HEADER TRANSCRIPTION/DNA 22-MAR-05 1X0F TITLE COMPLEX STRUCTURE OF THE C-TERMINAL RNA-BINDING DOMAIN OF TITLE 2 HNRNP D(AUF1) WITH TELOMERIC DNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: HETEROGENEOUS NUCLEAR RIBONUCLEOPROTEIN D0; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: C-TERMINAL RNA-BINDING DOMAIN; COMPND 5 SYNONYM: HNRNP D0, AU-RICH ELEMENT RNA-BINDING PROTEIN 1; COMPND 6 ENGINEERED: YES; COMPND 7 MOL_ID: 2; COMPND 8 MOLECULE: 5'-D(P*TP*AP*GP*G)-3'; COMPND 9 CHAIN: B; COMPND 10 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HOMO SAPIENS; SOURCE 3 ORGANISM_COMMON: HUMAN; SOURCE 4 ORGANISM_TAXID: 9606; SOURCE 5 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 6 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 7 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 8 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 9 EXPRESSION_SYSTEM_PLASMID: PET3A; SOURCE 10 MOL_ID: 2; SOURCE 11 SYNTHETIC: YES KEYWDS RNA-BINDING DOMAIN, DNA-BINDING DOMAIN, RRM, HNRNP D, AUF1, KEYWDS 2 TELOMERE, COMPLEX, STRUCTURAL GENOMICS, TRANSCRIPTION/DNA KEYWDS 3 COMPLEX EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR Y.ENOKIZONO,Y.KONISHI,K.NAGATA,K.OUHASHI,S.UESUGI, AUTHOR 2 F.ISHIKAWA,M.KATAHIRA REVDAT 3 24-FEB-09 1X0F 1 VERSN REVDAT 2 17-MAY-05 1X0F 2 JRNL REVDAT 1 05-APR-05 1X0F 0 JRNL AUTH Y.ENOKIZONO,Y.KONISHI,K.NAGATA,K.OUHASHI,S.UESUGI, JRNL AUTH 2 F.ISHIKAWA,M.KATAHIRA JRNL TITL STRUCTURE OF HNRNP D COMPLEXED WITH JRNL TITL 2 SINGLE-STRANDED TELOMERE DNA AND UNFOLDING OF THE JRNL TITL 3 QUADRUPLEX BY HETEROGENEOUS NUCLEAR JRNL TITL 4 RIBONUCLEOPROTEIN D. JRNL REF J.BIOL.CHEM. V. 280 18862 2005 JRNL REFN ISSN 0021-9258 JRNL PMID 15734733 JRNL DOI 10.1074/JBC.M411822200 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH Y.ENOKIZONO,Y.KONISHI,K.NAGATA,K.OUHASHI,S.UESUGI, REMARK 1 AUTH 2 F.ISHIKAWA,M.KATAHIRA REMARK 1 TITL STRUCTURE OF HNRNP D COMPLEXED WITH REMARK 1 TITL 2 SINGLE-STRANDED TELOMERE DNA AND UNFOLDING OF THE REMARK 1 TITL 3 QUADRUPLEX BY HNRNP D REMARK 1 REF J.BIOL.CHEM. V. 280 2005 REMARK 1 REFN ESSN 1083-351X REMARK 1 PMID 15734733 REMARK 1 DOI 10.1074/JBC.M411822200 REMARK 1 REFERENCE 2 REMARK 1 AUTH M.KATAHIRA,Y.MIYANOIRI,Y.ENOKIZONO,G.MATSUDA, REMARK 1 AUTH 2 T.NAGATA,F.ISHIKAWA,S.UESUGI REMARK 1 TITL STRUCTURE OF THE C-TERMINAL RNA-BINDING DOMAIN OF REMARK 1 TITL 2 HNRNP D0 (AUF1), ITS INTERACTIONS WITH RNA AND REMARK 1 TITL 3 DNA, AND CHANGE IN BACKBONE DYNAMICS UPON COMPLEX REMARK 1 TITL 4 FORMATION WITH DNA REMARK 1 REF J.MOL.BIOL. V. 311 973 2001 REMARK 1 REFN ISSN 0022-2836 REMARK 1 PMID 11531333 REMARK 1 DOI 10.1006/JMBI.2001.4862 REMARK 1 REFERENCE 3 REMARK 1 AUTH T.NAGATA,Y.KURIHARA,G.MATSUDA,J.SAEKI,T.KOHNO, REMARK 1 AUTH 2 Y.YANAGIDA,F.ISHIKAWA,S.UESUGI,M.KATAHIRA REMARK 1 TITL STRUCTURE AND INTERACTIONS WITH RNA OF THE REMARK 1 TITL 2 N-TERMINAL UUAG-SPECIFIC RNA-BINDING DOMAIN OF REMARK 1 TITL 3 HNRNP D0 REMARK 1 REF J.MOL.BIOL. V. 287 221 1999 REMARK 1 REFN ISSN 0022-2836 REMARK 1 PMID 10080887 REMARK 1 DOI 10.1006/JMBI.1999.2616 REMARK 1 REFERENCE 4 REMARK 1 AUTH F.ISHIKAWA,M.J.MATUNIS,G.DREYFUSS,T.R.CECH REMARK 1 TITL NUCLEAR PROTEINS THAT BIND THE PRE-MRNA 3' SPLICE REMARK 1 TITL 2 SITE SEQUENCE R(UUAG/G) AND THE HUMAN TELOMERIC REMARK 1 TITL 3 DNA SEQUENCE D(TTAGGG)N REMARK 1 REF MOL.CELL.BIOL. V. 13 4301 1993 REMARK 1 REFN ISSN 0270-7306 REMARK 1 PMID 8321232 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.851 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1X0F COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 25-MAR-05. REMARK 100 THE RCSB ID CODE IS RCSB024222. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 288 REMARK 210 PH : 6.0 REMARK 210 IONIC STRENGTH : 100MM NACL REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 2MM U-13C, 15N HNRNP D BD2, REMARK 210 2.4MM DNA, 20MM SODIUM REMARK 210 PHOSPHATE, 10MM DEUTERATED REMARK 210 DTT, 1MM SODIUM AZIDE; 2MM U- REMARK 210 15N HNRNP D BD2, 2.4MM DNA, REMARK 210 20MM SODIUM PHOSPHATE, 10MM REMARK 210 DEUTERATED DTT, 1MM SODIUM REMARK 210 AZIDE; 2MM HNRNP D BD2, 2.4MM REMARK 210 DNA, 20MM SODIUM PHOSPHATE, REMARK 210 10MM DEUTERATED DTT, 1MM REMARK 210 SODIUM AZIDE; 2MM U-13C, 15N REMARK 210 HNRNP D BD2, 2.4MM DNA, 20MM REMARK 210 SODIUM PHOSPHATE, 10MM REMARK 210 DEUTERATED DTT, 1MM SODIUM REMARK 210 AZIDE; 2MM U-15N HNRNP D BD2, REMARK 210 2.4MM DNA, 20MM SODIUM REMARK 210 PHOSPHATE, 10MM DEUTERATED REMARK 210 DTT, 1MM SODIUM AZIDE REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY, 3D_ REMARK 210 15N-SEPARATED_TOCSY, 4D_13C- REMARK 210 SEPARATED_NOESY, 3D_HNHA, 3D_ REMARK 210 HNCA, HCCH-TOCSY, HCCH-COSY, REMARK 210 1H, 15N-HSQC, 2D_ROESY, 2D_ REMARK 210 NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : X-PLOR 3.851, NMRPIPE, XWINNMR REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 228 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: THIS STRUCTURE WAS DETERMINED USING 2D HOMONUCLEAR AND REMARK 210 3D HETERONUCLEAR TECHNIQUES. 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 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 190 -177.41 -45.40 REMARK 500 1 ASP A 192 77.65 160.55 REMARK 500 1 GLU A 195 -17.81 -48.10 REMARK 500 1 LYS A 221 -179.22 -51.92 REMARK 500 1 VAL A 256 121.76 -32.87 REMARK 500 2 SER A 190 179.65 -45.31 REMARK 500 2 PRO A 191 4.98 -68.33 REMARK 500 2 ASP A 192 76.25 161.40 REMARK 500 2 LYS A 221 -178.67 -49.99 REMARK 500 2 VAL A 256 121.46 -32.84 REMARK 500 3 SER A 190 172.64 -42.27 REMARK 500 3 ASP A 192 73.19 172.78 REMARK 500 3 ASN A 220 46.74 38.17 REMARK 500 3 ARG A 222 46.70 -93.66 REMARK 500 3 VAL A 256 123.52 -33.38 REMARK 500 4 SER A 190 -175.17 -46.70 REMARK 500 4 ASP A 192 74.21 169.58 REMARK 500 4 ASN A 220 59.01 37.35 REMARK 500 4 LYS A 221 -179.62 -57.26 REMARK 500 4 ARG A 222 40.17 -99.48 REMARK 500 4 LEU A 249 -39.80 -133.39 REMARK 500 4 VAL A 256 123.54 -32.78 REMARK 500 5 SER A 190 -173.91 -44.68 REMARK 500 5 ASP A 192 78.24 158.20 REMARK 500 5 LYS A 221 177.16 -52.40 REMARK 500 5 LYS A 243 -81.92 -41.90 REMARK 500 5 VAL A 256 124.94 -33.23 REMARK 500 6 SER A 190 -173.66 -47.71 REMARK 500 6 ASP A 192 76.89 159.73 REMARK 500 6 ASN A 220 71.72 62.47 REMARK 500 6 LYS A 243 -75.53 -50.38 REMARK 500 6 VAL A 256 124.51 -33.20 REMARK 500 7 SER A 190 -177.45 -46.67 REMARK 500 7 ASP A 192 73.00 171.76 REMARK 500 7 PRO A 214 -156.59 -49.72 REMARK 500 7 THR A 219 11.24 -145.29 REMARK 500 7 ASN A 220 -87.82 -148.80 REMARK 500 7 ARG A 222 41.94 -88.13 REMARK 500 7 VAL A 256 124.46 -33.16 REMARK 500 8 SER A 190 -175.15 -46.72 REMARK 500 8 ASP A 192 74.72 161.86 REMARK 500 8 GLU A 195 -15.40 -48.00 REMARK 500 8 THR A 219 14.88 -150.24 REMARK 500 8 ASN A 220 96.76 37.70 REMARK 500 8 LYS A 243 -74.96 -39.98 REMARK 500 8 VAL A 256 121.78 -32.80 REMARK 500 9 SER A 190 -173.48 -48.50 REMARK 500 9 ASP A 192 78.19 157.58 REMARK 500 9 PRO A 214 -159.99 -48.45 REMARK 500 9 THR A 219 13.31 -146.99 REMARK 500 9 ASN A 220 -91.75 -149.27 REMARK 500 9 ARG A 222 39.57 -85.94 REMARK 500 9 VAL A 256 123.80 -33.37 REMARK 500 10 SER A 190 -178.16 -46.52 REMARK 500 10 ASP A 192 66.17 159.86 REMARK 500 10 GLU A 195 -14.07 -48.29 REMARK 500 10 ASN A 220 66.29 38.06 REMARK 500 10 LYS A 221 31.45 -95.01 REMARK 500 10 VAL A 256 123.01 -32.75 REMARK 500 11 SER A 190 -175.30 -46.88 REMARK 500 11 ASP A 192 78.76 159.60 REMARK 500 11 LYS A 221 176.78 -56.25 REMARK 500 11 VAL A 256 124.34 -33.55 REMARK 500 12 SER A 190 -172.64 -49.31 REMARK 500 12 ASP A 192 77.24 157.43 REMARK 500 12 GLU A 195 -19.69 -43.90 REMARK 500 12 ASN A 220 34.79 34.93 REMARK 500 12 ARG A 222 36.23 -96.92 REMARK 500 12 LYS A 243 -80.70 -36.77 REMARK 500 12 VAL A 256 122.58 -32.32 REMARK 500 13 SER A 190 -178.90 -43.84 REMARK 500 13 PRO A 191 4.05 -67.62 REMARK 500 13 ASP A 192 76.04 161.76 REMARK 500 13 GLU A 195 -16.93 -47.23 REMARK 500 13 ASN A 220 61.16 62.69 REMARK 500 13 ARG A 222 33.33 -95.31 REMARK 500 13 LYS A 243 -73.51 -37.89 REMARK 500 13 VAL A 256 127.56 -33.59 REMARK 500 14 SER A 190 -169.26 -48.00 REMARK 500 14 ASP A 192 76.26 157.05 REMARK 500 14 PRO A 194 109.59 -59.51 REMARK 500 14 SER A 210 149.72 -175.16 REMARK 500 14 LYS A 243 -74.58 -44.81 REMARK 500 14 VAL A 256 123.07 -32.87 REMARK 500 15 SER A 190 -172.07 -49.34 REMARK 500 15 ASP A 192 79.77 150.78 REMARK 500 15 ARG A 222 37.80 -93.42 REMARK 500 15 VAL A 256 121.47 -32.69 REMARK 500 16 SER A 190 -170.84 -49.83 REMARK 500 16 ASP A 192 77.19 154.67 REMARK 500 16 ASN A 220 56.70 70.78 REMARK 500 16 LYS A 221 -179.77 -51.40 REMARK 500 16 VAL A 256 121.71 -31.90 REMARK 500 17 SER A 190 178.13 -42.74 REMARK 500 17 PRO A 191 26.65 -76.37 REMARK 500 17 ASP A 192 73.88 157.48 REMARK 500 17 GLU A 195 -19.81 -43.42 REMARK 500 17 ASN A 220 36.90 70.07 REMARK 500 17 VAL A 256 125.06 -32.41 REMARK 500 18 SER A 190 173.44 -40.28 REMARK 500 18 ASP A 192 74.02 172.01 REMARK 500 18 PRO A 214 -157.36 -65.87 REMARK 500 18 THR A 219 15.42 -150.15 REMARK 500 18 ASN A 220 -92.13 -148.71 REMARK 500 18 ARG A 222 40.23 -92.39 REMARK 500 18 LYS A 243 -76.00 -38.18 REMARK 500 18 VAL A 256 122.74 -32.67 REMARK 500 19 SER A 190 -176.72 -47.25 REMARK 500 19 ASP A 192 74.75 165.63 REMARK 500 19 GLU A 195 -14.89 -48.53 REMARK 500 19 ASN A 220 58.73 33.01 REMARK 500 19 LYS A 221 -174.50 -62.96 REMARK 500 19 ARG A 222 33.87 -85.00 REMARK 500 19 VAL A 256 124.14 -32.61 REMARK 500 20 SER A 190 -177.96 -42.25 REMARK 500 20 ASP A 192 74.91 165.44 REMARK 500 20 PRO A 214 -158.22 -61.41 REMARK 500 20 ASN A 220 -85.79 -143.71 REMARK 500 20 ARG A 222 41.85 -84.09 REMARK 500 20 LEU A 249 -40.03 -130.47 REMARK 500 20 VAL A 256 123.62 -32.32 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: 1IQT RELATED DB: PDB REMARK 900 THE 20 STRUCTURES WITH THE LOWEST ENERGY OF THE C-TERMINAL REMARK 900 RNA-BINDING DOMAIN OF HNRNP D REMARK 900 RELATED ID: 1HD0 RELATED DB: PDB REMARK 900 THE MINIMIZED AVERAGE STRUCTURE OF THE N-TERMINAL RNA- REMARK 900 BINDING DOMAIN OF HNRNP D REMARK 900 RELATED ID: 1HD1 RELATED DB: PDB REMARK 900 THE STRUCTURES OF THE N-TERMINAL RNA-BINDING DOMAIN OF REMARK 900 HNRNP D REMARK 900 RELATED ID: 1WTB RELATED DB: PDB REMARK 900 THE 20 STRUCTURES WITH THE LOWEST ENERGY OF THE C-TERMINAL REMARK 900 RNA-BINDING DOMAIN OF HNRNP D WITH D(TAGG) (DATABASE FOR REMARK 900 TORSION ANGLES NOT USED) DBREF 1X0F A 181 259 UNP Q14103 HNRPD_HUMAN 181 259 DBREF 1X0F B 2 5 PDB 1X0F 1X0F 2 5 SEQRES 1 A 79 VAL LYS LYS ILE PHE VAL GLY GLY LEU SER PRO ASP THR SEQRES 2 A 79 PRO GLU GLU LYS ILE ARG GLU TYR PHE GLY GLY PHE GLY SEQRES 3 A 79 GLU VAL GLU SER ILE GLU LEU PRO MET ASP ASN LYS THR SEQRES 4 A 79 ASN LYS ARG ARG GLY PHE CYS PHE ILE THR PHE LYS GLU SEQRES 5 A 79 GLU GLU PRO VAL LYS LYS ILE MET GLU LYS LYS TYR HIS SEQRES 6 A 79 ASN VAL GLY LEU SER LYS CYS GLU ILE LYS VAL ALA MET SEQRES 7 A 79 SER SEQRES 1 B 4 DT DA DG DG HELIX 1 1 GLU A 195 PHE A 205 1 11 HELIX 2 2 GLU A 233 GLU A 241 1 9 SHEET 1 A 5 TYR A 244 VAL A 247 0 SHEET 2 A 5 SER A 250 LYS A 255 -1 N CYS A 252 O HIS A 245 SHEET 3 A 5 LYS A 183 GLY A 188 -1 N PHE A 185 O LYS A 255 SHEET 4 A 5 PHE A 225 PHE A 230 -1 O CYS A 226 N VAL A 186 SHEET 5 A 5 VAL A 208 PRO A 214 -1 N GLU A 209 O THR A 229 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 ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL MASTER 267 0 0 2 5 0 0 6 0 0 0 8 END