HEADER RNA BINDING PROTEIN 30-MAR-06 2DIQ TITLE SOLUTION STRUCTURE OF THE TUDOR DOMAIN OF TUDOR AND KH DOMAIN TITLE 2 CONTAINING PROTEIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: TUDOR AND KH DOMAIN-CONTAINING PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: TUDOR 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: TDRKH, TDRD2; SOURCE 6 EXPRESSION_SYSTEM: CELL FREE SYNTHESIS; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: P050905-13; SOURCE 9 OTHER_DETAILS: CELL FREE PROTEIN SYNTHESIS KEYWDS TUDOR DOMAIN, TUDOR AND KH DOMAIN CONTAINING PROTEIN, STRUCTURAL KEYWDS 2 GENOMICS, NPPSFA, NATIONAL PROJECT ON PROTEIN STRUCTURAL AND KEYWDS 3 FUNCTIONAL ANALYSES, RIKEN STRUCTURAL GENOMICS/PROTEOMICS KEYWDS 4 INITIATIVE, RSGI, RNA BINDING PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR W.DANG,Y.MUTO,M.INOUE,T.KIGAWA,M.SHIROUZU,T.TERADA,S.YOKOYAMA,RIKEN AUTHOR 2 STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE (RSGI) REVDAT 3 09-MAR-22 2DIQ 1 REMARK SEQADV REVDAT 2 24-FEB-09 2DIQ 1 VERSN REVDAT 1 30-SEP-06 2DIQ 0 JRNL AUTH W.DANG,Y.MUTO,M.INOUE,T.KIGAWA,M.SHIROUZU,T.TERADA, JRNL AUTH 2 S.YOKOYAMA JRNL TITL SOLUTION STRUCTURE OF THE TUDOR DOMAIN OF TUDOR AND KH JRNL TITL 2 DOMAIN CONTAINING PROTEIN 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), GUNTERT,P. (CYANA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2DIQ COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 04-APR-06. REMARK 100 THE DEPOSITION ID IS D_1000025459. 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 : 20MM D-TRIS-HCL(PH 7.0); 100MM REMARK 210 NACL; 1MM D-DTT; 0.02% NAN3; 10% REMARK 210 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 0.9321, 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 LOWEST ENERGY, STRUCTURES REMARK 210 WITH THE LEAST RESTRAINT REMARK 210 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 SER A 5 106.88 -43.57 REMARK 500 1 GLN A 21 -29.98 -36.61 REMARK 500 1 HIS A 22 -75.02 -88.71 REMARK 500 1 ASN A 25 50.85 -115.31 REMARK 500 1 PHE A 67 97.31 -55.90 REMARK 500 1 ASP A 72 -175.77 -57.96 REMARK 500 1 CYS A 98 160.30 -49.20 REMARK 500 1 SER A 99 172.84 -49.07 REMARK 500 2 THR A 20 -70.69 -40.42 REMARK 500 2 GLN A 21 -33.75 -34.68 REMARK 500 2 HIS A 22 -74.30 -86.59 REMARK 500 2 GLU A 24 -38.12 -33.96 REMARK 500 2 ASN A 25 61.53 -116.04 REMARK 500 2 ASN A 62 177.95 -53.80 REMARK 500 2 PHE A 67 103.97 -59.03 REMARK 500 2 ASP A 72 -178.80 -52.58 REMARK 500 2 GLU A 97 147.46 -38.80 REMARK 500 2 LEU A 100 122.25 -34.69 REMARK 500 3 THR A 20 -72.36 -42.45 REMARK 500 3 GLU A 24 -35.23 -34.08 REMARK 500 3 ASN A 25 52.84 -109.11 REMARK 500 3 ASN A 62 171.50 -51.55 REMARK 500 3 PHE A 67 108.97 -56.61 REMARK 500 3 ASP A 72 177.34 -55.67 REMARK 500 3 GLU A 97 34.34 34.49 REMARK 500 3 CYS A 98 38.76 -89.29 REMARK 500 3 PRO A 107 2.43 -69.70 REMARK 500 4 SER A 2 -54.18 -130.63 REMARK 500 4 SER A 6 40.80 35.07 REMARK 500 4 LEU A 12 -70.03 -73.46 REMARK 500 4 ASP A 13 -38.83 -39.58 REMARK 500 4 GLN A 21 -33.95 -35.52 REMARK 500 4 HIS A 22 -75.06 -83.73 REMARK 500 4 GLU A 24 -35.70 -37.95 REMARK 500 4 ASN A 25 43.65 -106.67 REMARK 500 4 ARG A 51 106.80 -59.10 REMARK 500 4 ASN A 62 169.71 -49.71 REMARK 500 4 PHE A 67 99.89 -57.12 REMARK 500 4 ALA A 83 109.91 -58.08 REMARK 500 4 ALA A 101 175.31 -53.20 REMARK 500 4 PRO A 107 -179.21 -69.79 REMARK 500 5 THR A 20 -74.43 -46.80 REMARK 500 5 GLN A 21 -39.25 -35.17 REMARK 500 5 GLU A 24 -37.90 -31.58 REMARK 500 5 ASN A 25 56.08 -113.14 REMARK 500 5 ASN A 62 166.33 -47.57 REMARK 500 5 ALA A 83 100.92 -55.92 REMARK 500 5 LEU A 84 115.34 -39.05 REMARK 500 5 GLU A 97 -179.60 -60.39 REMARK 500 5 LEU A 100 89.79 -58.48 REMARK 500 REMARK 500 THIS ENTRY HAS 189 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: HSS001000790.1 RELATED DB: TARGETDB DBREF 2DIQ A 8 104 UNP Q9Y2W6 TDRKH_HUMAN 295 315 SEQADV 2DIQ GLY A 1 UNP Q9Y2W6 CLONING ARTIFACT SEQADV 2DIQ SER A 2 UNP Q9Y2W6 CLONING ARTIFACT SEQADV 2DIQ SER A 3 UNP Q9Y2W6 CLONING ARTIFACT SEQADV 2DIQ GLY A 4 UNP Q9Y2W6 CLONING ARTIFACT SEQADV 2DIQ SER A 5 UNP Q9Y2W6 CLONING ARTIFACT SEQADV 2DIQ SER A 6 UNP Q9Y2W6 CLONING ARTIFACT SEQADV 2DIQ GLY A 7 UNP Q9Y2W6 CLONING ARTIFACT SEQADV 2DIQ SER A 105 UNP Q9Y2W6 CLONING ARTIFACT SEQADV 2DIQ GLY A 106 UNP Q9Y2W6 CLONING ARTIFACT SEQADV 2DIQ PRO A 107 UNP Q9Y2W6 CLONING ARTIFACT SEQADV 2DIQ SER A 108 UNP Q9Y2W6 CLONING ARTIFACT SEQADV 2DIQ SER A 109 UNP Q9Y2W6 CLONING ARTIFACT SEQADV 2DIQ GLY A 110 UNP Q9Y2W6 CLONING ARTIFACT SEQRES 1 A 110 GLY SER SER GLY SER SER GLY ARG SER LEU GLN LEU ASP SEQRES 2 A 110 LYS LEU VAL ASN GLU MET THR GLN HIS TYR GLU ASN SER SEQRES 3 A 110 VAL PRO GLU ASP LEU THR VAL HIS VAL GLY ASP ILE VAL SEQRES 4 A 110 ALA ALA PRO LEU PRO THR ASN GLY SER TRP TYR ARG ALA SEQRES 5 A 110 ARG VAL LEU GLY THR LEU GLU ASN GLY ASN LEU ASP LEU SEQRES 6 A 110 TYR PHE VAL ASP PHE GLY ASP ASN GLY ASP CYS PRO LEU SEQRES 7 A 110 LYS ASP LEU ARG ALA LEU ARG SER ASP PHE LEU SER LEU SEQRES 8 A 110 PRO PHE GLN ALA ILE GLU CYS SER LEU ALA ARG ILE ALA SEQRES 9 A 110 SER GLY PRO SER SER GLY HELIX 1 1 LEU A 10 TYR A 23 1 14 HELIX 2 2 LEU A 78 ASP A 80 5 3 HELIX 3 3 SER A 86 LEU A 89 1 4 SHEET 1 A 5 ASN A 73 CYS A 76 0 SHEET 2 A 5 LEU A 63 PHE A 67 -1 N LEU A 65 O GLY A 74 SHEET 3 A 5 TYR A 50 VAL A 54 -1 N ARG A 53 O TYR A 66 SHEET 4 A 5 ILE A 38 ALA A 41 -1 N ALA A 41 O TYR A 50 SHEET 5 A 5 ARG A 82 ALA A 83 -1 O ARG A 82 N ALA A 40 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