10 20 30 40 50 60 70 80 1KMA - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER BLOOD CLOTTING 14-DEC-01 1KMA
TITLE NMR STRUCTURE OF THE DOMAIN-I OF THE KAZAL-TYPE THROMBIN TITLE 2 INHIBITOR DIPETALIN
COMPND MOL_ID: 1; COMPND 2 MOLECULE: DIPETALIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: N-TERMINAL DOMAIN-I; COMPND 5 SYNONYM: DIPETALOGASTIN; COMPND 6 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: DIPETALOGASTER MAXIMUS; SOURCE 3 ORGANISM_TAXID: 72496; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: TG1; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: PMEX6
KEYWDS DISULPHIDE-RICH SMALL ALPHA+BETA FOLD, KAZAL-TYPE, BLOOD KEYWDS 2 CLOTTING
EXPDTA SOLUTION NMR
NUMMDL 20
AUTHOR B.SCHLOTT,J.WOHNERT,C.ICKE,M.HARTMANN,R.RAMACHANDRAN,K.- AUTHOR 2 H.GUHRS,E.GLUSA,J.FLEMMING,M.GORLACH,F.GROSSE, AUTHOR 3 O.OHLENSCHLAGER
REVDAT 3 24-FEB-09 1KMA 1 VERSN REVDAT 2 01-APR-03 1KMA 1 JRNL REVDAT 1 15-MAY-02 1KMA 0
JRNL AUTH B.SCHLOTT,J.WOHNERT,C.ICKE,M.HARTMANN, JRNL AUTH 2 R.RAMACHANDRAN,K.H.GUHRS,E.GLUSA,J.FLEMMING, JRNL AUTH 3 M.GORLACH,F.GROSSE,O.OHLENSCHLAGER JRNL TITL INTERACTION OF KAZAL-TYPE INHIBITOR DOMAINS WITH JRNL TITL 2 SERINE PROTEINASES: BIOCHEMICAL AND STRUCTURAL JRNL TITL 3 STUDIES. JRNL REF J.MOL.BIOL. V. 318 533 2002 JRNL REFN ISSN 0022-2836 JRNL PMID 12051857 JRNL DOI 10.1016/S0022-2836(02)00014-1
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : OPAL 2.6 REMARK 3 AUTHORS : LUGINBUEHL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURES ARE BASED ON A TOTAL REMARK 3 OF 1122 DISTANCE CONSTRAINTS AND 239 DIHEDRAL ANGLE RESTRAINTS.
REMARK 4 REMARK 4 1KMA COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 20-DEC-01. REMARK 100 THE RCSB ID CODE IS RCSB015104.
REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 288 REMARK 210 PH : 6.68 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1MM DIPETALIN-I U-15N; 1.37MM REMARK 210 DIPETALIN-I U-15N,13C REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY, 3D_ REMARK 210 13C-SEPARATED_NOESY, HNHA REMARK 210 SPECTROMETER FIELD STRENGTH : 750 MHZ, 600 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : DYANA 1.5 REMARK 210 METHOD USED : DISTANCE GEOMETRY/SIMULATED REMARK 210 ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 16 REMARK 210 REMARK 210 REMARK: THE STRUCTURE WAS DETERMINED USING TRIPLE-RESONANCE NMR REMARK 210 SPECTROSCOPY.
REMARK 215 REMARK 215 NMR STUDY REMARK 215 THE COORDINATES IN THIS ENTRY WERE GENERATED FROM SOLUTION REMARK 215 NMR DATA. PROTEIN DATA BANK CONVENTIONS REQUIRE THAT REMARK 215 CRYST1 AND SCALE RECORDS BE INCLUDED, BUT THE VALUES ON REMARK 215 THESE RECORDS ARE MEANINGLESS.
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 4 ARG A 14 NE - CZ - NH1 ANGL. DEV. = 3.1 DEGREES REMARK 500 5 CYS A 31 CA - CB - SG ANGL. DEV. = 7.8 DEGREES REMARK 500 8 ARG A 14 NE - CZ - NH2 ANGL. DEV. = 3.7 DEGREES REMARK 500 9 ARG A 14 NE - CZ - NH2 ANGL. DEV. = 3.2 DEGREES REMARK 500 12 CYS A 31 CA - CB - SG ANGL. DEV. = 8.1 DEGREES REMARK 500 16 ARG A 14 NE - CZ - NH2 ANGL. DEV. = 4.5 DEGREES REMARK 500 18 ARG A 14 NE - CZ - NH2 ANGL. DEV. = -3.5 DEGREES REMARK 500 19 CYS A 31 CA - CB - SG ANGL. DEV. = 7.6 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 1 GLN A 2 133.75 -176.13 REMARK 500 1 GLU A 7 -24.33 -154.47 REMARK 500 1 CYS A 8 158.35 -49.61 REMARK 500 1 ARG A 10 43.65 -80.29 REMARK 500 1 LEU A 12 42.79 -76.96 REMARK 500 1 ASP A 19 0.00 -69.02 REMARK 500 1 HIS A 44 151.31 166.12 REMARK 500 1 GLU A 45 -173.26 -68.34 REMARK 500 1 HIS A 51 34.51 -167.45 REMARK 500 1 ASP A 52 -167.54 -173.28 REMARK 500 1 HIS A 53 45.98 -153.39 REMARK 500 2 GLN A 2 -89.88 -171.39 REMARK 500 2 ARG A 10 43.56 -84.81 REMARK 500 2 LEU A 12 43.77 -76.89 REMARK 500 2 HIS A 13 58.01 -92.36 REMARK 500 2 ASN A 21 96.99 -66.71 REMARK 500 2 CYS A 48 -77.47 -83.47 REMARK 500 2 GLU A 50 -72.32 162.78 REMARK 500 2 HIS A 53 53.41 -161.71 REMARK 500 3 GLN A 2 -86.56 -176.70 REMARK 500 3 ARG A 10 43.30 -78.55 REMARK 500 3 LEU A 12 43.26 -86.03 REMARK 500 3 CYS A 48 -91.05 -86.49 REMARK 500 3 ASP A 49 -157.25 -173.23 REMARK 500 3 GLU A 50 -89.61 -86.27 REMARK 500 3 HIS A 51 -54.26 -149.88 REMARK 500 4 GLN A 2 -81.31 -176.81 REMARK 500 4 ARG A 10 43.15 -84.89 REMARK 500 4 LEU A 12 43.54 -80.18 REMARK 500 4 ASP A 19 42.14 -84.71 REMARK 500 4 CYS A 31 -71.44 -51.40 REMARK 500 4 HIS A 51 -47.42 -151.85 REMARK 500 4 HIS A 53 38.37 -145.50 REMARK 500 5 GLN A 2 -68.31 -175.96 REMARK 500 5 ARG A 10 47.51 -70.36 REMARK 500 5 LEU A 12 42.44 -77.55 REMARK 500 5 ASN A 21 92.62 -68.68 REMARK 500 5 HIS A 44 -171.52 -179.39 REMARK 500 5 GLU A 50 88.13 -154.14 REMARK 500 5 HIS A 51 83.43 -161.06 REMARK 500 5 HIS A 53 47.06 -104.28 REMARK 500 6 GLN A 2 -54.90 -176.22 REMARK 500 6 ASN A 4 -55.87 -176.62 REMARK 500 6 GLU A 7 34.41 176.57 REMARK 500 6 ARG A 10 44.26 -77.01 REMARK 500 6 ARG A 14 100.37 -46.20 REMARK 500 6 SER A 24 -37.48 -37.17 REMARK 500 6 LEU A 29 -70.03 -51.26 REMARK 500 6 CYS A 31 -72.18 -51.49 REMARK 500 6 GLU A 35 -78.33 -75.31 REMARK 500 6 ASN A 37 59.99 -148.03 REMARK 500 6 HIS A 44 176.94 174.78 REMARK 500 6 CYS A 48 -99.99 -86.53 REMARK 500 6 ASP A 49 135.92 -178.67 REMARK 500 7 ARG A 10 43.52 -82.72 REMARK 500 7 LEU A 12 43.62 -85.85 REMARK 500 7 ASN A 21 96.50 -65.70 REMARK 500 7 GLU A 45 -137.39 -71.35 REMARK 500 7 ASP A 49 -79.95 -66.83 REMARK 500 7 HIS A 53 41.57 -146.05 REMARK 500 8 GLN A 2 -78.15 -176.62 REMARK 500 8 ASN A 4 -53.63 -144.29 REMARK 500 8 ARG A 10 43.83 -85.46 REMARK 500 8 LEU A 12 43.48 -85.35 REMARK 500 8 ASN A 21 90.47 -67.73 REMARK 500 8 CYS A 31 -70.93 -53.32 REMARK 500 8 HIS A 51 -67.65 -152.62 REMARK 500 8 HIS A 53 69.77 -106.48 REMARK 500 9 GLN A 2 -79.58 -176.23 REMARK 500 9 ARG A 10 43.32 -78.42 REMARK 500 9 LEU A 12 43.39 -85.95 REMARK 500 9 HIS A 51 -46.40 159.09 REMARK 500 10 GLN A 2 133.00 -176.10 REMARK 500 10 ARG A 10 44.33 -74.67 REMARK 500 10 LEU A 12 43.81 -78.44 REMARK 500 10 HIS A 53 56.95 -106.06 REMARK 500 11 GLN A 2 -71.08 -176.52 REMARK 500 11 ASN A 4 -52.18 -166.60 REMARK 500 11 ARG A 10 45.73 -79.43 REMARK 500 11 LEU A 12 42.94 -76.06 REMARK 500 11 HIS A 44 170.87 174.97 REMARK 500 12 CYS A 8 167.21 179.95 REMARK 500 12 ARG A 10 43.17 -82.90 REMARK 500 12 ARG A 14 86.22 -65.98 REMARK 500 12 HIS A 44 170.24 179.67 REMARK 500 12 GLU A 50 3.42 -153.82 REMARK 500 12 HIS A 53 55.66 -150.73 REMARK 500 13 GLN A 2 -72.95 -176.54 REMARK 500 13 ASN A 4 -53.49 -159.35 REMARK 500 13 ARG A 10 44.47 -75.06 REMARK 500 13 LEU A 12 43.07 -85.98 REMARK 500 13 ASN A 21 87.54 -63.89 REMARK 500 13 CYS A 31 -70.47 -55.68 REMARK 500 13 GLU A 50 34.73 -153.72 REMARK 500 14 GLN A 2 134.55 -170.91 REMARK 500 14 CYS A 6 66.10 -105.38 REMARK 500 14 ARG A 10 43.38 -81.61 REMARK 500 14 LEU A 12 43.55 -83.92 REMARK 500 14 SER A 18 -19.69 -49.65 REMARK 500 14 ASN A 21 92.97 -64.91 REMARK 500 14 CYS A 31 -70.74 -54.53 REMARK 500 14 GLU A 45 -137.80 -74.74 REMARK 500 14 HIS A 51 117.92 -163.80 REMARK 500 14 HIS A 53 51.58 -151.62 REMARK 500 15 ARG A 10 43.90 -79.59 REMARK 500 15 LEU A 12 43.84 -85.95 REMARK 500 15 ASN A 21 95.89 -65.47 REMARK 500 15 CYS A 48 -74.86 -86.64 REMARK 500 15 ASP A 49 -175.72 -173.89 REMARK 500 15 GLU A 50 -43.56 163.43 REMARK 500 16 ASN A 4 -44.02 -134.29 REMARK 500 16 GLU A 7 52.93 -140.92 REMARK 500 16 ARG A 10 46.10 -83.15 REMARK 500 16 LEU A 12 43.09 -79.03 REMARK 500 16 CYS A 31 -71.36 -57.87 REMARK 500 16 GLU A 45 -137.30 -74.57 REMARK 500 16 HIS A 51 -30.30 -163.85 REMARK 500 16 HIS A 53 44.18 -156.21 REMARK 500 17 GLU A 7 73.66 -66.85 REMARK 500 17 ARG A 10 43.70 -79.06 REMARK 500 17 LEU A 12 43.82 -85.61 REMARK 500 17 HIS A 13 46.13 -89.58 REMARK 500 17 GLU A 45 37.63 -86.12 REMARK 500 17 CYS A 48 -71.28 -86.14 REMARK 500 17 ASP A 52 -175.26 -173.28 REMARK 500 18 GLN A 2 -79.93 -176.44 REMARK 500 18 ASN A 4 -54.93 -158.92 REMARK 500 18 GLU A 7 48.59 -141.20 REMARK 500 18 ARG A 10 44.31 -85.15 REMARK 500 18 LEU A 12 43.37 -85.99 REMARK 500 18 ASP A 19 0.04 -69.07 REMARK 500 18 HIS A 51 -40.18 -143.24 REMARK 500 19 GLN A 2 -86.49 -176.93 REMARK 500 19 ARG A 10 43.73 -75.17 REMARK 500 19 ASP A 19 0.03 -68.78 REMARK 500 19 HIS A 44 -173.26 -170.38 REMARK 500 19 HIS A 51 -84.87 -100.32 REMARK 500 20 GLN A 2 -65.51 -176.68 REMARK 500 20 GLU A 7 29.58 -170.14 REMARK 500 20 ARG A 10 46.32 -78.12 REMARK 500 20 LEU A 12 49.71 -82.29 REMARK 500 20 CYS A 31 -71.78 -52.09 REMARK 500 20 ASP A 49 -76.86 -62.97 REMARK 500 20 HIS A 51 76.73 -152.25 REMARK 500 20 HIS A 53 46.98 -152.72 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 PHE A 1 GLN A 2 3 141.39 REMARK 500 PHE A 1 GLN A 2 4 140.89 REMARK 500 PHE A 1 GLN A 2 7 139.35 REMARK 500 PHE A 1 GLN A 2 12 145.23 REMARK 500 PHE A 1 GLN A 2 15 140.91 REMARK 500 PHE A 1 GLN A 2 17 143.32 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 2 ARG A 14 0.08 SIDE_CHAIN REMARK 500 12 ARG A 14 0.09 SIDE_CHAIN REMARK 500 12 TYR A 23 0.10 SIDE_CHAIN REMARK 500 13 TYR A 23 0.07 SIDE_CHAIN REMARK 500 16 TYR A 23 0.08 SIDE_CHAIN REMARK 500 REMARK 500 REMARK: NULL
DBREF 1KMA A 1 55 UNP O96790 DPGN_DIPMA 125 179
SEQRES 1 A 55 PHE GLN GLY ASN PRO CYS GLU CYS PRO ARG ALA LEU HIS SEQRES 2 A 55 ARG VAL CYS GLY SER ASP GLY ASN THR TYR SER ASN PRO SEQRES 3 A 55 CYS MET LEU THR CYS ALA LYS HIS GLU GLY ASN PRO ASP SEQRES 4 A 55 LEU VAL GLN VAL HIS GLU GLY PRO CYS ASP GLU HIS ASP SEQRES 5 A 55 HIS ASP PHE
HELIX 1 1 ASN A 25 ASN A 37 1 13
SHEET 1 A 2 VAL A 15 CYS A 16 0 SHEET 2 A 2 THR A 22 TYR A 23 -1 O TYR A 23 N VAL A 15
SSBOND 1 CYS A 6 CYS A 31 1555 1555 2.03 SSBOND 2 CYS A 8 CYS A 27 1555 1555 2.02 SSBOND 3 CYS A 16 CYS A 48 1555 1555 2.02
CRYST1 1.000 1.000 1.000 90.00 90.00 90.00 P 1 1
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 1.000000 0.000000 0.000000 0.00000
SCALE2 0.000000 1.000000 0.000000 0.00000
SCALE3 0.000000 0.000000 1.000000 0.00000