PDB Short entry for 2COD HEADER SIGNALING PROTEIN 17-MAY-05 2COD TITLE SOLUTION STRUCTURE OF THE N-TERMINAL PH DOMAIN OF ARAP2 PROTEIN FROM TITLE 2 HUMAN COMPND MOL_ID: 1; COMPND 2 MOLECULE: CENTAURIN-DELTA 1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: PH DOMAIN; COMPND 5 SYNONYM: CNT-D1, ARF-GAP, RHO-GAP, ANKYRIN REPEAT AND PLECKSTRIN COMPND 6 HOMOLOGY DOMAIN-CONTAINING PROTEIN 2, PARX PROTEIN, ARAP2; 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: ARAP2; SOURCE 6 EXPRESSION_SYSTEM: CELL-FREE PROTEIN SYNTHESIS; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: P050125-06 KEYWDS ARF GAP AND RHO GAP WITH ANKYRIN REPEAT AND PH DOMAINS (ARAP) 2, PH KEYWDS 2 DOMAIN, STRUCTURAL GENOMICS, NPPSFA, NATIONAL PROJECT ON PROTEIN KEYWDS 3 STRUCTURAL AND FUNCTIONAL ANALYSES, RIKEN STRUCTURAL KEYWDS 4 GENOMICS/PROTEOMICS INITIATIVE, RSGI, SIGNALING PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR H.LI,T.TOMIZAWA,S.KOSHIBA,M.INOUE,T.KIGAWA,S.YOKOYAMA,RIKEN AUTHOR 2 STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE (RSGI) REVDAT 4 09-MAR-22 2COD 1 REMARK SEQADV REVDAT 3 18-AUG-09 2COD 1 JRNL TITLE REVDAT 2 24-FEB-09 2COD 1 VERSN REVDAT 1 17-NOV-05 2COD 0 JRNL AUTH H.LI,T.TOMIZAWA,S.KOSHIBA,M.INOUE,T.KIGAWA,S.YOKOYAMA JRNL TITL SOLUTION STRUCTURE OF THE N-TERMINAL PH DOMAIN OF ARAP2 JRNL TITL 2 PROTEIN FROM HUMAN JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XWINNMR 2.6, CYANA 2.0.17 REMARK 3 AUTHORS : BRUKER (XWINNMR), GUENTERT, P. (CYANA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2COD 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 DEPOSITION ID IS D_1000024445. 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 : 120MM REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.62MM PH DOMAIN U-13C, 15N; REMARK 210 20MM D-TRIS-HCL(PH7.0); 100MM REMARK 210 NACL; 1MM D-DTT; 0.02% NAN3; 90% REMARK 210 H2O, 10% D2O 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, 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 WITH REMARK 210 THE LEAST RESTRAINT 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 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 GLN A 20 60.13 -111.14 REMARK 500 1 LYS A 22 33.83 38.95 REMARK 500 1 ILE A 57 103.37 -50.18 REMARK 500 1 GLN A 74 -75.36 -83.88 REMARK 500 1 PRO A 112 93.54 -69.75 REMARK 500 2 TRP A 13 107.46 -56.52 REMARK 500 2 ILE A 57 103.98 -57.65 REMARK 500 2 ARG A 75 120.57 -170.64 REMARK 500 2 THR A 76 149.76 -39.16 REMARK 500 2 ILE A 91 -71.82 -48.36 REMARK 500 3 LYS A 10 139.99 -170.35 REMARK 500 3 LEU A 17 73.59 -108.33 REMARK 500 3 PRO A 19 -177.79 -69.72 REMARK 500 3 ARG A 23 45.65 36.22 REMARK 500 3 ASN A 42 91.48 -63.05 REMARK 500 3 LYS A 44 -61.20 -103.44 REMARK 500 3 ILE A 57 107.41 -54.10 REMARK 500 3 ASP A 65 -177.20 -58.19 REMARK 500 3 GLN A 74 -52.40 -133.14 REMARK 500 4 SER A 3 150.88 -48.17 REMARK 500 4 LEU A 17 93.92 -65.00 REMARK 500 4 MET A 24 -57.22 -124.27 REMARK 500 4 LYS A 44 84.74 -66.21 REMARK 500 4 GLU A 45 94.53 -68.86 REMARK 500 4 TYR A 47 40.98 -89.29 REMARK 500 4 THR A 73 -38.42 -39.66 REMARK 500 4 GLN A 74 -62.75 -134.96 REMARK 500 5 LEU A 17 78.27 -100.34 REMARK 500 5 ASN A 42 106.06 -54.75 REMARK 500 5 ASN A 66 37.06 35.88 REMARK 500 5 THR A 104 41.70 32.16 REMARK 500 6 LYS A 10 147.34 -171.54 REMARK 500 6 LEU A 17 72.50 -104.37 REMARK 500 6 MET A 24 127.15 -35.33 REMARK 500 6 ASN A 42 -39.82 -34.80 REMARK 500 6 GLU A 43 -65.54 -90.96 REMARK 500 6 ILE A 57 98.64 -55.55 REMARK 500 6 ARG A 75 121.48 -174.94 REMARK 500 6 THR A 76 141.21 -34.91 REMARK 500 6 SER A 107 96.49 -53.81 REMARK 500 7 PRO A 19 -164.22 -69.76 REMARK 500 7 TYR A 47 134.84 -39.67 REMARK 500 7 ASP A 65 -175.29 -52.86 REMARK 500 7 ASP A 89 -72.03 -64.99 REMARK 500 7 GLN A 106 41.22 -85.51 REMARK 500 8 LEU A 17 75.16 -61.07 REMARK 500 8 PRO A 19 -169.51 -69.81 REMARK 500 8 MET A 24 86.14 -51.80 REMARK 500 8 PHE A 25 -73.40 -35.92 REMARK 500 8 GLN A 26 111.58 -164.90 REMARK 500 REMARK 500 THIS ENTRY HAS 166 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 650 REMARK 650 HELIX REMARK 650 DETERMINATION METHOD: AUTHOR DETERMINED REMARK 700 REMARK 700 SHEET REMARK 700 DETERMINATION METHOD: AUTHOR DETERMINED REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: HSO002002027.1 RELATED DB: TARGETDB DBREF 2COD A 8 109 UNP Q8WZ64 CEND1_HUMAN 483 584 SEQADV 2COD GLY A 1 UNP Q8WZ64 EXPRESSION TAG SEQADV 2COD SER A 2 UNP Q8WZ64 EXPRESSION TAG SEQADV 2COD SER A 3 UNP Q8WZ64 EXPRESSION TAG SEQADV 2COD GLY A 4 UNP Q8WZ64 EXPRESSION TAG SEQADV 2COD SER A 5 UNP Q8WZ64 EXPRESSION TAG SEQADV 2COD SER A 6 UNP Q8WZ64 EXPRESSION TAG SEQADV 2COD GLY A 7 UNP Q8WZ64 EXPRESSION TAG SEQADV 2COD SER A 110 UNP Q8WZ64 EXPRESSION TAG SEQADV 2COD GLY A 111 UNP Q8WZ64 EXPRESSION TAG SEQADV 2COD PRO A 112 UNP Q8WZ64 EXPRESSION TAG SEQADV 2COD SER A 113 UNP Q8WZ64 EXPRESSION TAG SEQADV 2COD SER A 114 UNP Q8WZ64 EXPRESSION TAG SEQADV 2COD GLY A 115 UNP Q8WZ64 EXPRESSION TAG SEQRES 1 A 115 GLY SER SER GLY SER SER GLY LYS VAL LYS SER GLY TRP SEQRES 2 A 115 LEU ASP LYS LEU SER PRO GLN GLY LYS ARG MET PHE GLN SEQRES 3 A 115 LYS ARG TRP VAL LYS PHE ASP GLY LEU SER ILE SER TYR SEQRES 4 A 115 TYR ASN ASN GLU LYS GLU MET TYR SER LYS GLY ILE ILE SEQRES 5 A 115 PRO LEU SER ALA ILE SER THR VAL ARG VAL GLN GLY ASP SEQRES 6 A 115 ASN LYS PHE GLU VAL VAL THR THR GLN ARG THR PHE VAL SEQRES 7 A 115 PHE ARG VAL GLU LYS GLU GLU GLU ARG ASN ASP TRP ILE SEQRES 8 A 115 SER ILE LEU LEU ASN ALA LEU LYS SER GLN SER LEU THR SEQRES 9 A 115 SER GLN SER GLN ALA SER GLY PRO SER SER GLY HELIX 1 1 GLU A 84 GLN A 101 1 18 SHEET 1 A 7 ILE A 51 PRO A 53 0 SHEET 2 A 7 SER A 36 TYR A 40 -1 SHEET 3 A 7 GLN A 26 PHE A 32 -1 SHEET 4 A 7 LYS A 10 LYS A 16 -1 SHEET 5 A 7 THR A 76 ARG A 80 -1 SHEET 6 A 7 LYS A 67 VAL A 71 -1 SHEET 7 A 7 THR A 59 VAL A 62 -1 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