HEADER IMMUNE SYSTEM 24-MAR-06 2DHK TITLE SOLUTION STRUCTURE OF THE PH DOMAIN OF TBC1 DOMAIN FAMILY MEMBER 2 TITLE 2 PROTEIN FROM HUMAN COMPND MOL_ID: 1; COMPND 2 MOLECULE: TBC1 DOMAIN FAMILY MEMBER 2; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: PH DOMAIN; COMPND 5 SYNONYM: PROSTATE ANTIGEN RECOGNIZED AND IDENTIFIED BY SEREX, PARIS- COMPND 6 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: TBC1D2, PARIS1; SOURCE 6 EXPRESSION_SYSTEM: CELL FREE SYNTHESIS; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: P051205-24; SOURCE 9 OTHER_DETAILS: CELL-FREE PROTEIN SYNTHESIS KEYWDS PH DOMAIN, PARIS-1, STRUCTURAL GENOMICS, NPPSFA, NATIONAL PROJECT ON KEYWDS 2 PROTEIN STRUCTURAL AND FUNCTIONAL ANALYSES, RIKEN STRUCTURAL KEYWDS 3 GENOMICS/PROTEOMICS INITIATIVE, RSGI, IMMUNE SYSTEM EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR H.LI,N.TOCHIO,S.KOSHIBA,T.HARADA,S.WATANABE,T.KIGAWA,S.YOKOYAMA,RIKEN AUTHOR 2 STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE (RSGI) REVDAT 3 09-MAR-22 2DHK 1 REMARK SEQADV REVDAT 2 24-FEB-09 2DHK 1 VERSN REVDAT 1 24-SEP-06 2DHK 0 JRNL AUTH H.LI,N.TOCHIO,S.KOSHIBA,T.HARADA,S.WATANABE,T.KIGAWA, JRNL AUTH 2 S.YOKOYAMA JRNL TITL SOLUTION STRUCTURE OF THE PH DOMAIN OF TBC1 DOMAIN FAMILY JRNL TITL 2 MEMBER 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 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 2DHK COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 29-MAR-06. REMARK 100 THE DEPOSITION ID IS D_1000025423. 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 : 1.31MM 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 LYS A 8 43.09 -91.73 REMARK 500 1 LYS A 9 171.88 -50.64 REMARK 500 1 ALA A 49 -39.84 -34.10 REMARK 500 1 ASP A 67 36.73 -93.26 REMARK 500 1 PRO A 78 3.04 -69.77 REMARK 500 1 SER A 109 144.19 -36.48 REMARK 500 1 PRO A 111 -174.97 -69.83 REMARK 500 1 ALA A 112 143.92 -36.05 REMARK 500 1 PRO A 113 -173.75 -69.76 REMARK 500 2 LYS A 8 46.82 -86.81 REMARK 500 2 ALA A 49 -38.80 -34.30 REMARK 500 2 ASP A 67 34.30 -88.51 REMARK 500 2 PRO A 78 3.19 -69.81 REMARK 500 2 SER A 109 130.95 -34.55 REMARK 500 2 PRO A 111 -177.10 -69.72 REMARK 500 2 SER A 114 47.45 -103.21 REMARK 500 2 PRO A 116 -178.26 -69.76 REMARK 500 2 SER A 118 107.47 -44.35 REMARK 500 3 LYS A 9 130.35 -39.77 REMARK 500 3 ILE A 23 166.39 -47.71 REMARK 500 3 ASP A 67 33.79 -90.23 REMARK 500 3 GLU A 69 -30.93 -36.38 REMARK 500 3 PRO A 78 3.25 -69.71 REMARK 500 3 ALA A 87 -71.02 -65.48 REMARK 500 3 LEU A 99 -39.12 -33.35 REMARK 500 3 PRO A 111 -177.82 -69.75 REMARK 500 3 PRO A 113 90.79 -69.71 REMARK 500 3 PRO A 116 96.47 -69.75 REMARK 500 4 LYS A 8 40.57 -98.15 REMARK 500 4 ASP A 67 35.11 -91.64 REMARK 500 4 PRO A 78 3.33 -69.82 REMARK 500 4 ALA A 112 163.44 -42.87 REMARK 500 4 PRO A 113 -172.31 -69.81 REMARK 500 4 SER A 114 44.97 35.66 REMARK 500 4 PRO A 116 95.67 -69.85 REMARK 500 5 LYS A 8 44.40 -82.58 REMARK 500 5 ASP A 67 37.58 -84.91 REMARK 500 5 PRO A 78 4.72 -69.77 REMARK 500 5 SER A 109 103.39 -35.59 REMARK 500 5 PRO A 111 -175.19 -69.74 REMARK 500 5 PRO A 113 -171.03 -69.76 REMARK 500 6 SER A 2 112.38 -39.20 REMARK 500 6 SER A 5 90.67 -59.97 REMARK 500 6 ASP A 67 31.28 -96.87 REMARK 500 6 PRO A 78 4.71 -69.73 REMARK 500 6 LEU A 99 -38.95 -33.17 REMARK 500 6 SER A 109 99.61 -37.77 REMARK 500 6 ALA A 112 143.29 -37.99 REMARK 500 6 PRO A 113 -170.19 -69.80 REMARK 500 7 SER A 5 44.51 39.10 REMARK 500 REMARK 500 THIS ENTRY HAS 143 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: HSK003002043.1 RELATED DB: TARGETDB DBREF 2DHK A 8 113 UNP Q9BYX2 TBCD2_HUMAN 46 151 SEQADV 2DHK GLY A 1 UNP Q9BYX2 CLONING ARTIFACT SEQADV 2DHK SER A 2 UNP Q9BYX2 CLONING ARTIFACT SEQADV 2DHK SER A 3 UNP Q9BYX2 CLONING ARTIFACT SEQADV 2DHK GLY A 4 UNP Q9BYX2 CLONING ARTIFACT SEQADV 2DHK SER A 5 UNP Q9BYX2 CLONING ARTIFACT SEQADV 2DHK SER A 6 UNP Q9BYX2 CLONING ARTIFACT SEQADV 2DHK GLY A 7 UNP Q9BYX2 CLONING ARTIFACT SEQADV 2DHK SER A 114 UNP Q9BYX2 CLONING ARTIFACT SEQADV 2DHK GLY A 115 UNP Q9BYX2 CLONING ARTIFACT SEQADV 2DHK PRO A 116 UNP Q9BYX2 CLONING ARTIFACT SEQADV 2DHK SER A 117 UNP Q9BYX2 CLONING ARTIFACT SEQADV 2DHK SER A 118 UNP Q9BYX2 CLONING ARTIFACT SEQADV 2DHK GLY A 119 UNP Q9BYX2 CLONING ARTIFACT SEQRES 1 A 119 GLY SER SER GLY SER SER GLY LYS LYS LEU CYS GLY TYR SEQRES 2 A 119 LEU SER LYS PHE GLY GLY LYS GLY PRO ILE ARG GLY TRP SEQRES 3 A 119 LYS SER ARG TRP PHE PHE TYR ASP GLU ARG LYS CYS GLN SEQRES 4 A 119 LEU TYR TYR SER ARG THR ALA GLN ASP ALA ASN PRO LEU SEQRES 5 A 119 ASP SER ILE ASP LEU SER SER ALA VAL PHE ASP CYS LYS SEQRES 6 A 119 ALA ASP ALA GLU GLU GLY ILE PHE GLU ILE LYS THR PRO SEQRES 7 A 119 SER ARG VAL ILE THR LEU LYS ALA ALA THR LYS GLN ALA SEQRES 8 A 119 MET LEU TYR TRP LEU GLN GLN LEU GLN MET LYS ARG TRP SEQRES 9 A 119 GLU PHE HIS ASN SER PRO PRO ALA PRO SER GLY PRO SER SEQRES 10 A 119 SER GLY HELIX 1 1 LYS A 89 SER A 109 1 21 SHEET 1 A 7 ASP A 53 ASP A 56 0 SHEET 2 A 7 GLN A 39 SER A 43 -1 N TYR A 42 O ASP A 53 SHEET 3 A 7 LYS A 27 ASP A 34 -1 N PHE A 32 O TYR A 41 SHEET 4 A 7 CYS A 11 LYS A 16 -1 N LEU A 14 O ARG A 29 SHEET 5 A 7 ILE A 82 LYS A 85 -1 O LYS A 85 N SER A 15 SHEET 6 A 7 ILE A 72 LYS A 76 -1 N ILE A 75 O ILE A 82 SHEET 7 A 7 VAL A 61 CYS A 64 -1 N VAL A 61 O LYS A 76 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