PDB Short entry for 2ROR HEADER SIGNALING PROTEIN 08-APR-08 2ROR TITLE SOLUTION STRUCTURE OF THE VAV1 SH2 DOMAIN COMPLEXED WITH A TYROSINE- TITLE 2 PHOSPHORYLATED PEPTIDE FROM SLP76 COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTO-ONCOGENE VAV; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: SH2 DOMAIN, UNP RESIDUES 629-775; COMPND 5 ENGINEERED: YES; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: 15-MERIC PEPTIDE FROM LYMPHOCYTE CYTOSOLIC PROTEIN 2; COMPND 8 CHAIN: B; COMPND 9 SYNONYM: SH2 DOMAIN-CONTAINING LEUKOCYTE PROTEIN OF 76 KDA, SLP-76 COMPND 10 TYROSINE PHOSPHOPROTEIN, SLP76; COMPND 11 ENGINEERED: YES; COMPND 12 OTHER_DETAILS: TYROSINE PHOSPHORYLATION SITE SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 GENE: VAV1; SOURCE 6 EXPRESSION_SYSTEM: CELL-FREE SYNTHESIS; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: VECTOR; SOURCE 8 EXPRESSION_SYSTEM_VECTOR: P040517-08; SOURCE 9 OTHER_DETAILS: E. COLI CELL FREE; SOURCE 10 MOL_ID: 2; SOURCE 11 SYNTHETIC: YES; SOURCE 12 OTHER_DETAILS: CHEMICAL SYNTHESIS KEYWDS SH2 DOMAIN, PROTEIN-PEPTIDE COMPLEX, PHOSPHORYLATED PEPTIDE KEYWDS 2 RECOGNITION, PHOSPHOTYROSINE BINDING DOMAIN, SIGNAL TRANSDUCTION, KEYWDS 3 GUANINE-NUCLEOTIDE RELEASING FACTOR, METAL-BINDING, PHORBOL-ESTER KEYWDS 4 BINDING, PHOSPHOPROTEIN, PROTO-ONCOGENE, SH3 DOMAIN, ZINC, ZINC- KEYWDS 5 FINGER, SIGNALING PROTEIN, STRUCTURAL GENOMICS, NPPSFA, NATIONAL KEYWDS 6 PROJECT ON PROTEIN STRUCTURAL AND FUNCTIONAL ANALYSES, RIKEN KEYWDS 7 STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE, RSGI EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR M.TANAKA,T.KASAI,S.KOSHIBA,T.KIGAWA,S.YOKOYAMA,RIKEN STRUCTURAL AUTHOR 2 GENOMICS/PROTEOMICS INITIATIVE (RSGI) REVDAT 2 16-MAR-22 2ROR 1 REMARK SEQADV LINK REVDAT 1 21-APR-09 2ROR 0 JRNL AUTH T.KASAI,M.TANAKA,S.KOSHIBA,T.KIGAWA,S.YOKOYAMA JRNL TITL SOLUTION STRUCTURE OF THE VAV1 SH2 DOMAIN COMPLEXED WITH A JRNL TITL 2 TYROSINE-PHOSPHORYLATED PEPTIDE FROM SLP76 JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XWINNMR 3.6, CYANA 2.0.17 REMARK 3 AUTHORS : BRUKER BIOSPIN (XWINNMR), GUNTERT, MUMENTHALER AND REMARK 3 WUTHRICH (CYANA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2ROR COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 10-APR-08. REMARK 100 THE DEPOSITION ID IS D_1000150104. 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 : 1.08MM [U-13C; U-15N] PROTO REMARK 210 -ONCOGENE VAV; 1.08MM TYROSINE- REMARK 210 PHOSPHORYLATED PEPTIDE; 20MM [U- REMARK 210 2H] TRIS; 100MM SODIUM CHLORIDE; REMARK 210 0.02% SODIUM AZIDE; 1MM [U-2H] REMARK 210 DTT; 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D 1H-15N NOESY; 3D 1H-13C REMARK 210 NOESY; 3D F1-15N,13C-FILTERED REMARK 210 15N-SEPARATED NOESY; 3D F1-15N, REMARK 210 13C-FILTERED 13C-SEPARATED NOESY; REMARK 210 2D F2-15N,13C-FILTERED 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 : NMRPIPE 2.1, NMRVIEW 5.0.4, REMARK 210 KUJIRA 0.9837, 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 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 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 11 117.77 -171.23 REMARK 500 1 TRP A 15 44.08 -104.59 REMARK 500 1 PRO A 20 -177.55 -69.72 REMARK 500 1 GLN A 21 137.11 -36.22 REMARK 500 1 PRO A 32 4.54 -69.81 REMARK 500 1 MET A 33 142.47 -32.28 REMARK 500 1 ARG A 45 -176.83 -65.24 REMARK 500 1 VAL A 70 25.48 48.25 REMARK 500 1 LYS A 112 -36.46 -33.30 REMARK 500 1 ASP A 115 35.30 -84.65 REMARK 500 1 LEU A 118 106.38 -44.65 REMARK 500 1 PRO A 121 -162.83 -69.74 REMARK 500 1 PRO A 125 -168.62 -69.74 REMARK 500 1 THR A 129 48.15 35.05 REMARK 500 1 GLU B 14 97.10 -67.02 REMARK 500 2 GLU A 12 77.01 -114.86 REMARK 500 2 GLU A 17 33.96 37.43 REMARK 500 2 PRO A 20 -164.40 -69.80 REMARK 500 2 GLN A 21 30.45 -84.51 REMARK 500 2 ASP A 22 164.99 -47.55 REMARK 500 2 PRO A 32 5.88 -69.77 REMARK 500 2 MET A 33 133.32 -31.57 REMARK 500 2 ILE A 41 -71.10 -54.89 REMARK 500 2 ASP A 47 126.37 -36.41 REMARK 500 2 TYR A 68 138.10 -172.44 REMARK 500 2 VAL A 70 25.12 46.62 REMARK 500 2 ALA A 80 -74.39 -99.63 REMARK 500 2 GLU A 81 51.32 -113.18 REMARK 500 2 ASP A 115 35.41 -92.76 REMARK 500 2 LEU A 118 109.70 -46.19 REMARK 500 2 PRO A 121 -170.40 -69.80 REMARK 500 2 PRO A 125 -175.55 -69.80 REMARK 500 2 LYS A 127 -63.51 -101.96 REMARK 500 2 SER A 133 45.98 71.55 REMARK 500 3 LYS A 8 33.27 34.35 REMARK 500 3 ALA A 11 144.46 -170.42 REMARK 500 3 PRO A 20 -175.75 -69.72 REMARK 500 3 GLN A 21 109.36 -36.92 REMARK 500 3 PRO A 32 3.69 -69.76 REMARK 500 3 MET A 33 137.97 -38.60 REMARK 500 3 ILE A 41 -72.55 -65.79 REMARK 500 3 ARG A 45 -175.19 -61.47 REMARK 500 3 ALA A 60 74.67 -65.62 REMARK 500 3 TYR A 68 142.70 -174.11 REMARK 500 3 VAL A 70 24.98 46.67 REMARK 500 3 ALA A 80 -66.70 -124.60 REMARK 500 3 LEU A 118 108.42 -46.44 REMARK 500 3 PRO A 121 -178.93 -69.76 REMARK 500 3 LYS A 123 -70.27 -70.70 REMARK 500 3 THR A 129 36.81 38.29 REMARK 500 REMARK 500 THIS ENTRY HAS 332 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 999 REMARK 999 SEQUENCE REMARK 999 THIS PROTEIN HAS A DELETION REGION AGAINST THE DATABASE REMARK 999 REFERENCE, VAV_HUMAN. THE DEPOSITOR BELIEVE THAT THIS REMARK 999 PROTEIN IS A VARIANT, EVEN THOUGH IT HAS NOT BEEN REFERRED IN REMARK 999 ANY DATABASES. DBREF 2ROR A 8 132 UNP P15498 VAV_HUMAN 629 775 DBREF 2ROR B 1 15 UNP Q13094 LCP2_HUMAN 122 136 SEQADV 2ROR GLY A 1 UNP P15498 EXPRESSION TAG SEQADV 2ROR SER A 2 UNP P15498 EXPRESSION TAG SEQADV 2ROR SER A 3 UNP P15498 EXPRESSION TAG SEQADV 2ROR GLY A 4 UNP P15498 EXPRESSION TAG SEQADV 2ROR SER A 5 UNP P15498 EXPRESSION TAG SEQADV 2ROR SER A 6 UNP P15498 EXPRESSION TAG SEQADV 2ROR GLY A 7 UNP P15498 EXPRESSION TAG SEQADV 2ROR A UNP P15498 GLY 639 SEE REMARK 999 SEQADV 2ROR A UNP P15498 ARG 640 SEE REMARK 999 SEQADV 2ROR A UNP P15498 ASN 641 SEE REMARK 999 SEQADV 2ROR A UNP P15498 THR 642 SEE REMARK 999 SEQADV 2ROR A UNP P15498 SER 643 SEE REMARK 999 SEQADV 2ROR A UNP P15498 THR 644 SEE REMARK 999 SEQADV 2ROR A UNP P15498 ASN 645 SEE REMARK 999 SEQADV 2ROR A UNP P15498 GLU 646 SEE REMARK 999 SEQADV 2ROR A UNP P15498 ILE 647 SEE REMARK 999 SEQADV 2ROR A UNP P15498 GLY 648 SEE REMARK 999 SEQADV 2ROR A UNP P15498 TRP 649 SEE REMARK 999 SEQADV 2ROR A UNP P15498 PHE 650 SEE REMARK 999 SEQADV 2ROR A UNP P15498 PRO 651 SEE REMARK 999 SEQADV 2ROR A UNP P15498 CYS 652 SEE REMARK 999 SEQADV 2ROR A UNP P15498 ASN 653 SEE REMARK 999 SEQADV 2ROR A UNP P15498 ARG 654 SEE REMARK 999 SEQADV 2ROR A UNP P15498 VAL 655 SEE REMARK 999 SEQADV 2ROR A UNP P15498 LYS 656 SEE REMARK 999 SEQADV 2ROR A UNP P15498 PRO 657 SEE REMARK 999 SEQADV 2ROR A UNP P15498 TYR 658 SEE REMARK 999 SEQADV 2ROR A UNP P15498 VAL 659 SEE REMARK 999 SEQADV 2ROR A UNP P15498 HIS 660 SEE REMARK 999 SEQADV 2ROR SER A 133 UNP P15498 EXPRESSION TAG SEQADV 2ROR GLY A 134 UNP P15498 EXPRESSION TAG SEQADV 2ROR PRO A 135 UNP P15498 EXPRESSION TAG SEQADV 2ROR SER A 136 UNP P15498 EXPRESSION TAG SEQADV 2ROR SER A 137 UNP P15498 EXPRESSION TAG SEQADV 2ROR GLY A 138 UNP P15498 EXPRESSION TAG SEQRES 1 A 138 GLY SER SER GLY SER SER GLY LYS ALA GLU ALA GLU GLN SEQRES 2 A 138 ASN TRP TRP GLU GLY PRO PRO GLN ASP LEU SER VAL HIS SEQRES 3 A 138 LEU TRP TYR ALA GLY PRO MET GLU ARG ALA GLY ALA GLU SEQRES 4 A 138 SER ILE LEU ALA ASN ARG SER ASP GLY THR PHE LEU VAL SEQRES 5 A 138 ARG GLN ARG VAL LYS ASP ALA ALA GLU PHE ALA ILE SER SEQRES 6 A 138 ILE LYS TYR ASN VAL GLU VAL LYS HIS ILE LYS ILE MET SEQRES 7 A 138 THR ALA GLU GLY LEU TYR ARG ILE THR GLU LYS LYS ALA SEQRES 8 A 138 PHE ARG GLY LEU THR GLU LEU VAL GLU PHE TYR GLN GLN SEQRES 9 A 138 ASN SER LEU LYS ASP CYS PHE LYS SER LEU ASP THR THR SEQRES 10 A 138 LEU GLN PHE PRO PHE LYS GLU PRO GLU LYS ARG THR ILE SEQRES 11 A 138 SER ARG SER GLY PRO SER SER GLY SEQRES 1 B 15 GLY GLU ASP ASP GLY ASP PTR GLU SER PRO ASN GLU GLU SEQRES 2 B 15 GLU GLU MODRES 2ROR PTR B 7 TYR O-PHOSPHOTYROSINE HET PTR B 7 24 HETNAM PTR O-PHOSPHOTYROSINE HETSYN PTR PHOSPHONOTYROSINE FORMUL 2 PTR C9 H12 N O6 P HELIX 1 1 ASP A 22 HIS A 26 5 5 HELIX 2 2 GLU A 34 ARG A 45 1 12 HELIX 3 3 GLY A 94 GLN A 103 1 10 HELIX 4 4 SER A 106 CYS A 110 5 5 SHEET 1 A 3 VAL A 52 GLN A 54 0 SHEET 2 A 3 PHE A 62 TYR A 68 -1 O ALA A 63 N ARG A 53 SHEET 3 A 3 GLU A 71 ILE A 77 -1 O GLU A 71 N TYR A 68 LINK C ASP B 6 N PTR B 7 1555 1555 1.33 LINK C PTR B 7 N GLU B 8 1555 1555 1.33 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