PDB Short entry for 2NWM HEADER CELL ADHESION 15-NOV-06 2NWM TITLE SOLUTION STRUCTURE OF THE FIRST SH3 DOMAIN OF HUMAN VINEXIN AND ITS TITLE 2 INTERACTION WITH THE PEPTIDES FROM VINCULIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: VINEXIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: SH3 DOMAIN; COMPND 5 SYNONYM: SORBIN AND SH3 DOMAIN-CONTAINING PROTEIN 3, SH3-CONTAINING COMPND 6 ADAPTER MOLECULE 1, SCAM-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: VINEXIN; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET22B(+) KEYWDS VINEXIN SH3 DOMAIN, CELL ADHESION EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR J.ZHANG,B.YAO,J.WU,Y.SHI REVDAT 5 27-DEC-23 2NWM 1 REMARK REVDAT 4 16-MAR-22 2NWM 1 REMARK SEQADV REVDAT 3 24-FEB-09 2NWM 1 VERSN REVDAT 2 29-MAY-07 2NWM 1 JRNL REVDAT 1 24-APR-07 2NWM 0 JRNL AUTH J.ZHANG,X.LI,B.YAO,W.SHEN,H.SUN,C.XU,J.WU,Y.SHI JRNL TITL SOLUTION STRUCTURE OF THE FIRST SH3 DOMAIN OF HUMAN VINEXIN JRNL TITL 2 AND ITS INTERACTION WITH VINCULIN PEPTIDES JRNL REF BIOCHEM.BIOPHYS.RES.COMMUN. V. 357 931 2007 JRNL REFN ISSN 0006-291X JRNL PMID 17467669 JRNL DOI 10.1016/J.BBRC.2007.04.029 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NMRPIPE 2.2, CNS 1.1 REMARK 3 AUTHORS : DELAGLIO, F. (NMRPIPE), REMARK 3 BRUNGER,ADAMS,CLORE,DELANO,GROS,GROSSE-KUNSTLEVE,JIANG,KUSZEWSKI, REMARK 3 NILGES, PANNU,READ,RICE,SIMONSON,WARREN (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2NWM COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 20-NOV-06. REMARK 100 THE DEPOSITION ID IS D_1000040392. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.2 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 1-1.2MM 15N, 13C-LABELED HUMAN REMARK 210 VINEXIN SH3 DOMAIN; 50MM REMARK 210 PHOSPHATE BUFFER(PH 6.2); 50MM REMARK 210 NACL; 1MM DTT; 1MM EDTA; 90% H2O, REMARK 210 10% D2O; 1-1.2MM 15N, 13C- REMARK 210 LABELED HUMAN VINEXIN SH3 DOMAIN; REMARK 210 50MM PHOSPHATE BUFFER(PH 6.2); REMARK 210 50MM NACL; 1MM DTT; 1MM EDTA; REMARK 210 99.96% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY; 3D_13C REMARK 210 -SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : SPARKY 3, CNS 1.1, MOLMOL 2K.2 REMARK 210 METHOD USED : DISTANCE GEOMETRY, SIMULATED REMARK 210 ANNEALING, MOLECULAR DYNAMICS, REMARK 210 TORSION ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY 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 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-20 REMARK 465 RES C SSSEQI REMARK 465 HIS A 59 REMARK 465 HIS A 60 REMARK 465 HIS A 61 REMARK 465 HIS A 62 REMARK 465 HIS A 63 REMARK 465 HIS A 64 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 1 106.63 61.34 REMARK 500 1 LYS A 21 151.18 -47.84 REMARK 500 1 ASN A 34 24.56 119.24 REMARK 500 1 LEU A 55 73.32 -173.84 REMARK 500 1 PRO A 56 107.01 -52.36 REMARK 500 2 LYS A 6 34.08 -149.57 REMARK 500 2 ASN A 34 -139.49 -157.47 REMARK 500 2 LEU A 55 75.32 -156.36 REMARK 500 3 HIS A 28 -72.41 -88.41 REMARK 500 3 ASN A 34 25.79 162.80 REMARK 500 3 LEU A 55 96.39 -175.53 REMARK 500 3 PRO A 56 60.66 -66.52 REMARK 500 3 LEU A 57 -177.44 50.52 REMARK 500 4 LYS A 1 114.75 -166.19 REMARK 500 4 LYS A 6 33.69 -159.10 REMARK 500 4 ASP A 8 73.38 -67.68 REMARK 500 4 ASN A 34 30.15 163.42 REMARK 500 4 LEU A 55 69.91 -167.56 REMARK 500 5 LYS A 6 25.50 -154.57 REMARK 500 5 ASP A 8 95.96 -46.94 REMARK 500 5 GLU A 16 178.76 -57.10 REMARK 500 5 ASN A 34 37.44 166.13 REMARK 500 5 TYR A 51 32.41 -97.00 REMARK 500 5 LEU A 55 86.10 -174.57 REMARK 500 6 ASN A 34 21.99 163.72 REMARK 500 6 TRP A 35 115.67 -160.03 REMARK 500 6 LEU A 55 75.69 -175.23 REMARK 500 7 HIS A 28 -66.69 -94.41 REMARK 500 7 ASN A 34 23.54 163.72 REMARK 500 7 LEU A 55 85.15 -173.56 REMARK 500 8 ASN A 34 24.38 163.47 REMARK 500 8 LEU A 55 80.09 -172.12 REMARK 500 9 LYS A 6 39.18 -152.21 REMARK 500 9 ASP A 8 80.80 -64.40 REMARK 500 9 HIS A 28 -64.84 -108.51 REMARK 500 9 ASN A 34 28.60 160.64 REMARK 500 9 LEU A 55 71.21 -173.65 REMARK 500 10 LYS A 1 115.35 61.70 REMARK 500 10 LYS A 6 19.97 -146.41 REMARK 500 10 ASP A 8 106.51 -47.17 REMARK 500 10 HIS A 28 -63.45 -96.10 REMARK 500 10 ASN A 34 23.15 163.57 REMARK 500 10 TYR A 51 38.49 -98.39 REMARK 500 10 LEU A 55 79.26 -175.81 REMARK 500 11 ASN A 34 27.92 167.89 REMARK 500 11 LEU A 55 84.96 -169.91 REMARK 500 12 LYS A 6 25.80 -144.78 REMARK 500 12 ASN A 34 32.42 167.77 REMARK 500 12 LEU A 55 77.42 -169.64 REMARK 500 13 ASN A 34 26.17 163.69 REMARK 500 REMARK 500 THIS ENTRY HAS 79 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL DBREF 2NWM A 1 56 UNP O60504 VINEX_HUMAN 383 438 SEQADV 2NWM MET A 0 UNP O60504 INITIATING METHIONINE SEQADV 2NWM LEU A 57 UNP O60504 CLONING ARTIFACT SEQADV 2NWM GLU A 58 UNP O60504 CLONING ARTIFACT SEQADV 2NWM HIS A 59 UNP O60504 EXPRESSION TAG SEQADV 2NWM HIS A 60 UNP O60504 EXPRESSION TAG SEQADV 2NWM HIS A 61 UNP O60504 EXPRESSION TAG SEQADV 2NWM HIS A 62 UNP O60504 EXPRESSION TAG SEQADV 2NWM HIS A 63 UNP O60504 EXPRESSION TAG SEQADV 2NWM HIS A 64 UNP O60504 EXPRESSION TAG SEQRES 1 A 65 MET LYS ALA ALA ARG LEU LYS PHE ASP PHE GLN ALA GLN SEQRES 2 A 65 SER PRO LYS GLU LEU THR LEU GLN LYS GLY ASP ILE VAL SEQRES 3 A 65 TYR ILE HIS LYS GLU VAL ASP LYS ASN TRP LEU GLU GLY SEQRES 4 A 65 GLU HIS HIS GLY ARG LEU GLY ILE PHE PRO ALA ASN TYR SEQRES 5 A 65 VAL GLU VAL LEU PRO LEU GLU HIS HIS HIS HIS HIS HIS HELIX 1 1 PRO A 48 ASN A 50 5 3 SHEET 1 A 5 ARG A 43 PHE A 47 0 SHEET 2 A 5 LEU A 36 HIS A 40 -1 N HIS A 40 O ARG A 43 SHEET 3 A 5 ILE A 24 LYS A 29 -1 N TYR A 26 O GLU A 39 SHEET 4 A 5 ALA A 2 LEU A 5 -1 N ALA A 3 O VAL A 25 SHEET 5 A 5 VAL A 52 VAL A 54 -1 O GLU A 53 N ARG A 4 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