18000 REMARK 200 R SYM FOR SHELL (I) : NULL REMARK 200 <I/SIGMA(I)> FOR SHELL : 2.400 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 1HGT REMARK 200 REMARK 200 REMARK: NULL REMARK 280 REMARK 280 CRYSTAL REMARK 280 SOLVENT CONTENT, VS (%): 52.89 REMARK 280 MATTHEWS COEFFICIENT, VM (ANGSTROMS**3/DA): 2.61 REMARK 280 REMARK 280 CRYSTALLIZATION CONDITIONS: PH 7.3 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 35.98500 REMARK 290 SMTRY2 3 0.000000 1.000000 0.000000 36.24000 REMARK 290 SMTRY3 3 0.000000 0.000000 1.000000 0.00000 REMARK 290 SMTRY1 4 -1.000000 0.000000 0.000000 35.98500 REMARK 290 SMTRY2 4 0.000000 1.000000 0.000000 36.24000 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 400 REMARK 400 COMPOUND REMARK 400 THROMBIN IS CLEAVED BETWEEN RESIDUES 15 AND 16. CHAIN REMARK 400 IDENTIFIER *L* IS USED FOR RESIDUES 1H - 15 AND CHAIN REMARK 400 IDENTIFIER *H* IS USED FOR RESIDUES 16 - 247. RESIDUES REMARK 400 355 - 364 REPRESENT THE HIRUGEN AND HAVE BEEN ASSIGNED REMARK 400 CHAIN IDENTIFIER *I*. THE HIRUGEN RESIDUE NUMBERING REMARK 400 CORRESPONDS TO THE C-TERMINAL RESIDUES OF HIRUDIN. REMARK 400 REMARK 400 THE AERUGINOSIN 298-A IS OLIGOPEPTIDE, A MEMBER OF THROMBIN REMARK 400 INHIBITOR, TRYPSIN INHIBITOR CLASS. REMARK 400 REMARK 400 GROUP: 1 REMARK 400 NAME: AERUGINOSIN 298-A 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 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 ASN I 353 REMARK 465 GLY I 354 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 ARG L 15 CG CD NE CZ NH1 NH2 REMARK 470 GLU I 361 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 PRO H 124 NZ LYS H 235 2.09 REMARK 500 N GLY H 219 O4 34H J 1 2.13 REMARK 500 ND2 ASN H 98 O ARG H 175 2.18 REMARK 500 OE1 GLN H 30 OG1 THR H 139 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 C ASP L 14L NH2 ARG H 173 4556 1.86 REMARK 500 O ASP L 14L NH2 ARG H 173 4556 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 TYR L 14J C ILE L 14K N -0.212 REMARK 500 GLY H 216 C GLU H 217 N 0.157 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 ASP L 1A CB - CG - OD1 ANGL. DEV. = -11.3 DEGREES REMARK 500 ASP L 1A CB - CG - OD2 ANGL. DEV. = 10.4 DEGREES REMARK 500 ARG L 4 NH1 - CZ - NH2 ANGL. DEV. = -8.6 DEGREES REMARK 500 ARG L 4 NE - CZ - NH2 ANGL. DEV. = 5.5 DEGREES REMARK 500 LYS L 10 O - C - N ANGL. DEV. = 11.7 DEGREES REMARK 500 GLU L 13 CB - CA - C ANGL. DEV. = -13.5 DEGREES REMARK 500 ASP L 14 CB - CG - OD1 ANGL. DEV. = -9.1 DEGREES REMARK 500 ASP L 14 CB - CG - OD2 ANGL. DEV. = 7.8 DEGREES REMARK 500 ARG L 14D NE - CZ - NH2 ANGL. DEV. = 3.8 DEGREES REMARK 500 TYR L 14J CA - C - N ANGL. DEV. = -15.0 DEGREES REMARK 500 GLY H 25 C - N - CA ANGL. DEV. = 15.3 DEGREES REMARK 500 SER H 27 N - CA - CB ANGL. DEV. = -9.3 DEGREES REMARK 500 GLN H 30 CA - CB - CG ANGL. DEV. = 14.2 DEGREES REMARK 500 LEU H 33 N - CA - CB ANGL. DEV. = -13.1 DEGREES REMARK 500 GLN H 38 O - C - N ANGL. DEV. = 10.5 DEGREES REMARK 500 ASP H 49 CB - CG - OD1 ANGL. DEV. = -8.0 DEGREES REMARK 500 ASP H 49 CB - CG - OD2 ANGL. DEV. = 6.6 DEGREES REMARK 500 TYR H 60A CA - CB - CG ANGL. DEV. = -12.0 DEGREES REMARK 500 ASP H 60E N - CA - CB ANGL. DEV. = -10.9 DEGREES REMARK 500 ASP H 60E CB - CG - OD1 ANGL. DEV. = -7.8 DEGREES REMARK 500 ASP H 63 O - C - N ANGL. DEV. = 9.8 DEGREES REMARK 500 ARG H 73 NH1 - CZ - NH2 ANGL. DEV. = -9.8 DEGREES REMARK 500 ARG H 73 NE - CZ - NH1 ANGL. DEV. = 4.5 DEGREES REMARK 500 ARG H 73 NE - CZ - NH2 ANGL. DEV. = 5.0 DEGREES REMARK 500 ARG H 75 NE - CZ - NH2 ANGL. DEV. = 3.9 DEGREES REMARK 500 ARG H 77A NE - CZ - NH1 ANGL. DEV. = -3.1 DEGREES REMARK 500 ARG H 77A CA - C - O ANGL. DEV. = -13.3 DEGREES REMARK 500 TYR H 94 CB - CG - CD2 ANGL. DEV. = -4.1 DEGREES REMARK 500 ARG H 97 CD - NE - CZ ANGL. DEV. = -11.2 DEGREES REMARK 500 ARG H 97 NE - CZ - NH1 ANGL. DEV. = -6.0 DEGREES REMARK 500 ARG H 97 NE - CZ - NH2 ANGL. DEV. = 6.8 DEGREES REMARK 500 ARG H 101 NE - CZ - NH2 ANGL. DEV. = -6.3 DEGREES REMARK 500 LEU H 123 CA - CB - CG ANGL. DEV. = 16.9 DEGREES REMARK 500 ASP H 125 CB - CG - OD2 ANGL. DEV. = 6.5 DEGREES REMARK 500 ARG H 126 CG - CD - NE ANGL. DEV. = 12.7 DEGREES REMARK 500 ARG H 126 NH1 - CZ - NH2 ANGL. DEV. = -6.9 DEGREES REMARK 500 ARG H 126 NE - CZ - NH2 ANGL. DEV. = 8.1 DEGREES REMARK 500 ALA H 132 O - C - N ANGL. DEV. = 12.0 DEGREES REMARK 500 ARG H 137 NE - CZ - NH1 ANGL. DEV. = -5.4 DEGREES REMARK 500 ARG H 137 NE - CZ - NH2 ANGL. DEV. = 4.4 DEGREES REMARK 500 ARG H 137 CA - C - O ANGL. DEV. = -13.7 DEGREES REMARK 500 ARG H 137 O - C - N ANGL. DEV. = 11.9 DEGREES REMARK 500 TRP H 141 O - C - N ANGL. DEV. = -13.9 DEGREES REMARK 500 GLY H 142 CA - C - O ANGL. DEV. = 10.8 DEGREES REMARK 500 ASN H 143 O - C - N ANGL. DEV. = 10.9 DEGREES REMARK 500 LYS H 145 N - CA - CB ANGL. DEV. = 11.1 DEGREES REMARK 500 GLU H 146 OE1 - CD - OE2 ANGL. DEV. = 13.0 DEGREES REMARK 500 ARG H 165 CA - CB - CG ANGL. DEV. = 18.0 DEGREES REMARK 500 ARG H 165 CD - NE - CZ ANGL. DEV. = -8.5 DEGREES REMARK 500 ARG H 173 CD - NE - CZ ANGL. DEV. = -9.7 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 69 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 PHE L 1G -141.19 -67.84 REMARK 500 SER L 1E 83.50 33.89 REMARK 500 GLU L 1C -148.66 -71.21 REMARK 500 ALA L 1B -60.15 -101.50 REMARK 500 PHE L 7 -74.75 -134.21 REMARK 500 TYR L 14J 39.46 -76.29 REMARK 500 ILE L 14K 48.63 29.06 REMARK 500 ALA H 44 164.93 169.17 REMARK 500 SER H 48 -174.88 -179.01 REMARK 500 TYR H 60A 77.26 -161.19 REMARK 500 ASN H 60G 70.72 -150.45 REMARK 500 HIS H 71 -50.62 -136.76 REMARK 500 GLU H 97A -71.84 -116.28 REMARK 500 SER H 115 -168.11 -167.52 REMARK 500 ARG H 126 -33.96 -34.81 REMARK 500 ASP H 170 -8.00 -59.15 REMARK 500 GLU H 192 154.53 -37.90 REMARK 500 ASN H 205 8.51 57.37 REMARK 500 SER H 214 -69.67 -109.63 REMARK 500 PHE H 245 31.00 -161.02 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 75 0.08 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 LEU L 3 13.60 REMARK 500 PRO L 5 -10.75 REMARK 500 ARG L 14D 13.10 REMARK 500 TRP H 29 -11.15 REMARK 500 GLY H 43 -11.45 REMARK 500 ALA H 44 10.54 REMARK 500 ILE H 47 -11.92 REMARK 500 PRO H 60C 13.09 REMARK 500 TRP H 60D 14.92 REMARK 500 LEU H 65 -13.48 REMARK 500 SER H 72 -11.05 REMARK 500 ILE H 79 -10.71 REMARK 500 LEU H 99 10.25 REMARK 500 LYS H 107 10.00 REMARK 500 TYR H 134 -14.86 REMARK 500 TRP H 141 17.48 REMARK 500 GLN H 151 10.15 REMARK 500 GLU H 164 11.82 REMARK 500 THR H 172 -12.63 REMARK 500 GLU H 192 -11.62 REMARK 500 GLY H 196 -12.79 REMARK 500 GLY H 197 -11.27 REMARK 500 ILE H 212 15.57 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 NA H 626 NA REMARK 620 N RES CSSEQI ATOM REMARK 620 1 ARG H 221A O REMARK 620 2 LYS H 224 O 90.2 REMARK 620 3 HOH H 503 O 132.2 73.7 REMARK 620 N 1 2 REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NA H 626 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR CHAIN I OF HIRUDIN VARIANT-2 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC3 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR CHAIN J OF AERUGINOSIN 298-A DBREF 1A2C L 1H 15 UNP P00734 THRB_HUMAN 328 363 DBREF 1A2C H 16 247 UNP P00734 THRB_HUMAN 364 622 DBREF 1A2C I 353 364 UNP P09945 HIRV2_HIRME 60 71 DBREF 1A2C J 1 4 PDB 1A2C 1A2C 1 4 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 12 ASN GLY ASP PHE GLU GLU ILE PRO GLU GLU TYS LEU SEQRES 1 J 4 34H LEU PRJ OAR MODRES 1A2C TYS I 363 TYR O-SULFO-L-TYROSINE MODRES 1A2C PRJ J 3 PRO MODRES 1A2C OAR J 4 ARG N-(4-AMINO-5-HYDROXY-PENTYL)-GUANIDINE HET TYS I 363 16 HET 34H J 1 12 HET PRJ J 3 12 HET OAR J 4 11 HET NA H 626 1 HETNAM TYS O-SULFO-L-TYROSINE HETNAM 34H (2R)-2-HYDROXY-3-(4-HYDROXYPHENYL)PROPANOIC ACID HETNAM PRJ (2S,3AS,6R,7AS)-6-HYDROXYOCTAHYDRO-1H-INDOLE-2- HETNAM 2 PRJ CARBOXYLIC ACID HETNAM OAR N-(4-AMINO-5-HYDROXY-PENTYL)-GUANIDINE HETNAM NA SODIUM ION FORMUL 3 TYS C9 H11 N O6 S FORMUL 4 34H C9 H10 O4 FORMUL 4 PRJ C9 H15 N O3 FORMUL 4 OAR C6 H16 N4 O FORMUL 5 NA NA 1+ FORMUL 6 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 PHE H 232 PHE H 245 5 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 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 2.01 SSBOND 2 CYS H 42 CYS H 58 1555 1555 2.20 SSBOND 3 CYS H 168 CYS H 182 1555 1555 1.99 SSBOND 4 CYS H 191 CYS H 220 1555 1555 2.01 LINK C GLU I 362 N TYS I 363 1555 1555 1.33 LINK C TYS I 363 N LEU I 364 1555 1555 1.29 LINK C1 34H J 1 N LEU J 2 1555 1555 1.33 LINK C LEU J 2 N PRJ J 3 1555 1555 1.34 LINK C PRJ J 3 N OAR J 4 1555 1555 1.34 LINK O ARG H 221A NA NA H 626 1555 1555 2.57 LINK O LYS H 224 NA NA H 626 1555 1555 2.34 LINK O HOH H 503 NA NA H 626 1555 1555 2.93 CISPEP 1 SER H 36A PRO H 37 0 -2.16 SITE 1 AC1 3 ARG H 221A LYS H 224 HOH H 503 SITE 1 AC2 14 PHE H 34 GLN H 38 LEU H 65 ARG H 73 SITE 2 AC2 14 THR H 74 ARG H 75 TYR H 76 LYS H 81 SITE 3 AC2 14 ILE H 82 SER H 153 HOH H 574 HOH H 615 SITE 4 AC2 14 HOH I 491 HOH I 553 SITE 1 AC3 16 HIS H 57 TYR H 60A TRP H 60D ASP H 189 SITE 2 AC3 16 ALA H 190 CYS H 191 SER H 195 SER H 214 SITE 3 AC3 16 TRP H 215 GLY H 216 GLU H 217 GLY H 219 SITE 4 AC3 16 ARG H 221A GLY H 226 HOH H 450 HOH J 462 CRYST1 71.970 72.480 72.240 90.00 100.93 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 0.013895 0.000000 0.002683 0.00000 SCALE2 0.000000 0.013797 0.000000 0.00000 SCALE3 0.000000 0.000000 0.014098 0.00000