10 20 30 40 50 60 70 80 1IY5 - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER HYDROLASE 23-JUL-02 1IY5
TITLE SOLUTION STRUCTURE OF WILD TYPE OMSVP3
COMPND MOL_ID: 1; COMPND 2 MOLECULE: OMSVP3; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: THIRD DOMAIN; COMPND 5 SYNONYM: OVOMUCOID; COMPND 6 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: LOPHURA NYCTHEMERA; SOURCE 3 ORGANISM_COMMON: SILVER PHEASANT; SOURCE 4 ORGANISM_TAXID: 9046; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21; SOURCE 6 EXPRESSION_SYSTEM_TAXID: 511693; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21; SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET22B
KEYWDS SOLUTION STRUCTURE, CSH MOTIF, NMR, OMSVP3, OVOMUCOID THIRD KEYWDS 2 DOMAIN, PROTEASE INHIBITOR, HYDROLASE
EXPDTA SOLUTION NMR
NUMMDL 15
AUTHOR H.HEMMI,T.KUMAZAKI,T.YAMAZAKI,S.KOJIMA,T.YOSHIDA,Y.KYOGOKU, AUTHOR 2 M.KATSU,H.YOKOSAWA,K.MIURA,Y.KOBAYASHI
REVDAT 2 24-FEB-09 1IY5 1 VERSN REVDAT 1 11-MAR-03 1IY5 0
JRNL AUTH H.HEMMI,T.KUMAZAKI,T.YAMAZAKI,S.KOJIMA,T.YOSHIDA, JRNL AUTH 2 Y.KYOGOKU,M.KATSU,F.SHINOHARA,H.YOKOSAWA,K.MIURA, JRNL AUTH 3 Y.KOBAYASHI JRNL TITL INHIBITORY SPECIFICITY CHANGE OF OVOMUCOID THIRD JRNL TITL 2 DOMAIN OF THE SILVER PHEASANT UPON INTRODUCTION OF JRNL TITL 3 AN ENGINEERED CYS14-CYS39 BOND JRNL REF BIOCHEMISTRY V. 42 2524 2003 JRNL REFN ISSN 0006-2960 JRNL PMID 12614146 JRNL DOI 10.1021/BI026727C
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.1 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4 REMARK 4 1IY5 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 25-JUL-02. REMARK 100 THE RCSB ID CODE IS RCSB005395.
REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 4.0 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 4.0MM OMSVP3; 90%H2O, 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : NOESY, DQF-COSY, TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ, 600 MHZ REMARK 210 SPECTROMETER MODEL : AMX, DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XWINNMR 2.6, NMRPIPE 2.1, REMARK 210 NMRPIPP 4.3.2 REMARK 210 METHOD USED : DISTANCE GEOMETRY, SIMULATED REMARK 210 ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 15 REMARK 210 CONFORMERS, SELECTION CRITERIA : LOW TOTAL ENERGY AND LOW REMARK 210 DEVIATION FROM MEAN STRUCTURE REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 11 REMARK 210 REMARK 210 REMARK: THIS STRUCTURE WAS DETERMINED USING STANDARD 2D REMARK 210 HOMONUCLEAR TECHNIQUES.
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: 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 VAL A 6 164.80 55.72 REMARK 500 1 CYS A 8 55.04 -102.25 REMARK 500 1 ALA A 15 146.89 169.06 REMARK 500 1 TYR A 20 45.72 -97.66 REMARK 500 1 ASN A 33 173.88 177.71 REMARK 500 1 THR A 49 -165.04 -120.36 REMARK 500 1 HIS A 52 108.33 178.98 REMARK 500 1 PHE A 53 92.48 -43.63 REMARK 500 2 SER A 5 -57.16 161.20 REMARK 500 2 CYS A 8 53.35 -99.67 REMARK 500 2 GLU A 10 44.34 -89.33 REMARK 500 2 ASN A 33 -165.32 176.37 REMARK 500 2 THR A 49 -149.98 -132.20 REMARK 500 2 HIS A 52 104.84 177.61 REMARK 500 2 PHE A 53 93.83 -44.84 REMARK 500 3 ASP A 7 86.48 -69.50 REMARK 500 3 CYS A 8 31.75 -89.15 REMARK 500 3 GLU A 10 35.00 -90.87 REMARK 500 3 GLU A 19 173.07 -54.95 REMARK 500 3 TYR A 20 37.18 -140.80 REMARK 500 3 ASN A 33 172.09 172.87 REMARK 500 3 THR A 49 -152.03 -123.85 REMARK 500 3 HIS A 52 110.07 176.99 REMARK 500 3 PHE A 53 93.72 -42.27 REMARK 500 4 VAL A 4 -48.53 -137.41 REMARK 500 4 SER A 5 -58.25 175.57 REMARK 500 4 ASN A 33 169.77 173.71 REMARK 500 4 ASN A 45 -0.47 75.51 REMARK 500 4 THR A 47 42.48 -101.46 REMARK 500 4 THR A 49 -157.09 -109.60 REMARK 500 4 HIS A 52 105.15 167.55 REMARK 500 4 PHE A 53 99.88 -47.00 REMARK 500 5 SER A 5 -91.70 49.46 REMARK 500 5 CYS A 8 45.17 -81.90 REMARK 500 5 ALA A 15 144.11 -176.62 REMARK 500 5 CYS A 16 -166.54 -126.31 REMARK 500 5 SER A 26 -18.17 -48.84 REMARK 500 5 ASN A 33 -172.47 175.09 REMARK 500 5 ASN A 45 -0.47 76.90 REMARK 500 5 THR A 49 -153.55 -137.75 REMARK 500 5 HIS A 52 109.55 178.09 REMARK 500 5 PHE A 53 103.67 -44.60 REMARK 500 6 CYS A 8 40.44 -80.66 REMARK 500 6 ALA A 15 -171.36 168.58 REMARK 500 6 ASN A 33 -168.17 172.84 REMARK 500 6 THR A 49 -152.63 -98.22 REMARK 500 6 HIS A 52 111.62 177.73 REMARK 500 6 PHE A 53 93.86 -43.35 REMARK 500 7 SER A 5 -56.48 83.97 REMARK 500 7 CYS A 16 -164.39 -116.44 REMARK 500 7 ASN A 33 -176.38 -174.06 REMARK 500 7 THR A 47 39.42 -87.96 REMARK 500 7 THR A 49 -152.36 -100.88 REMARK 500 7 HIS A 52 111.39 177.61 REMARK 500 7 PHE A 53 94.41 -43.33 REMARK 500 8 VAL A 4 -118.29 -87.46 REMARK 500 8 ASP A 7 33.35 -96.87 REMARK 500 8 CYS A 8 65.07 13.76 REMARK 500 8 SER A 9 -65.68 -29.75 REMARK 500 8 TYR A 20 41.25 -100.49 REMARK 500 8 ASN A 33 166.47 173.70 REMARK 500 8 THR A 49 -151.98 -122.41 REMARK 500 8 HIS A 52 105.30 172.68 REMARK 500 8 PHE A 53 97.05 -46.92 REMARK 500 9 SER A 5 76.48 43.84 REMARK 500 9 ALA A 15 -178.45 -170.67 REMARK 500 9 TYR A 20 35.86 -140.96 REMARK 500 9 SER A 26 -18.77 -48.69 REMARK 500 9 ASN A 33 172.82 175.56 REMARK 500 9 THR A 49 -154.53 -125.41 REMARK 500 9 HIS A 52 108.13 178.81 REMARK 500 9 PHE A 53 99.81 -44.11 REMARK 500 10 SER A 5 31.61 -90.02 REMARK 500 10 SER A 9 -75.84 -34.67 REMARK 500 10 ASN A 33 -178.48 173.77 REMARK 500 10 HIS A 52 108.82 177.55 REMARK 500 10 PHE A 53 96.02 -44.61 REMARK 500 11 GLU A 10 35.76 -86.79 REMARK 500 11 ASN A 28 38.05 71.44 REMARK 500 11 ASN A 33 169.10 179.26 REMARK 500 11 THR A 49 -151.23 -128.81 REMARK 500 11 HIS A 52 110.68 -176.71 REMARK 500 11 PHE A 53 94.98 -44.66 REMARK 500 12 VAL A 4 -80.07 -100.50 REMARK 500 12 SER A 5 11.15 -143.67 REMARK 500 12 GLU A 10 40.60 -93.79 REMARK 500 12 ASN A 33 175.88 178.50 REMARK 500 12 THR A 49 -152.63 -98.72 REMARK 500 12 HIS A 52 114.55 179.34 REMARK 500 12 PHE A 53 92.63 -44.51 REMARK 500 13 VAL A 4 -54.43 -135.39 REMARK 500 13 SER A 5 161.68 56.65 REMARK 500 13 SER A 9 -70.04 -35.91 REMARK 500 13 CYS A 16 -168.46 -103.09 REMARK 500 13 ASN A 33 -169.40 176.90 REMARK 500 13 THR A 49 -150.96 -130.88 REMARK 500 13 HIS A 52 104.65 -177.02 REMARK 500 13 PHE A 53 96.50 -42.96 REMARK 500 14 SER A 5 122.04 69.37 REMARK 500 14 ASP A 7 -133.48 34.00 REMARK 500 14 ALA A 15 126.97 169.92 REMARK 500 14 SER A 26 -17.66 -49.88 REMARK 500 14 ASN A 33 -172.70 175.77 REMARK 500 14 THR A 49 -147.49 -125.38 REMARK 500 14 SER A 51 -31.73 -130.88 REMARK 500 14 HIS A 52 106.77 177.60 REMARK 500 15 VAL A 4 -133.81 -114.50 REMARK 500 15 SER A 5 163.21 76.22 REMARK 500 15 SER A 9 84.86 -44.08 REMARK 500 15 GLU A 10 84.87 40.14 REMARK 500 15 TYR A 20 44.43 -91.07 REMARK 500 15 ASN A 33 -168.92 178.98 REMARK 500 15 ASN A 45 -4.24 81.03 REMARK 500 15 THR A 49 -151.74 -134.91 REMARK 500 15 HIS A 52 108.71 178.19 REMARK 500 15 PHE A 53 95.12 -42.65 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 1 ARG A 21 0.32 SIDE_CHAIN REMARK 500 2 ARG A 21 0.16 SIDE_CHAIN REMARK 500 3 ARG A 21 0.28 SIDE_CHAIN REMARK 500 4 ARG A 21 0.21 SIDE_CHAIN REMARK 500 5 ARG A 21 0.24 SIDE_CHAIN REMARK 500 6 ARG A 21 0.30 SIDE_CHAIN REMARK 500 7 ARG A 21 0.29 SIDE_CHAIN REMARK 500 8 ARG A 21 0.18 SIDE_CHAIN REMARK 500 9 ARG A 21 0.19 SIDE_CHAIN REMARK 500 10 ARG A 21 0.30 SIDE_CHAIN REMARK 500 11 ARG A 21 0.31 SIDE_CHAIN REMARK 500 12 ARG A 21 0.18 SIDE_CHAIN REMARK 500 13 ARG A 21 0.28 SIDE_CHAIN REMARK 500 14 ARG A 21 0.31 SIDE_CHAIN REMARK 500 15 ARG A 21 0.11 SIDE_CHAIN REMARK 500 REMARK 500 REMARK: NULL
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1IY6 RELATED DB: PDB REMARK 900 1IY6 CONTAINS OMSVP3 VARIANT, P14C/N39C
DBREF 1IY5 A 3 56 UNP P67954 IOVO_LOPNY 3 56
SEQRES 1 A 54 ALA VAL SER VAL ASP CYS SER GLU TYR PRO LYS PRO ALA SEQRES 2 A 54 CYS THR MET GLU TYR ARG PRO LEU CYS GLY SER ASP ASN SEQRES 3 A 54 LYS THR TYR GLY ASN LYS CYS ASN PHE CYS ASN ALA VAL SEQRES 4 A 54 VAL GLU SER ASN GLY THR LEU THR LEU SER HIS PHE GLY SEQRES 5 A 54 LYS CYS
HELIX 1 1 ASN A 33 ASN A 45 1 13
SHEET 1 A 3 LYS A 29 TYR A 31 0 SHEET 2 A 3 LEU A 23 GLY A 25 -1 N GLY A 25 O LYS A 29 SHEET 3 A 3 LEU A 50 HIS A 52 -1 O SER A 51 N CYS A 24
SSBOND 1 CYS A 8 CYS A 38 1555 1555 2.02 SSBOND 2 CYS A 16 CYS A 35 1555 1555 2.02 SSBOND 3 CYS A 24 CYS A 56 1555 1555 2.02
CISPEP 1 TYR A 11 PRO A 12 1 1.15 CISPEP 2 TYR A 11 PRO A 12 2 0.28 CISPEP 3 TYR A 11 PRO A 12 3 -0.06 CISPEP 4 TYR A 11 PRO A 12 4 0.55 CISPEP 5 TYR A 11 PRO A 12 5 0.50 CISPEP 6 TYR A 11 PRO A 12 6 0.71 CISPEP 7 TYR A 11 PRO A 12 7 0.37 CISPEP 8 TYR A 11 PRO A 12 8 0.05 CISPEP 9 TYR A 11 PRO A 12 9 0.73 CISPEP 10 TYR A 11 PRO A 12 10 0.35 CISPEP 11 TYR A 11 PRO A 12 11 0.19 CISPEP 12 TYR A 11 PRO A 12 12 0.01 CISPEP 13 TYR A 11 PRO A 12 13 -0.01 CISPEP 14 TYR A 11 PRO A 12 14 1.51 CISPEP 15 TYR A 11 PRO A 12 15 0.82
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