HEADER SIGNALING PROTEIN 14-FEB-07 2ED1 TITLE SOLUTION STRUCTURE OF THE SH3 DOMAIN OF 130 KDA PHOSPHATIDYLINOSITOL TITLE 2 4,5-BIPHOSPHATE-DEPENDENT ARF1 GTPASE-ACTIVATING PROTEIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: 130 KDA PHOSPHATIDYLINOSITOL 4,5-BIPHOSPHATE-DEPENDENT ARF1 COMPND 3 GTPASE-ACTIVATING PROTEIN; COMPND 4 CHAIN: A; COMPND 5 FRAGMENT: SH3 DOMAIN; COMPND 6 SYNONYM: PIP2-DEPENDENT ARF1 GAP, ADP-RIBOSYLATION FACTOR-DIRECTED COMPND 7 GTPASE-ACTIVATING PROTEIN 1, ARF GTPASE-ACTIVATING PROTEIN 1, COMPND 8 DEVELOPMENT AND DIFFERENTIATION-ENHANCING FACTOR 1; COMPND 9 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: DDEF1; SOURCE 6 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 7 EXPRESSION_SYSTEM_PLASMID: P050627-26; SOURCE 8 OTHER_DETAILS: CELL-FREE PROTEIN SYNTHESIS KEYWDS GTPASE ACTIVATION, MEMBRANE, METAL-BINDING, SH3 DOMAIN, ZINC-FINGER, KEYWDS 2 STRUCTURAL GENOMICS, NPPSFA, NATIONAL PROJECT ON PROTEIN STRUCTURAL KEYWDS 3 AND FUNCTIONAL ANALYSES, RIKEN STRUCTURAL GENOMICS/PROTEOMICS KEYWDS 4 INITIATIVE, RSGI, SIGNALING PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR H.ABE,N.TOCHIO,K.MIYAMOTO,K.SAITO,T.KIGAWA,S.YOKOYAMA,RIKEN AUTHOR 2 STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE (RSGI) REVDAT 3 09-MAR-22 2ED1 1 REMARK SEQADV REVDAT 2 24-FEB-09 2ED1 1 VERSN REVDAT 1 26-FEB-08 2ED1 0 JRNL AUTH H.ABE,N.TOCHIO,K.MIYAMOTO,K.SAITO,T.KIGAWA,S.YOKOYAMA JRNL TITL SOLUTION STRUCTURE OF THE SH3 DOMAIN OF 130 KDA JRNL TITL 2 PHOSPHATIDYLINOSITOL 4,5-BIPHOSPHATE-DEPENDENT ARF1 JRNL TITL 3 GTPASE-ACTIVATING PROTEIN JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XWINNMR 3.5, CYANA 2.0.17 REMARK 3 AUTHORS : BRUKER (XWINNMR), GUNTERT, P. (CYANA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2ED1 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 22-FEB-07. REMARK 100 THE DEPOSITION ID IS D_1000026514. 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 : 1.15MM PROTEIN; 20MM D-TRIS-HCL; REMARK 210 100MM NACL; 1MM D-DTT; 0.02% REMARK 210 NAN3; 10% D2O, 90% H2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY; 3D_13C REMARK 210 -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 : NMRPIPE 20031121, NMNMRVIEW REMARK 210 5.0.4, KUJIRA 0.9747, CYANA REMARK 210 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 : STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT VIOLATIONS, TARGET REMARK 210 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: 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 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 THR A 15 94.66 -69.40 REMARK 500 2 SER A 3 41.89 -82.80 REMARK 500 2 THR A 15 94.25 -61.38 REMARK 500 2 GLU A 40 115.60 -39.73 REMARK 500 2 GLU A 51 134.04 -35.21 REMARK 500 2 SER A 75 134.08 -38.19 REMARK 500 3 SER A 3 105.87 -170.66 REMARK 500 3 GLU A 51 139.19 -38.97 REMARK 500 3 SER A 71 173.25 -47.22 REMARK 500 4 ASN A 8 172.46 -52.49 REMARK 500 4 GLU A 40 91.87 -67.64 REMARK 500 4 GLU A 51 133.34 -35.58 REMARK 500 4 SER A 69 36.33 -91.03 REMARK 500 4 PRO A 73 95.49 -69.87 REMARK 500 5 SER A 3 110.39 -169.72 REMARK 500 5 SER A 71 37.13 34.37 REMARK 500 5 SER A 75 156.43 -45.41 REMARK 500 6 GLU A 51 137.78 -34.51 REMARK 500 6 PRO A 73 96.27 -69.74 REMARK 500 7 SER A 3 41.83 39.16 REMARK 500 7 GLU A 40 109.76 -50.74 REMARK 500 7 GLU A 51 132.66 -34.50 REMARK 500 8 GLU A 40 108.53 -50.94 REMARK 500 8 SER A 75 124.24 -37.17 REMARK 500 9 SER A 3 98.93 -60.63 REMARK 500 9 SER A 5 100.09 -55.92 REMARK 500 9 GLN A 20 78.92 -102.18 REMARK 500 9 ALA A 21 137.41 -37.25 REMARK 500 9 LEU A 68 96.75 -68.59 REMARK 500 9 PRO A 73 91.34 -69.71 REMARK 500 9 SER A 74 93.84 -60.53 REMARK 500 10 SER A 6 95.64 -60.57 REMARK 500 10 ALA A 21 127.45 -39.82 REMARK 500 10 GLU A 51 129.53 -34.30 REMARK 500 11 SER A 2 107.43 -168.45 REMARK 500 11 SER A 5 106.02 -162.65 REMARK 500 11 THR A 15 97.00 -59.00 REMARK 500 12 GLU A 41 -71.73 -68.67 REMARK 500 12 GLU A 51 141.95 -34.10 REMARK 500 12 GLU A 55 -38.97 -38.60 REMARK 500 12 SER A 74 100.75 -40.06 REMARK 500 13 GLU A 51 127.54 -35.05 REMARK 500 14 SER A 2 118.79 -165.33 REMARK 500 14 THR A 15 98.66 -65.55 REMARK 500 15 GLU A 51 120.62 -35.09 REMARK 500 15 PRO A 73 85.96 -69.90 REMARK 500 16 SER A 5 173.29 -59.21 REMARK 500 16 LYS A 9 102.34 -48.68 REMARK 500 16 GLU A 40 128.45 -37.21 REMARK 500 16 GLU A 51 136.78 -36.26 REMARK 500 REMARK 500 THIS ENTRY HAS 57 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: HSK002001223.2 RELATED DB: TARGETDB DBREF 2ED1 A 8 70 UNP Q9ULH1 DDEF1_HUMAN 1067 1129 SEQADV 2ED1 GLY A 1 UNP Q9ULH1 EXPRESSION TAG SEQADV 2ED1 SER A 2 UNP Q9ULH1 EXPRESSION TAG SEQADV 2ED1 SER A 3 UNP Q9ULH1 EXPRESSION TAG SEQADV 2ED1 GLY A 4 UNP Q9ULH1 EXPRESSION TAG SEQADV 2ED1 SER A 5 UNP Q9ULH1 EXPRESSION TAG SEQADV 2ED1 SER A 6 UNP Q9ULH1 EXPRESSION TAG SEQADV 2ED1 GLY A 7 UNP Q9ULH1 EXPRESSION TAG SEQADV 2ED1 SER A 71 UNP Q9ULH1 EXPRESSION TAG SEQADV 2ED1 GLY A 72 UNP Q9ULH1 EXPRESSION TAG SEQADV 2ED1 PRO A 73 UNP Q9ULH1 EXPRESSION TAG SEQADV 2ED1 SER A 74 UNP Q9ULH1 EXPRESSION TAG SEQADV 2ED1 SER A 75 UNP Q9ULH1 EXPRESSION TAG SEQADV 2ED1 GLY A 76 UNP Q9ULH1 EXPRESSION TAG SEQRES 1 A 76 GLY SER SER GLY SER SER GLY ASN LYS VAL ARG ARG VAL SEQRES 2 A 76 LYS THR ILE TYR ASP CYS GLN ALA ASP ASN ASP ASP GLU SEQRES 3 A 76 LEU THR PHE ILE GLU GLY GLU VAL ILE ILE VAL THR GLY SEQRES 4 A 76 GLU GLU ASP GLN GLU TRP TRP ILE GLY HIS ILE GLU GLY SEQRES 5 A 76 GLN PRO GLU ARG LYS GLY VAL PHE PRO VAL SER PHE VAL SEQRES 6 A 76 HIS ILE LEU SER ASP SER GLY PRO SER SER GLY SHEET 1 A 5 LYS A 57 PRO A 61 0 SHEET 2 A 5 TRP A 45 ILE A 50 -1 N TRP A 46 O PHE A 60 SHEET 3 A 5 VAL A 34 VAL A 37 -1 N ILE A 36 O HIS A 49 SHEET 4 A 5 ARG A 11 THR A 15 -1 N ARG A 11 O VAL A 37 SHEET 5 A 5 VAL A 65 ILE A 67 -1 O HIS A 66 N LYS A 14 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 MODEL 1