PDB Short entry for 2DNK HEADER RNA BINDING PROTEIN 26-APR-06 2DNK TITLE SOLUTION STRUCTURE OF RNA BINDING DOMAIN IN BRUNO-LIKE 4 RNA BINDING TITLE 2 PROTEIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: BRUNO-LIKE 4, RNA BINDING PROTEIN; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RNA RECOGNITION MOTIF; 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: BRUNOL4; SOURCE 6 EXPRESSION_SYSTEM: CELL FREE SYNTHESIS; SOURCE 7 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 8 EXPRESSION_SYSTEM_PLASMID: P050815-11; SOURCE 9 OTHER_DETAILS: CELL-FREE PROTEIN SYNTHESIS KEYWDS RRM DOMAIN, RBD, STRUCTURAL GENOMICS, NPPSFA, NATIONAL PROJECT ON KEYWDS 2 PROTEIN STRUCTURAL AND FUNCTIONAL ANALYSES, RIKEN STRUCTURAL KEYWDS 3 GENOMICS/PROTEOMICS INITIATIVE, RSGI, RNA BINDING PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR K.TSUDA,Y.MUTO,M.INOUE,T.KIGAWA,T.TERADA,M.SHIROUZU,S.YOKOYAMA,RIKEN AUTHOR 2 STRUCTURAL GENOMICS/PROTEOMICS INITIATIVE (RSGI) REVDAT 3 09-MAR-22 2DNK 1 REMARK SEQADV REVDAT 2 24-FEB-09 2DNK 1 VERSN REVDAT 1 26-OCT-06 2DNK 0 JRNL AUTH K.TSUDA,Y.MUTO,M.INOUE,T.KIGAWA,T.TERADA,M.SHIROUZU, JRNL AUTH 2 S.YOKOYAMA JRNL TITL SOLUTION STRUCTURE OF RNA BINDING DOMAIN IN BRUNO-LIKE 4 RNA JRNL TITL 2 BINDING 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 2DNK COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 08-MAY-06. REMARK 100 THE DEPOSITION ID IS D_1000025622. 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 : 1.81MM 13C-15N PROTEIN, 20MM D REMARK 210 -TRIS-HCL(PH7.0), 100MM NACL, REMARK 210 1MM D-DTT, 0.02% NAN3, 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 20030801, NMRVIEW 5.0.4, REMARK 210 KUJIRA 0.9742, CYANA 2.0.17 REMARK 210 METHOD USED : TORSION ANGLE REMARK 210 DYNAMICS,RESTRAINTED MOLECULAR REMARK 210 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 ARG A 145 35.83 37.21 REMARK 500 1 PRO A 147 157.59 -46.60 REMARK 500 1 HIS A 150 129.06 -171.40 REMARK 500 1 LYS A 160 41.34 -84.13 REMARK 500 1 PHE A 171 -72.21 -53.37 REMARK 500 1 PHE A 174 -74.34 -105.42 REMARK 500 1 ASN A 176 153.34 -48.49 REMARK 500 1 SER A 190 137.75 -36.59 REMARK 500 1 LEU A 211 -74.36 -113.88 REMARK 500 1 SER A 214 -73.82 -88.55 REMARK 500 1 MET A 217 137.66 -39.99 REMARK 500 1 SER A 238 134.70 -35.20 REMARK 500 1 SER A 239 89.87 -65.88 REMARK 500 2 SER A 137 42.33 35.81 REMARK 500 2 ARG A 145 155.03 -43.65 REMARK 500 2 LYS A 160 37.54 -83.97 REMARK 500 2 PHE A 171 -73.30 -56.02 REMARK 500 2 GLU A 172 -27.78 -39.18 REMARK 500 2 PHE A 174 -70.73 -106.69 REMARK 500 2 LEU A 211 -74.54 -102.50 REMARK 500 2 SER A 214 -71.01 -93.34 REMARK 500 2 MET A 217 160.05 -39.26 REMARK 500 2 LEU A 224 152.92 -38.71 REMARK 500 2 ASP A 230 46.07 -82.41 REMARK 500 2 THR A 231 32.81 36.30 REMARK 500 3 SER A 137 -62.13 -98.19 REMARK 500 3 PRO A 148 170.72 -46.34 REMARK 500 3 MET A 157 30.50 38.59 REMARK 500 3 LYS A 160 33.46 -88.16 REMARK 500 3 GLN A 161 -52.22 -123.84 REMARK 500 3 ALA A 173 -19.05 -49.21 REMARK 500 3 PHE A 174 -73.93 -112.52 REMARK 500 3 LYS A 191 33.59 -94.19 REMARK 500 3 ILE A 208 -73.27 -69.15 REMARK 500 3 LEU A 211 -69.21 -100.51 REMARK 500 3 SER A 214 -72.38 -85.94 REMARK 500 3 MET A 217 138.81 -38.74 REMARK 500 3 LEU A 224 148.80 -34.61 REMARK 500 4 PRO A 147 163.74 -45.77 REMARK 500 4 PRO A 148 171.86 -45.64 REMARK 500 4 LYS A 160 36.66 -84.98 REMARK 500 4 GLN A 161 -51.08 -123.09 REMARK 500 4 LYS A 191 32.49 -84.43 REMARK 500 4 ILE A 208 -75.00 -62.72 REMARK 500 4 LEU A 211 -72.60 -109.44 REMARK 500 4 SER A 214 -70.74 -91.45 REMARK 500 4 MET A 217 156.88 -37.40 REMARK 500 4 PHE A 228 150.19 -43.49 REMARK 500 5 LYS A 160 39.47 -83.50 REMARK 500 5 PHE A 171 -70.86 -52.22 REMARK 500 REMARK 500 THIS ENTRY HAS 254 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: HSI002003720.2 RELATED DB: TARGETDB DBREF 2DNK A 143 234 UNP Q9BQ96 Q9BQ96_HUMAN 137 234 SEQADV 2DNK GLY A 136 UNP Q9BQ96 CLONING ARTIFACT SEQADV 2DNK SER A 137 UNP Q9BQ96 CLONING ARTIFACT SEQADV 2DNK SER A 138 UNP Q9BQ96 CLONING ARTIFACT SEQADV 2DNK GLY A 139 UNP Q9BQ96 CLONING ARTIFACT SEQADV 2DNK SER A 140 UNP Q9BQ96 CLONING ARTIFACT SEQADV 2DNK SER A 141 UNP Q9BQ96 CLONING ARTIFACT SEQADV 2DNK GLY A 142 UNP Q9BQ96 CLONING ARTIFACT SEQADV 2DNK SER A 235 UNP Q9BQ96 CLONING ARTIFACT SEQADV 2DNK GLY A 236 UNP Q9BQ96 CLONING ARTIFACT SEQADV 2DNK PRO A 237 UNP Q9BQ96 CLONING ARTIFACT SEQADV 2DNK SER A 238 UNP Q9BQ96 CLONING ARTIFACT SEQADV 2DNK SER A 239 UNP Q9BQ96 CLONING ARTIFACT SEQADV 2DNK GLY A 240 UNP Q9BQ96 CLONING ARTIFACT SEQRES 1 A 105 GLY SER SER GLY SER SER GLY CYS LEU ARG GLN PRO PRO SEQRES 2 A 105 SER HIS ARG LYS LEU PHE VAL GLY MET LEU ASN LYS GLN SEQRES 3 A 105 GLN SER GLU ASP ASP VAL ARG ARG LEU PHE GLU ALA PHE SEQRES 4 A 105 GLY ASN ILE GLU GLU CYS THR ILE LEU ARG GLY PRO ASP SEQRES 5 A 105 GLY ASN SER LYS GLY CYS ALA PHE VAL LYS TYR SER SER SEQRES 6 A 105 HIS ALA GLU ALA GLN ALA ALA ILE ASN ALA LEU HIS GLY SEQRES 7 A 105 SER GLN THR MET PRO GLY ALA SER SER SER LEU VAL VAL SEQRES 8 A 105 LYS PHE ALA ASP THR ASP LYS GLU SER GLY PRO SER SER SEQRES 9 A 105 GLY HELIX 1 1 SER A 163 ALA A 173 1 11 HELIX 2 2 SER A 200 HIS A 212 1 13 SHEET 1 A 4 ILE A 177 ARG A 184 0 SHEET 2 A 4 SER A 190 TYR A 198 -1 O PHE A 195 N THR A 181 SHEET 3 A 4 LYS A 152 GLY A 156 -1 N VAL A 155 O ALA A 194 SHEET 4 A 4 VAL A 225 PHE A 228 -1 O LYS A 227 N PHE A 154 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