10 20 30 40 50 60 70 80 2DJ7 - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER METAL BINDING PROTEIN 31-MAR-06 2DJ7
TITLE SOLUTION STRUCTURE OF 3RD LIM DOMAIN OF ACTIN-BINDING LIM TITLE 2 PROTEIN 3
COMPND MOL_ID: 1; COMPND 2 MOLECULE: ACTIN-BINDING LIM PROTEIN 3; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: LIM DOMAIN; COMPND 5 SYNONYM: ACTIN-BINDING LIM PROTEIN FAMILY MEMBER 3, ABLIM3; COMPND 6 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: ABLIM3; SOURCE 6 EXPRESSION_SYSTEM: CELL FREE SYNTHESIS; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: P050111-11; SOURCE 9 OTHER_DETAILS: CELL-FREE PROTEIN SYNTHESIS
KEYWDS LIM DOMAIN, ACTIN-BINDING LIM PROTEIN 3, ZN BINDING PROTEIN, KEYWDS 2 STRUCTURAL GENOMICS, NPPSFA, NATIONAL PROJECT ON PROTEIN KEYWDS 3 STRUCTURAL AND FUNCTIONAL ANALYSES, RIKEN STRUCTURAL KEYWDS 4 GENOMICS/PROTEOMICS INITIATIVE, RSGI, METAL BINDING PROTEIN
EXPDTA SOLUTION NMR
NUMMDL 20
AUTHOR T.N.NIRAULA,A.SASAGAWA,S.KOSHIBA,M.INOUE,T.KIGAWA, AUTHOR 2 S.YOKOYAMA,RIKEN STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE AUTHOR 3 (RSGI)
REVDAT 2 24-FEB-09 2DJ7 1 VERSN REVDAT 1 01-OCT-06 2DJ7 0
JRNL AUTH T.N.NIRAULA,A.SASAGAWA,S.KOSHIBA,M.INOUE,T.KIGAWA, JRNL AUTH 2 S.YOKOYAMA JRNL TITL SOLUTION STRUCTURE OF 3RD LIM DOMAIN OF JRNL TITL 2 ACTIN-BINDING LIM PROTEIN 3 JRNL REF TO BE PUBLISHED JRNL REFN
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA 2.0.17 REMARK 3 AUTHORS : GUENTERT, P. REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4 REMARK 4 2DJ7 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 06-APR-06. REMARK 100 THE RCSB ID CODE IS RCSB025476.
REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 296 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : 120 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1.34MM LIM DOMAIN, U-13C, REMARK 210 15N; 20MM D-TRIS_HCL (PH 7.0); REMARK 210 100MM NACL; 1MM D-DTT, 0.02% REMARK 210 NAN3; 0.05MM ZNCL2; 1MM IDA; REMARK 210 90% H2O, 10% D20 REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY, 3D_ REMARK 210 13C-SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XWINNMR 3.5, NMRPIPE REMARK 210 20031121, NMR VIEW 5.0.4, REMARK 210 KUJIRA 0.955, CYANA 2.0.17 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : TARGET FUNCTION, STRUCTURES REMARK 210 WITH THE LEAST RESTRAINT REMARK 210 VIOLATIONS REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: NULL
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 LYS A 11 39.93 -91.03 REMARK 500 1 PRO A 15 -167.99 -69.78 REMARK 500 1 CYS A 45 167.20 -48.76 REMARK 500 1 ASP A 60 29.46 41.12 REMARK 500 1 SER A 67 -70.92 -87.96 REMARK 500 1 SER A 79 47.75 -83.21 REMARK 500 2 LYS A 26 39.73 -81.71 REMARK 500 2 HIS A 27 40.55 34.58 REMARK 500 2 GLN A 29 42.98 -80.55 REMARK 500 2 ASP A 35 25.61 49.26 REMARK 500 2 PHE A 43 97.39 -69.89 REMARK 500 2 CYS A 45 166.63 -49.55 REMARK 500 2 SER A 49 49.23 70.72 REMARK 500 2 ASP A 60 26.28 44.11 REMARK 500 2 SER A 67 -70.76 -87.63 REMARK 500 2 SER A 75 149.06 -171.06 REMARK 500 3 SER A 2 118.53 -174.52 REMARK 500 3 SER A 5 -62.14 -102.22 REMARK 500 3 LYS A 11 51.53 -115.23 REMARK 500 3 PRO A 15 -175.79 -69.73 REMARK 500 3 GLN A 29 35.63 35.24 REMARK 500 3 ALA A 33 133.69 -172.09 REMARK 500 3 SER A 67 -71.19 -90.22 REMARK 500 3 PRO A 77 90.52 -69.78 REMARK 500 4 PRO A 15 -175.61 -69.78 REMARK 500 4 HIS A 27 89.82 -65.09 REMARK 500 4 ASP A 60 28.25 41.82 REMARK 500 4 SER A 67 -70.54 -88.24 REMARK 500 4 GLN A 72 -62.04 -95.75 REMARK 500 4 PRO A 77 11.45 -69.82 REMARK 500 4 SER A 78 122.19 -27.46 REMARK 500 5 SER A 5 147.06 -173.77 REMARK 500 5 ARG A 13 146.94 -175.23 REMARK 500 5 PRO A 15 -172.51 -69.78 REMARK 500 5 ALA A 33 130.58 -173.27 REMARK 500 5 CYS A 45 166.70 -47.72 REMARK 500 5 ASP A 60 26.81 41.72 REMARK 500 5 SER A 67 -70.80 -88.27 REMARK 500 5 PRO A 77 15.90 -69.78 REMARK 500 6 SER A 2 41.56 37.06 REMARK 500 6 PRO A 9 -173.67 -69.74 REMARK 500 6 ILE A 12 79.46 -118.74 REMARK 500 6 HIS A 27 130.12 -34.52 REMARK 500 6 ALA A 33 137.72 -171.89 REMARK 500 6 SER A 67 -70.70 -89.05 REMARK 500 6 GLN A 72 -63.68 -96.64 REMARK 500 7 PRO A 9 -174.18 -69.83 REMARK 500 7 ARG A 13 48.14 34.42 REMARK 500 7 HIS A 27 -38.40 -37.05 REMARK 500 7 CYS A 45 166.84 -47.49 REMARK 500 7 SER A 67 -71.41 -90.03 REMARK 500 8 SER A 5 125.90 -171.23 REMARK 500 8 HIS A 27 95.47 -68.64 REMARK 500 8 CYS A 45 168.03 -49.44 REMARK 500 8 SER A 67 -71.96 -90.24 REMARK 500 9 SER A 2 126.99 -174.38 REMARK 500 9 PRO A 9 -175.83 -69.74 REMARK 500 9 ILE A 10 48.19 27.76 REMARK 500 9 LYS A 11 38.39 -80.99 REMARK 500 9 CYS A 18 155.72 -39.36 REMARK 500 9 HIS A 39 178.02 -58.83 REMARK 500 9 SER A 67 -71.54 -89.89 REMARK 500 9 GLN A 72 -63.80 -91.45 REMARK 500 9 PRO A 77 -172.71 -69.77 REMARK 500 9 SER A 79 42.14 72.82 REMARK 500 10 SER A 2 118.70 -160.32 REMARK 500 10 PRO A 15 -164.42 -69.72 REMARK 500 10 HIS A 27 44.86 -83.46 REMARK 500 10 CYS A 45 168.28 -48.73 REMARK 500 10 ASP A 60 33.55 38.84 REMARK 500 10 SER A 67 -71.14 -89.30 REMARK 500 10 SER A 78 172.50 -53.45 REMARK 500 11 SER A 2 42.40 -97.38 REMARK 500 11 PRO A 15 81.75 -69.76 REMARK 500 11 LYS A 26 -40.18 -133.67 REMARK 500 11 CYS A 45 167.51 -48.85 REMARK 500 11 THR A 53 -39.30 -133.54 REMARK 500 11 SER A 67 -71.37 -88.79 REMARK 500 11 GLN A 72 -62.71 -90.97 REMARK 500 11 PRO A 77 -178.20 -69.78 REMARK 500 12 LYS A 8 111.38 -168.65 REMARK 500 12 PRO A 9 -177.29 -69.75 REMARK 500 12 LYS A 26 145.33 -34.72 REMARK 500 12 ASP A 60 31.48 38.48 REMARK 500 12 SER A 67 -71.06 -89.10 REMARK 500 12 PRO A 77 0.08 -69.75 REMARK 500 13 SER A 3 147.31 -173.89 REMARK 500 13 PRO A 15 -168.29 -69.74 REMARK 500 13 ASP A 35 26.56 49.17 REMARK 500 13 CYS A 45 165.67 -44.09 REMARK 500 13 THR A 53 -42.40 -132.87 REMARK 500 13 SER A 67 -70.73 -88.32 REMARK 500 13 GLN A 72 -63.03 -96.89 REMARK 500 13 PRO A 77 -179.18 -69.76 REMARK 500 13 SER A 79 42.90 37.75 REMARK 500 14 LYS A 11 70.72 -101.68 REMARK 500 14 PRO A 15 -175.70 -69.73 REMARK 500 14 LYS A 26 70.21 -102.90 REMARK 500 14 SER A 67 -71.34 -88.97 REMARK 500 14 PRO A 77 98.11 -69.71 REMARK 500 15 ILE A 10 -179.87 -59.13 REMARK 500 15 PRO A 15 -167.90 -69.82 REMARK 500 15 PHE A 43 86.65 -65.02 REMARK 500 15 CYS A 45 167.43 -49.53 REMARK 500 15 THR A 53 -39.06 -132.74 REMARK 500 15 ASP A 60 32.75 38.52 REMARK 500 15 SER A 67 -70.71 -90.48 REMARK 500 15 PRO A 77 90.13 -69.81 REMARK 500 16 LYS A 26 -60.23 -127.95 REMARK 500 16 ASP A 60 26.89 39.92 REMARK 500 16 SER A 67 -71.41 -90.48 REMARK 500 16 PRO A 77 -178.17 -69.76 REMARK 500 17 PRO A 15 89.18 -69.75 REMARK 500 17 LYS A 26 -50.01 -130.62 REMARK 500 17 CYS A 45 167.72 -44.21 REMARK 500 17 ILE A 51 136.42 -38.94 REMARK 500 17 ASP A 60 37.63 39.57 REMARK 500 17 SER A 67 -71.07 -88.57 REMARK 500 17 GLN A 72 -64.61 -94.51 REMARK 500 17 PRO A 77 81.73 -69.69 REMARK 500 18 PRO A 9 97.16 -69.72 REMARK 500 18 ILE A 10 -32.29 -38.65 REMARK 500 18 LYS A 11 53.76 70.77 REMARK 500 18 GLU A 24 130.31 -37.42 REMARK 500 18 LYS A 26 45.00 -78.71 REMARK 500 18 HIS A 27 -40.39 -133.83 REMARK 500 18 ASP A 35 25.22 48.17 REMARK 500 18 CYS A 45 167.31 -47.43 REMARK 500 18 SER A 67 -71.61 -90.86 REMARK 500 18 GLN A 72 -62.07 -99.11 REMARK 500 19 LYS A 11 53.57 -119.07 REMARK 500 19 PRO A 15 -170.28 -69.76 REMARK 500 19 CYS A 45 167.33 -45.73 REMARK 500 19 SER A 49 53.06 70.88 REMARK 500 19 THR A 53 -39.54 -131.95 REMARK 500 19 ASP A 60 37.65 39.56 REMARK 500 19 SER A 67 -71.22 -89.69 REMARK 500 20 SER A 2 116.57 -170.74 REMARK 500 20 SER A 5 129.79 -171.37 REMARK 500 20 ARG A 13 105.92 -171.23 REMARK 500 20 PRO A 15 -165.90 -69.79 REMARK 500 20 CYS A 18 156.99 -41.38 REMARK 500 20 HIS A 27 107.55 -38.47 REMARK 500 20 ALA A 33 128.53 -170.70 REMARK 500 20 SER A 67 -71.39 -90.02 REMARK 500 20 GLN A 72 -64.39 -98.12 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 1 ZN A 201 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 18 SG REMARK 620 2 CYS A 21 SG 101.1 REMARK 620 3 HIS A 39 ND1 107.2 101.3 REMARK 620 4 CYS A 42 SG 116.4 115.3 113.8 REMARK 620 N 1 2 3 REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 1 ZN A 401 ZN REMARK 620 N RES CSSEQI ATOM REMARK 620 1 CYS A 45 SG REMARK 620 2 CYS A 48 SG 97.0 REMARK 620 3 CYS A 65 SG 114.9 101.9 REMARK 620 4 ASP A 68 OD1 118.4 109.9 112.0 REMARK 620 5 ASP A 68 OD2 99.3 99.7 136.4 24.4 REMARK 620 N 1 2 3 4
REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 201 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE ZN A 401
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: HSI002003873.1 RELATED DB: TARGETDB
DBREF 2DJ7 A 8 74 UNP O94929 ABLM3_HUMAN 120 135
SEQADV 2DJ7 GLY A 1 UNP O94929 CLONING ARTIFACT SEQADV 2DJ7 SER A 2 UNP O94929 CLONING ARTIFACT SEQADV 2DJ7 SER A 3 UNP O94929 CLONING ARTIFACT SEQADV 2DJ7 GLY A 4 UNP O94929 CLONING ARTIFACT SEQADV 2DJ7 SER A 5 UNP O94929 CLONING ARTIFACT SEQADV 2DJ7 SER A 6 UNP O94929 CLONING ARTIFACT SEQADV 2DJ7 GLY A 7 UNP O94929 CLONING ARTIFACT SEQADV 2DJ7 SER A 75 UNP O94929 CLONING ARTIFACT SEQADV 2DJ7 GLY A 76 UNP O94929 CLONING ARTIFACT SEQADV 2DJ7 PRO A 77 UNP O94929 CLONING ARTIFACT SEQADV 2DJ7 SER A 78 UNP O94929 CLONING ARTIFACT SEQADV 2DJ7 SER A 79 UNP O94929 CLONING ARTIFACT SEQADV 2DJ7 GLY A 80 UNP O94929 CLONING ARTIFACT
SEQRES 1 A 80 GLY SER SER GLY SER SER GLY LYS PRO ILE LYS ILE ARG SEQRES 2 A 80 GLY PRO SER HIS CYS ALA GLY CYS LYS GLU GLU ILE LYS SEQRES 3 A 80 HIS GLY GLN SER LEU LEU ALA LEU ASP LYS GLN TRP HIS SEQRES 4 A 80 VAL SER CYS PHE LYS CYS GLN THR CYS SER VAL ILE LEU SEQRES 5 A 80 THR GLY GLU TYR ILE SER LYS ASP GLY VAL PRO TYR CYS SEQRES 6 A 80 GLU SER ASP TYR HIS ALA GLN PHE GLY SER GLY PRO SER SEQRES 7 A 80 SER GLY
HET ZN A 201 1 HET ZN A 401 1
HETNAM ZN ZINC ION
FORMUL 2 ZN 2(ZN 2+)
HELIX 1 1 SER A 67 PHE A 73 1 7
SHEET 1 A 2 LEU A 31 ALA A 33 0 SHEET 2 A 2 LYS A 36 TRP A 38 -1 O TRP A 38 N LEU A 31 SHEET 1 B 2 ILE A 57 LYS A 59 0 SHEET 2 B 2 VAL A 62 TYR A 64 -1 O TYR A 64 N ILE A 57
LINK ZN ZN A 201 SG CYS A 18 1555 1555 2.39 LINK ZN ZN A 201 SG CYS A 21 1555 1555 2.23 LINK ZN ZN A 201 ND1 HIS A 39 1555 1555 2.08 LINK ZN ZN A 201 SG CYS A 42 1555 1555 2.25 LINK ZN ZN A 401 SG CYS A 45 1555 1555 2.39 LINK ZN ZN A 401 SG CYS A 48 1555 1555 2.39 LINK ZN ZN A 401 SG CYS A 65 1555 1555 2.18 LINK ZN ZN A 401 OD1 ASP A 68 1555 1555 3.78 LINK ZN ZN A 401 OD2 ASP A 68 1555 1555 1.90
SITE 1 AC1 4 CYS A 18 CYS A 21 HIS A 39 CYS A 42 SITE 1 AC2 4 CYS A 45 CYS A 48 CYS A 65 ASP A 68
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