HEADER RNA BINDING PROTEIN 01-AUG-01 1IQT TITLE SOLUTION STRUCTURE OF THE C-TERMINAL RNA-BINDING DOMAIN OF TITLE 2 HETEROGENEOUS NUCLEAR RIBONUCLEOPROTEIN D0 (AUF1) COMPND MOL_ID: 1; COMPND 2 MOLECULE: HETEROGENEOUS NUCLEAR RIBONUCLEOPROTEIN D0; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: C-TERMINAL DOMAIN; COMPND 5 SYNONYM: AUF1; COMPND 6 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 KEYWDS RNA-BINDING PROTEIN, HNRNP, AUF1, TELOMERE, DNA-BINDING PROTEIN, RNA KEYWDS 2 BINDING PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR M.KATAHIRA,Y.MIYANOIRI,Y.ENOKIZONO,G.MATSUDA,T.NAGATA,F.ISHIKAWA, AUTHOR 2 S.UESUGI REVDAT 4 27-DEC-23 1IQT 1 REMARK REVDAT 3 27-JUN-18 1IQT 1 JRNL REMARK ATOM REVDAT 2 24-FEB-09 1IQT 1 VERSN REVDAT 1 07-AUG-02 1IQT 0 JRNL AUTH M.KATAHIRA,Y.MIYANOIRI,Y.ENOKIZONO,G.MATSUDA,T.NAGATA, JRNL AUTH 2 F.ISHIKAWA,S.UESUGI JRNL TITL STRUCTURE OF THE C-TERMINAL RNA-BINDING DOMAIN OF HNRNP D0 JRNL TITL 2 (AUF1), ITS INTERACTIONS WITH RNA AND DNA, AND CHANGE IN JRNL TITL 3 BACKBONE DYNAMICS UPON COMPLEX FORMATION WITH DNA. JRNL REF J.MOL.BIOL. V. 311 973 2001 JRNL REFN ISSN 0022-2836 JRNL PMID 11531333 JRNL DOI 10.1006/JMBI.2001.4862 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH T.NAGATA,Y.KURIHARA,G.MATSUDA,J.SAEKI,T.KOHNO,Y.YANAGIDA, REMARK 1 AUTH 2 F.ISHIKAWA,S.UESUGI,M.KATAHIRA REMARK 1 TITL STRUCTURE AND INTERACTIONS WITH RNA OF THE N-TERMINAL REMARK 1 TITL 2 UUAG-SPECIFIC RNA-BINDING DOMAIN OF HNRNP D0 REMARK 1 REF J.MOL.BIOL. V. 287 221 1999 REMARK 1 REFN ISSN 0022-2836 REMARK 1 DOI 10.1006/JMBI.1999.2616 REMARK 1 REFERENCE 2 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 SITE REMARK 1 TITL 2 SEQUENCE R(UUAG/G) AND THE HUMAN TELOMERIC DNA SEQUENCE REMARK 1 TITL 3 D(TTAGGG)N REMARK 1 REF MOL.CELL.BIOL. V. 13 4301 1993 REMARK 1 REFN ISSN 0270-7306 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.8, X-PLOR 3.8 REMARK 3 AUTHORS : BRUNGER (X-PLOR), BRUNGER (X-PLOR) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1IQT COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 02-AUG-01. REMARK 100 THE DEPOSITION ID IS D_1000005193. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.0 REMARK 210 IONIC STRENGTH : 0MM REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 2MM 15N LABELED HNRNP D0 RBD2, REMARK 210 20MM SODIUM PHOSPHATE, 1MM REMARK 210 SODIUM AZIDE, 10MM DEUTERATED REMARK 210 DTT, SMALL AMOUNTS OF DSS; 2MM REMARK 210 HNRNP D0 RBD2, 20MM SODIUM REMARK 210 PHOSPHATE, 1MM SODIUM AZIDE, REMARK 210 10MM DEUTERATED DTT, SMALL REMARK 210 AMOUNTS OF DSS; 2MM HNRNP D0 REMARK 210 RBD2, 20MM SODIUM PHOSPHATE, 1MM REMARK 210 SODIUM AZIDE, 10MM DEUTERATED REMARK 210 DTT, SMALL AMOUNTS OF DSS REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_15N-SEPARATED_NOESY; HNHA; 2D REMARK 210 NOESY; DQF-COSY 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 : CAPP/PIPP/STAPP 4.2.5, XWINNMR REMARK 210 2.6 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 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 : NULL REMARK 210 REMARK 210 REMARK: THE STRUCTURE WAS DETERMINED USING 2D HOMONUCLEAR AND 3D REMARK 210 15N-EDITED 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 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: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 H VAL A 247 O SER A 250 1.47 REMARK 500 O LYS A 183 H ALA A 257 1.49 REMARK 500 O PRO A 194 H ILE A 198 1.52 REMARK 500 O ILE A 239 H LYS A 242 1.54 REMARK 500 O THR A 193 H GLU A 195 1.56 REMARK 500 REMARK 500 REMARK: NULL 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 LEU A 189 40.09 26.74 REMARK 500 1 PRO A 194 58.22 -61.85 REMARK 500 1 TYR A 201 -71.33 -91.67 REMARK 500 1 ASP A 216 -155.18 -97.16 REMARK 500 1 ASN A 217 -80.25 58.23 REMARK 500 1 THR A 219 51.62 -146.81 REMARK 500 1 ASN A 220 -86.99 -146.20 REMARK 500 1 PHE A 230 -139.14 -111.36 REMARK 500 1 LYS A 231 -67.94 -125.25 REMARK 500 1 GLU A 232 -85.17 -70.48 REMARK 500 1 GLU A 233 -27.33 161.21 REMARK 500 1 LYS A 243 -31.86 -29.21 REMARK 500 1 HIS A 245 -151.82 -89.71 REMARK 500 1 LYS A 251 54.43 -119.53 REMARK 500 1 CYS A 252 167.90 -42.01 REMARK 500 1 VAL A 256 166.58 -38.74 REMARK 500 2 LEU A 189 54.39 16.45 REMARK 500 2 SER A 190 166.40 -41.34 REMARK 500 2 THR A 193 96.08 -39.28 REMARK 500 2 PRO A 194 49.06 -72.93 REMARK 500 2 TYR A 201 -71.46 -91.65 REMARK 500 2 MET A 215 98.24 52.66 REMARK 500 2 THR A 219 39.04 -150.60 REMARK 500 2 ASN A 220 -42.30 -150.92 REMARK 500 2 ARG A 223 -174.54 -51.65 REMARK 500 2 PHE A 230 -157.60 -104.17 REMARK 500 2 GLU A 232 -70.98 -91.61 REMARK 500 2 GLU A 233 -28.03 165.45 REMARK 500 2 LYS A 243 -40.68 -25.00 REMARK 500 2 HIS A 245 -159.60 -89.64 REMARK 500 2 LYS A 251 51.75 -149.86 REMARK 500 2 CYS A 252 156.01 -34.86 REMARK 500 2 VAL A 256 165.57 -36.65 REMARK 500 3 LEU A 189 68.52 0.02 REMARK 500 3 SER A 190 165.94 -41.00 REMARK 500 3 THR A 193 95.38 -38.88 REMARK 500 3 PRO A 194 46.87 -73.13 REMARK 500 3 TYR A 201 -72.03 -91.30 REMARK 500 3 PRO A 214 89.37 -69.11 REMARK 500 3 ASP A 216 -138.90 -79.51 REMARK 500 3 ASN A 217 94.22 60.46 REMARK 500 3 ASN A 220 -41.83 -150.78 REMARK 500 3 PHE A 230 -165.65 -101.36 REMARK 500 3 LYS A 231 -65.22 -92.21 REMARK 500 3 LYS A 243 -39.81 -25.42 REMARK 500 3 HIS A 245 -157.97 -91.19 REMARK 500 3 CYS A 252 161.19 -39.24 REMARK 500 3 VAL A 256 167.46 -38.38 REMARK 500 4 LEU A 189 56.61 12.89 REMARK 500 4 SER A 190 166.84 -42.12 REMARK 500 REMARK 500 THIS ENTRY HAS 362 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 1 ARG A 199 0.31 SIDE CHAIN REMARK 500 1 ARG A 222 0.27 SIDE CHAIN REMARK 500 1 ARG A 223 0.21 SIDE CHAIN REMARK 500 2 ARG A 199 0.23 SIDE CHAIN REMARK 500 2 ARG A 222 0.31 SIDE CHAIN REMARK 500 2 ARG A 223 0.31 SIDE CHAIN REMARK 500 3 ARG A 199 0.32 SIDE CHAIN REMARK 500 3 ARG A 222 0.30 SIDE CHAIN REMARK 500 4 ARG A 199 0.29 SIDE CHAIN REMARK 500 4 ARG A 222 0.28 SIDE CHAIN REMARK 500 4 ARG A 223 0.31 SIDE CHAIN REMARK 500 5 ARG A 199 0.32 SIDE CHAIN REMARK 500 5 ARG A 222 0.27 SIDE CHAIN REMARK 500 5 ARG A 223 0.27 SIDE CHAIN REMARK 500 6 ARG A 199 0.31 SIDE CHAIN REMARK 500 6 ARG A 222 0.19 SIDE CHAIN REMARK 500 6 ARG A 223 0.28 SIDE CHAIN REMARK 500 7 ARG A 199 0.13 SIDE CHAIN REMARK 500 7 ARG A 222 0.11 SIDE CHAIN REMARK 500 7 ARG A 223 0.30 SIDE CHAIN REMARK 500 8 ARG A 199 0.27 SIDE CHAIN REMARK 500 8 ARG A 222 0.30 SIDE CHAIN REMARK 500 8 ARG A 223 0.31 SIDE CHAIN REMARK 500 9 ARG A 199 0.17 SIDE CHAIN REMARK 500 9 ARG A 222 0.31 SIDE CHAIN REMARK 500 9 ARG A 223 0.30 SIDE CHAIN REMARK 500 10 ARG A 199 0.32 SIDE CHAIN REMARK 500 10 ARG A 222 0.19 SIDE CHAIN REMARK 500 10 ARG A 223 0.25 SIDE CHAIN REMARK 500 11 ARG A 199 0.28 SIDE CHAIN REMARK 500 11 ARG A 222 0.29 SIDE CHAIN REMARK 500 11 ARG A 223 0.25 SIDE CHAIN REMARK 500 12 ARG A 199 0.30 SIDE CHAIN REMARK 500 12 ARG A 222 0.27 SIDE CHAIN REMARK 500 12 ARG A 223 0.32 SIDE CHAIN REMARK 500 13 ARG A 199 0.31 SIDE CHAIN REMARK 500 13 ARG A 222 0.31 SIDE CHAIN REMARK 500 13 ARG A 223 0.21 SIDE CHAIN REMARK 500 14 ARG A 199 0.31 SIDE CHAIN REMARK 500 14 ARG A 222 0.09 SIDE CHAIN REMARK 500 14 ARG A 223 0.30 SIDE CHAIN REMARK 500 15 ARG A 199 0.30 SIDE CHAIN REMARK 500 15 ARG A 223 0.09 SIDE CHAIN REMARK 500 16 ARG A 222 0.27 SIDE CHAIN REMARK 500 17 ARG A 199 0.32 SIDE CHAIN REMARK 500 17 ARG A 222 0.13 SIDE CHAIN REMARK 500 18 ARG A 199 0.31 SIDE CHAIN REMARK 500 18 ARG A 222 0.19 SIDE CHAIN REMARK 500 18 ARG A 223 0.16 SIDE CHAIN REMARK 500 19 ARG A 223 0.23 SIDE CHAIN REMARK 500 REMARK 500 THIS ENTRY HAS 53 PLANE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1HD0 RELATED DB: PDB REMARK 900 1HD0 CONTAINS THE MINIMIZED AVERAGE STRUCTURE OF THE N-TERMINAL REMARK 900 DOMAIN OF HNRNP D0 REMARK 900 RELATED ID: 1HD1 RELATED DB: PDB REMARK 900 1HD1 CONTAINS THE 20 STRUCTURES OF THE N-TERMINAL DOMAIN OF HNRNP D0 DBREF 1IQT A 183 257 UNP Q14103 HNRPD_HUMAN 85 159 SEQRES 1 A 75 LYS ILE PHE VAL GLY GLY LEU SER PRO ASP THR PRO GLU SEQRES 2 A 75 GLU LYS ILE ARG GLU TYR PHE GLY GLY PHE GLY GLU VAL SEQRES 3 A 75 GLU SER ILE GLU LEU PRO MET ASP ASN LYS THR ASN LYS SEQRES 4 A 75 ARG ARG GLY PHE CYS PHE ILE THR PHE LYS GLU GLU GLU SEQRES 5 A 75 PRO VAL LYS LYS ILE MET GLU LYS LYS TYR HIS ASN VAL SEQRES 6 A 75 GLY LEU SER LYS CYS GLU ILE LYS VAL ALA HELIX 1 1 PRO A 194 GLY A 206 1 13 HELIX 2 2 GLU A 233 GLU A 241 1 9 SHEET 1 A 4 SER A 210 ILE A 211 0 SHEET 2 A 4 CYS A 226 THR A 229 -1 N THR A 229 O SER A 210 SHEET 3 A 4 ILE A 184 VAL A 186 -1 N ILE A 184 O ILE A 228 SHEET 4 A 4 ILE A 254 VAL A 256 -1 N LYS A 255 O PHE A 185 CRYST1 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