10 20 30 40 50 60 70 80 2CO8 - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER METAL BINDING PROTEIN 17-MAY-05 2CO8
TITLE SOLUTION STRUCTURES OF THE LIM DOMAIN OF HUMAN NEDD9 TITLE 2 INTERACTING PROTEIN WITH CALPONIN HOMOLOGY AND LIM DOMAINS
COMPND MOL_ID: 1; COMPND 2 MOLECULE: NEDD9 INTERACTING PROTEIN WITH CALPONIN HOMOLOGY COMPND 3 AND LIM DOMAINS; COMPND 4 CHAIN: A; COMPND 5 FRAGMENT: LIM DOMAIN; COMPND 6 SYNONYM: MOLECULE INTERACTING WITH CASL PROTEIN 1; COMPND 7 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: NICAL; SOURCE 6 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: P040614-06; SOURCE 8 OTHER_DETAILS: CELL-FREE PROTEIN SYNTHESIS
KEYWDS LIM DOMAIN, ZINC FINGER PROTEIN, STRUCTURAL GENOMICS, KEYWDS 2 NPPSFA, NATIONAL PROJECT ON PROTEIN STRUCTURAL AND KEYWDS 3 FUNCTIONAL ANALYSES, RIKEN STRUCTURAL GENOMICS/PROTEOMICS KEYWDS 4 INITIATIVE, RSGI, METAL BINDING PROTEIN
EXPDTA SOLUTION NMR
NUMMDL 20
AUTHOR M.SATO,T.TOMIZAWA,K.SAITO,S.KOSHIBA,M.INOUE,T.KIGAWA, AUTHOR 2 S.YOKOYAMA,RIKEN STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE AUTHOR 3 (RSGI)
REVDAT 2 24-FEB-09 2CO8 1 VERSN REVDAT 1 17-NOV-05 2CO8 0
JRNL AUTH M.SATO,T.TOMIZAWA,K.SAITO,S.KOSHIBA,M.INOUE, JRNL AUTH 2 T.KIGAWA,S.YOKOYAMA JRNL TITL SOLUTION STRUCTURES OF THE LIM DOMAIN OF HUMAN JRNL TITL 2 NEDD9 INTERACTING PROTEIN WITH CALPONIN HOMOLOGY JRNL TITL 3 AND LIM DOMAINS 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 : GUNTERT, P. REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4 REMARK 4 2CO8 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 20-MAY-05. REMARK 100 THE RCSB ID CODE IS RCSB024440.
REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : 120MM REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1MM LIM DOMAIN U-15N,13C; REMARK 210 20MM D-TRIS HCL; 100MM NACL; REMARK 210 1MM D-DTT; 0.02% NAN3; 0.01MM REMARK 210 ZNCL2; 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_13C-SEPARATED_NOESY, 3D_ REMARK 210 15N-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 2.6, NMRPIPE REMARK 210 20031121, NMRVIEW 5.0.4, REMARK 210 KUJIRA 0.9295, 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 ALA A 12 -54.07 -125.88 REMARK 500 1 CYS A 18 162.57 -41.01 REMARK 500 1 CYS A 32 96.84 -69.20 REMARK 500 1 PHE A 43 101.70 -48.97 REMARK 500 1 THR A 51 103.07 -41.22 REMARK 500 1 PRO A 54 79.62 -69.79 REMARK 500 1 PRO A 73 -168.52 -69.73 REMARK 500 1 THR A 75 138.06 -34.00 REMARK 500 1 SER A 80 40.91 35.13 REMARK 500 2 SER A 5 134.81 -172.78 REMARK 500 2 CYS A 18 150.56 -35.69 REMARK 500 2 GLU A 29 48.82 -78.05 REMARK 500 2 CYS A 32 98.69 -67.40 REMARK 500 2 PHE A 43 103.51 -50.99 REMARK 500 2 THR A 51 104.26 -45.11 REMARK 500 2 PRO A 54 79.66 -69.82 REMARK 500 2 PRO A 73 -178.16 -69.74 REMARK 500 2 THR A 75 108.69 -55.60 REMARK 500 3 SER A 2 132.55 -171.13 REMARK 500 3 CYS A 18 147.93 -33.19 REMARK 500 3 ARG A 30 131.58 -36.92 REMARK 500 3 ARG A 40 -25.75 -39.13 REMARK 500 3 PHE A 43 101.68 -52.05 REMARK 500 3 THR A 51 98.75 -39.97 REMARK 500 3 PRO A 54 8.51 -69.78 REMARK 500 3 PRO A 73 -179.56 -69.76 REMARK 500 3 THR A 75 158.15 -40.94 REMARK 500 3 SER A 77 83.12 -67.87 REMARK 500 4 GLN A 8 129.53 -175.04 REMARK 500 4 HIS A 9 114.49 -166.63 REMARK 500 4 ALA A 14 116.68 -167.10 REMARK 500 4 ASP A 16 37.75 -99.13 REMARK 500 4 CYS A 18 154.68 -37.30 REMARK 500 4 PHE A 43 102.29 -56.38 REMARK 500 4 THR A 51 96.81 -47.45 REMARK 500 4 LEU A 52 89.41 -69.33 REMARK 500 4 PRO A 54 82.25 -69.71 REMARK 500 4 PRO A 73 -180.00 -69.81 REMARK 500 4 ASP A 76 45.13 36.08 REMARK 500 4 SER A 77 54.12 37.26 REMARK 500 5 ASP A 16 47.24 -97.40 REMARK 500 5 CYS A 18 156.00 -38.67 REMARK 500 5 GLU A 23 -70.40 -88.49 REMARK 500 5 ARG A 40 -26.56 -38.18 REMARK 500 5 PHE A 43 102.44 -57.27 REMARK 500 5 THR A 51 100.18 -46.16 REMARK 500 5 PRO A 54 14.12 -69.73 REMARK 500 5 PRO A 73 -171.95 -69.79 REMARK 500 5 THR A 75 165.08 -44.54 REMARK 500 6 GLU A 11 137.14 -173.92 REMARK 500 6 CYS A 18 152.58 -43.17 REMARK 500 6 CYS A 32 95.40 -69.26 REMARK 500 6 PHE A 43 96.90 -54.80 REMARK 500 6 THR A 51 102.46 -41.58 REMARK 500 6 PRO A 54 7.32 -69.80 REMARK 500 7 SER A 2 43.67 36.17 REMARK 500 7 SER A 5 110.26 -173.30 REMARK 500 7 ALA A 14 36.66 -92.36 REMARK 500 7 ASP A 16 42.53 -85.21 REMARK 500 7 CYS A 18 147.23 -34.35 REMARK 500 7 ARG A 30 134.32 -37.16 REMARK 500 7 CYS A 32 92.51 -67.63 REMARK 500 7 PHE A 43 95.26 -48.94 REMARK 500 7 THR A 51 101.18 -38.96 REMARK 500 7 PRO A 54 6.96 -69.77 REMARK 500 7 THR A 75 116.39 -37.26 REMARK 500 7 ASP A 76 43.62 -94.35 REMARK 500 8 SER A 3 146.67 -174.33 REMARK 500 8 ALA A 12 36.26 -99.29 REMARK 500 8 CYS A 18 159.20 -39.50 REMARK 500 8 LEU A 20 -74.04 -57.71 REMARK 500 8 GLU A 29 -51.68 -133.99 REMARK 500 8 CYS A 32 89.60 -68.77 REMARK 500 8 PHE A 43 93.40 -49.43 REMARK 500 8 THR A 51 102.79 -40.93 REMARK 500 8 PRO A 54 7.47 -69.80 REMARK 500 8 PRO A 73 -173.67 -69.81 REMARK 500 8 THR A 75 48.38 -90.63 REMARK 500 9 GLU A 11 105.85 -165.93 REMARK 500 9 CYS A 18 144.48 -36.42 REMARK 500 9 GLU A 23 -75.43 -99.86 REMARK 500 9 GLU A 29 -37.13 -134.22 REMARK 500 9 CYS A 32 96.60 -67.86 REMARK 500 9 PHE A 43 99.23 -52.91 REMARK 500 9 THR A 51 97.32 -51.90 REMARK 500 9 PRO A 54 14.29 -69.84 REMARK 500 9 PRO A 73 -171.43 -69.74 REMARK 500 9 SER A 80 128.62 -34.54 REMARK 500 10 SER A 2 137.06 -170.84 REMARK 500 10 CYS A 18 143.73 -37.37 REMARK 500 10 LEU A 28 -63.92 -103.97 REMARK 500 10 ARG A 30 150.21 -46.94 REMARK 500 10 CYS A 32 93.50 -67.25 REMARK 500 10 PHE A 43 92.18 -44.15 REMARK 500 10 THR A 51 100.90 -41.43 REMARK 500 10 PRO A 54 13.27 -69.76 REMARK 500 10 SER A 80 122.36 -35.51 REMARK 500 11 SER A 5 115.77 -172.67 REMARK 500 11 CYS A 18 122.68 -31.20 REMARK 500 11 THR A 51 113.20 -39.35 REMARK 500 11 PRO A 54 12.55 -69.69 REMARK 500 11 PRO A 73 -175.30 -69.76 REMARK 500 11 ASP A 76 42.10 -107.07 REMARK 500 12 ASP A 16 76.87 -118.00 REMARK 500 12 CYS A 18 143.28 -34.42 REMARK 500 12 CYS A 32 93.64 -68.75 REMARK 500 12 THR A 51 97.84 -46.40 REMARK 500 12 LEU A 52 97.93 -67.28 REMARK 500 12 PRO A 54 15.00 -69.74 REMARK 500 12 THR A 75 177.44 -54.36 REMARK 500 13 CYS A 18 119.98 -29.99 REMARK 500 13 CYS A 32 98.95 -66.68 REMARK 500 13 PHE A 43 95.95 -61.98 REMARK 500 13 THR A 51 96.05 -54.97 REMARK 500 13 LEU A 52 93.20 -66.16 REMARK 500 13 PRO A 54 76.97 -69.82 REMARK 500 13 PRO A 73 -172.91 -69.75 REMARK 500 13 ASP A 76 -54.53 -128.13 REMARK 500 13 SER A 80 166.17 -43.39 REMARK 500 14 GLN A 8 41.50 37.75 REMARK 500 14 CYS A 18 162.59 -40.47 REMARK 500 14 CYS A 45 164.62 -49.08 REMARK 500 14 THR A 51 113.64 -39.98 REMARK 500 14 PRO A 54 16.81 -69.71 REMARK 500 14 ASP A 76 111.07 -35.82 REMARK 500 15 ALA A 14 -61.40 -104.29 REMARK 500 15 ASP A 16 47.83 -78.70 REMARK 500 15 CYS A 18 130.65 -31.98 REMARK 500 15 ARG A 30 136.55 -34.19 REMARK 500 15 CYS A 32 89.95 -66.75 REMARK 500 15 PHE A 43 92.14 -67.39 REMARK 500 15 THR A 51 100.06 -55.00 REMARK 500 15 PRO A 54 16.20 -69.77 REMARK 500 15 PRO A 73 -174.55 -69.76 REMARK 500 16 CYS A 18 153.08 -36.79 REMARK 500 16 GLU A 23 -62.57 -92.04 REMARK 500 16 HIS A 24 126.52 -171.58 REMARK 500 16 LEU A 28 -72.99 -108.55 REMARK 500 16 GLU A 29 -37.57 -33.37 REMARK 500 16 PHE A 43 93.30 -46.42 REMARK 500 16 THR A 51 100.04 -49.41 REMARK 500 16 PRO A 54 15.64 -69.77 REMARK 500 16 PRO A 73 -177.16 -69.71 REMARK 500 16 THR A 75 157.06 -38.92 REMARK 500 17 GLN A 10 171.55 -50.89 REMARK 500 17 CYS A 18 162.40 -40.53 REMARK 500 17 LEU A 20 -74.11 -54.64 REMARK 500 17 PHE A 43 96.80 -48.18 REMARK 500 17 THR A 51 104.65 -40.94 REMARK 500 17 PRO A 54 13.18 -69.78 REMARK 500 17 ASP A 63 -65.42 -98.50 REMARK 500 17 PRO A 73 -179.02 -69.76 REMARK 500 18 GLN A 10 115.16 -34.42 REMARK 500 18 ALA A 12 140.78 -39.71 REMARK 500 18 CYS A 18 161.59 -40.64 REMARK 500 18 ASN A 34 25.30 47.40 REMARK 500 18 CYS A 45 163.74 -47.37 REMARK 500 18 THR A 51 114.46 -39.76 REMARK 500 18 PRO A 54 11.48 -69.78 REMARK 500 18 PRO A 73 -175.48 -69.80 REMARK 500 18 ASP A 76 45.00 34.08 REMARK 500 18 PRO A 79 86.52 -69.81 REMARK 500 19 HIS A 9 45.51 70.05 REMARK 500 19 CYS A 18 162.32 -40.41 REMARK 500 19 GLU A 23 -71.76 -91.32 REMARK 500 19 HIS A 24 127.86 -173.14 REMARK 500 19 PHE A 43 96.09 -49.23 REMARK 500 19 THR A 51 102.38 -43.55 REMARK 500 19 PRO A 54 17.12 -69.74 REMARK 500 19 PRO A 73 -170.59 -69.79 REMARK 500 19 THR A 75 45.55 38.85 REMARK 500 20 SER A 3 106.04 -59.56 REMARK 500 20 GLU A 11 141.13 -35.35 REMARK 500 20 CYS A 18 126.06 -32.06 REMARK 500 20 GLU A 29 -37.31 -134.69 REMARK 500 20 PHE A 43 84.59 -54.45 REMARK 500 20 THR A 51 98.44 -42.62 REMARK 500 20 PRO A 54 15.55 -69.73 REMARK 500 20 ASP A 76 -38.82 -133.88 REMARK 500 20 PRO A 79 1.93 -69.80 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 113.9 REMARK 620 3 HIS A 39 ND1 85.8 88.8 REMARK 620 4 CYS A 42 SG 118.4 121.0 119.5 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 92.1 REMARK 620 3 CYS A 68 SG 103.9 115.4 REMARK 620 4 HIS A 71 ND1 115.4 117.1 110.9 REMARK 620 N 1 2 3
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: HSS001000142.2 RELATED DB: TARGETDB
DBREF 2CO8 A 8 76 UNP Q8TDZ2 MICA1_HUMAN 687 755
SEQADV 2CO8 GLY A 1 UNP Q8TDZ2 CLONING ARTIFACT SEQADV 2CO8 SER A 2 UNP Q8TDZ2 CLONING ARTIFACT SEQADV 2CO8 SER A 3 UNP Q8TDZ2 CLONING ARTIFACT SEQADV 2CO8 GLY A 4 UNP Q8TDZ2 CLONING ARTIFACT SEQADV 2CO8 SER A 5 UNP Q8TDZ2 CLONING ARTIFACT SEQADV 2CO8 SER A 6 UNP Q8TDZ2 CLONING ARTIFACT SEQADV 2CO8 GLY A 7 UNP Q8TDZ2 CLONING ARTIFACT SEQADV 2CO8 SER A 77 UNP Q8TDZ2 CLONING ARTIFACT SEQADV 2CO8 GLY A 78 UNP Q8TDZ2 CLONING ARTIFACT SEQADV 2CO8 PRO A 79 UNP Q8TDZ2 CLONING ARTIFACT SEQADV 2CO8 SER A 80 UNP Q8TDZ2 CLONING ARTIFACT SEQADV 2CO8 SER A 81 UNP Q8TDZ2 CLONING ARTIFACT SEQADV 2CO8 GLY A 82 UNP Q8TDZ2 CLONING ARTIFACT
SEQRES 1 A 82 GLY SER SER GLY SER SER GLY GLN HIS GLN GLU ALA GLY SEQRES 2 A 82 ALA GLY ASP LEU CYS ALA LEU CYS GLY GLU HIS LEU TYR SEQRES 3 A 82 VAL LEU GLU ARG LEU CYS VAL ASN GLY HIS PHE PHE HIS SEQRES 4 A 82 ARG SER CYS PHE ARG CYS HIS THR CYS GLU ALA THR LEU SEQRES 5 A 82 TRP PRO GLY GLY TYR GLU GLN HIS PRO GLY ASP GLY HIS SEQRES 6 A 82 PHE TYR CYS LEU GLN HIS LEU PRO GLN THR ASP SER GLY SEQRES 7 A 82 PRO SER SER GLY
HET ZN A 201 1 HET ZN A 401 1
HETNAM ZN ZINC ION
FORMUL 2 ZN 2(ZN 2+)
SHEET 1 A 2 TYR A 57 GLU A 58 0 SHEET 2 A 2 TYR A 67 CYS A 68 -1 O TYR A 67 N GLU A 58
LINK ZN ZN A 201 SG CYS A 18 1555 1555 2.37 LINK ZN ZN A 201 SG CYS A 21 1555 1555 2.31 LINK ZN ZN A 201 ND1 HIS A 39 1555 1555 2.33 LINK ZN ZN A 201 SG CYS A 42 1555 1555 2.31 LINK ZN ZN A 401 SG CYS A 45 1555 1555 2.37 LINK ZN ZN A 401 SG CYS A 48 1555 1555 2.33 LINK ZN ZN A 401 SG CYS A 68 1555 1555 2.37 LINK ZN ZN A 401 ND1 HIS A 71 1555 1555 2.36
SITE 1 AC1 5 CYS A 18 LEU A 20 CYS A 21 HIS A 39 SITE 2 AC1 5 CYS A 42 SITE 1 AC2 4 CYS A 45 CYS A 48 CYS A 68 HIS A 71
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