PDB Short entry for 2DN6 HEADER SIGNALING PROTEIN 25-APR-06 2DN6 TITLE SOLUTION STRUCTURE OF THE PH DOMAIN OF KIAA0640 PROTEIN FROM HUMAN COMPND MOL_ID: 1; COMPND 2 MOLECULE: KIAA0640 PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: PH DOMAIN; COMPND 5 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: KIAA0640; SOURCE 6 EXPRESSION_SYSTEM: CELL FREE SYNTHESIS; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: P050919-04; SOURCE 9 OTHER_DETAILS: CELL-FREE PROTEIN SYNTHESIS KEYWDS PH DOMAIN, KIAA0640 PROTEIN, STRUCTURAL GENOMICS, NPPSFA, NATIONAL KEYWDS 2 PROJECT ON PROTEIN STRUCTURAL AND FUNCTIONAL ANALYSES, RIKEN KEYWDS 3 STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE, RSGI, SIGNALING PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR H.LI,N.TOCHIO,S.KOSHIBA,M.INOUE,T.KIGAWA,S.YOKOYAMA,RIKEN STRUCTURAL AUTHOR 2 GENOMICS/PROTEOMICS INITIATIVE (RSGI) REVDAT 3 09-MAR-22 2DN6 1 REMARK SEQADV REVDAT 2 24-FEB-09 2DN6 1 VERSN REVDAT 1 25-OCT-06 2DN6 0 JRNL AUTH H.LI,N.TOCHIO,S.KOSHIBA,M.INOUE,T.KIGAWA,S.YOKOYAMA JRNL TITL SOLUTION STRUCTURE OF THE PH DOMAIN OF KIAA0640 PROTEIN FROM JRNL TITL 2 HUMAN 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 2DN6 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 27-APR-06. REMARK 100 THE DEPOSITION ID IS D_1000025612. 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 : 1.17MM PH DOMAIN U-15N,13C; 20MM REMARK 210 D-TRIS-HCL(PH 7.0); 100MM NACL; REMARK 210 1MM D-DTT; 0.02% NAN3; 90% H2O, REMARK 210 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY; 3D_13C REMARK 210 -SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 900 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE 20030801, NMRVIEW 5.0.4, REMARK 210 KUJIRA 0.932, 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 GLU A 42 33.23 -86.27 REMARK 500 1 LEU A 52 101.24 -55.95 REMARK 500 1 PRO A 63 -169.49 -69.77 REMARK 500 1 ASP A 66 37.12 35.53 REMARK 500 1 GLU A 93 -32.88 -37.92 REMARK 500 2 VAL A 8 112.64 -36.17 REMARK 500 2 VAL A 40 -19.14 -48.27 REMARK 500 2 LEU A 52 105.15 -57.06 REMARK 500 2 GLU A 55 -35.08 -38.10 REMARK 500 2 PRO A 63 -163.80 -69.75 REMARK 500 2 PHE A 77 -70.41 -32.79 REMARK 500 2 SER A 113 144.41 -34.66 REMARK 500 2 SER A 114 130.86 -37.94 REMARK 500 3 SER A 3 91.39 -56.90 REMARK 500 3 VAL A 8 128.60 -33.20 REMARK 500 3 ILE A 35 -179.63 -179.69 REMARK 500 3 GLU A 42 32.16 -84.19 REMARK 500 3 LEU A 52 109.94 -51.17 REMARK 500 3 GLU A 55 -37.24 -33.81 REMARK 500 3 PRO A 63 -169.60 -69.78 REMARK 500 3 ASP A 66 42.57 35.80 REMARK 500 3 CYS A 70 50.51 34.96 REMARK 500 3 PHE A 77 -72.11 -32.07 REMARK 500 3 GLN A 92 -72.22 -62.09 REMARK 500 3 GLU A 93 -30.24 -37.37 REMARK 500 3 SER A 109 46.97 -81.57 REMARK 500 4 VAL A 8 127.73 -33.65 REMARK 500 4 LYS A 22 105.89 -34.17 REMARK 500 4 GLU A 26 96.18 -69.62 REMARK 500 4 GLU A 42 30.94 -84.69 REMARK 500 4 PRO A 63 -164.04 -69.77 REMARK 500 4 LYS A 69 -38.38 -132.65 REMARK 500 4 PHE A 77 -71.81 -30.66 REMARK 500 4 SER A 109 110.94 -34.81 REMARK 500 4 PRO A 112 -179.48 -69.80 REMARK 500 5 SER A 2 42.23 36.88 REMARK 500 5 VAL A 8 126.91 -33.78 REMARK 500 5 ASN A 23 109.97 -34.18 REMARK 500 5 ILE A 35 179.27 179.99 REMARK 500 5 LEU A 44 38.00 74.09 REMARK 500 5 LEU A 52 105.75 -56.41 REMARK 500 5 GLU A 55 -38.12 -34.59 REMARK 500 5 PRO A 63 -165.36 -69.84 REMARK 500 5 ASP A 66 34.14 39.97 REMARK 500 5 LYS A 69 -41.71 -130.79 REMARK 500 5 PHE A 72 132.14 -171.25 REMARK 500 5 PHE A 77 -75.03 -30.10 REMARK 500 6 ARG A 20 178.09 -54.78 REMARK 500 6 ARG A 21 162.81 -44.39 REMARK 500 6 LYS A 22 119.39 -34.49 REMARK 500 REMARK 500 THIS ENTRY HAS 195 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 650 REMARK 650 HELIX REMARK 650 DETERMINATION METHOD: AUTHOR DETERMINED REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: HSK002100623.1 RELATED DB: TARGETDB DBREF 2DN6 A 8 109 UNP Q9UH65 SWP70_HUMAN 211 312 SEQADV 2DN6 GLY A 1 UNP Q9UH65 CLONING ARTIFACT SEQADV 2DN6 SER A 2 UNP Q9UH65 CLONING ARTIFACT SEQADV 2DN6 SER A 3 UNP Q9UH65 CLONING ARTIFACT SEQADV 2DN6 GLY A 4 UNP Q9UH65 CLONING ARTIFACT SEQADV 2DN6 SER A 5 UNP Q9UH65 CLONING ARTIFACT SEQADV 2DN6 SER A 6 UNP Q9UH65 CLONING ARTIFACT SEQADV 2DN6 GLY A 7 UNP Q9UH65 CLONING ARTIFACT SEQADV 2DN6 SER A 110 UNP Q9UH65 CLONING ARTIFACT SEQADV 2DN6 GLY A 111 UNP Q9UH65 CLONING ARTIFACT SEQADV 2DN6 PRO A 112 UNP Q9UH65 CLONING ARTIFACT SEQADV 2DN6 SER A 113 UNP Q9UH65 CLONING ARTIFACT SEQADV 2DN6 SER A 114 UNP Q9UH65 CLONING ARTIFACT SEQADV 2DN6 GLY A 115 UNP Q9UH65 CLONING ARTIFACT SEQRES 1 A 115 GLY SER SER GLY SER SER GLY VAL LEU LYS GLN GLY TYR SEQRES 2 A 115 MET MET LYS LYS GLY HIS ARG ARG LYS ASN TRP THR GLU SEQRES 3 A 115 ARG TRP PHE VAL LEU LYS PRO ASN ILE ILE SER TYR TYR SEQRES 4 A 115 VAL SER GLU ASP LEU LYS ASP LYS LYS GLY ASP ILE LEU SEQRES 5 A 115 LEU ASP GLU ASN CYS CYS VAL GLU SER LEU PRO ASP LYS SEQRES 6 A 115 ASP GLY LYS LYS CYS LEU PHE LEU VAL LYS CYS PHE ASP SEQRES 7 A 115 LYS THR PHE GLU ILE SER ALA SER ASP LYS LYS LYS LYS SEQRES 8 A 115 GLN GLU TRP ILE GLN ALA ILE HIS SER THR ILE HIS LEU SEQRES 9 A 115 LEU LYS LEU GLY SER SER GLY PRO SER SER GLY HELIX 1 1 LYS A 88 LEU A 107 1 20 SHEET 1 A 7 LYS A 47 ILE A 51 0 SHEET 2 A 7 ILE A 36 TYR A 39 -1 N ILE A 36 O ILE A 51 SHEET 3 A 7 TRP A 24 LEU A 31 -1 N VAL A 30 O SER A 37 SHEET 4 A 7 LYS A 10 LYS A 17 -1 N MET A 14 O ARG A 27 SHEET 5 A 7 THR A 80 SER A 84 -1 O SER A 84 N MET A 15 SHEET 6 A 7 LEU A 71 LYS A 75 -1 N VAL A 74 O PHE A 81 SHEET 7 A 7 CYS A 58 LEU A 62 -1 N GLU A 60 O LEU A 73 SSBOND 1 CYS A 57 CYS A 76 1555 1555 2.09 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