HEADER RNA BINDING PROTEIN 25-MAR-06 2DHS TITLE SOLUTION STRUCTURE OF NUCLEIC ACID BINDING PROTEIN CUGBP1AB AND ITS TITLE 2 BINDING STUDY WITH DNA AND RNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: CUG TRIPLET REPEAT RNA-BINDING PROTEIN 1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RRM1 AND RRM2; COMPND 5 SYNONYM: CUG-BP1, RNA-BINDING PROTEIN BRUNOL-2, DEADENYLATION FACTOR COMPND 6 CUG-BP, 50 KDA NUCLEAR POLYADENYLATED RNA-BINDING PROTEIN, EDEN-BP; 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: CUGBP1 (AMINO ACIDS 1 - 187); SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21 (DE3); SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: PLASMID; SOURCE 10 EXPRESSION_SYSTEM_PLASMID: PET15B KEYWDS BETA SHEET, TWO HELICES PACKED AGAINST THE BETA SHEET, RNA BINDING KEYWDS 2 PROTEIN EXPDTA SOLUTION NMR NUMMDL 7 AUTHOR Y.L.XIA,K.Y.JUN,Q.ZHU,X.G.HAN,H.ZHANG,L.TIMCHENKO,M.SWANSON,X.L.GAO REVDAT 4 01-MAY-24 2DHS 1 REMARK REVDAT 3 26-FEB-20 2DHS 1 REMARK REVDAT 2 24-FEB-09 2DHS 1 VERSN REVDAT 1 24-APR-07 2DHS 0 JRNL AUTH Y.L.XIA,K.Y.JUN,Q.ZHU,X.G.HAN,H.ZHANG,L.TIMCHENKO,M.SWANSON, JRNL AUTH 2 X.L.GAO JRNL TITL SOLUTION STRUCTURE OF NUCLEIC ACID BINDING PROTEIN CUGBP1AB JRNL TITL 2 AND ITS BINDING STUDY WITH DNA AND RNA JRNL REF TO BE PUBLISHED JRNL REFN REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NMRPIPE 2.3, ARIA 2.0ALPHA REMARK 3 AUTHORS : FRANK DELAGLIO STEPHAN GRZESIEK, GUANG ZHU, REMARK 3 GEERTEN W. VUISTER, JOHN PFEIFER, AND AD BAX REMARK 3 (NMRPIPE), MICHAEL HABECK, WOLFGANG RIEPING,JENS REMARK 3 LINGE AND MICHAEL NILGES (ARIA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE PROTEIN CUGBP1AB HAS TOTAL 187 REMARK 3 RESIDUES (RESIDUES 1-187 OF CUGBP1) INCLUDING AN N-TERMINUS REMARK 3 HISTAG-THROMBIN SITE (21 AMINO ACIDS) AND 20 AMINO ACIDS IN THE REMARK 3 C-TERMINUS WHICH IS FROM THE PLASMID. THE MOLECULAR WEIGHT OF REMARK 3 THE CUGBP1AB IS 25.4 KDA. THE STRUCTURES ARE BASED ON A TOTAL OF REMARK 3 4228 RESTRAINTS, 3776 ARE NOE-DERIVED DISTANCE DONSTRAINTS, 324 REMARK 3 DIHEDRAL ANGLE RESTRAINTS,128 DISTANCE RESTRAINTS FROM HYDROGEN REMARK 3 BONDS. REMARK 4 REMARK 4 2DHS COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 28-MAR-06. REMARK 100 THE DEPOSITION ID IS D_1000025428. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 293 REMARK 210 PH : 5.8 REMARK 210 IONIC STRENGTH : 25MM SODIUM PHOSPHATE, 50MM REMARK 210 NACL, 0.25MM NAN3, 0.125MM EDTA REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.8MM CUGBP1AB U-15N, 13C; 25MM REMARK 210 SODIUM PHOSPHATE, 50MM NACL, REMARK 210 0.25MM NAN3, AND 0.125MM EDTA AT REMARK 210 PH 5.8, 90% H2O, 10% D2O; 0.6MM REMARK 210 CUGBP1AB U-15N; 25MM SODIUM REMARK 210 PHOSPHATE, 50MM NACL, 0.25MM REMARK 210 NAN3, AND 0.125MM EDTA AT PH 5.8, REMARK 210 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY; 2D HSQC; 3D HNCO; 3D REMARK 210 HNCA; 3D HN(CO)CA; 3D HNCACB; 3D REMARK 210 CBCA(CO)NH; 3D HBHANH; 3D REMARK 210 HBHA(CO)NH; 3D_15N-SEPARATED_ REMARK 210 NOESY; 3D_13C-SEPARATED_NOESY; REMARK 210 4D_13C-SEPARATED_NOESY; 4D_13C/ REMARK 210 15N-SEPARATED_NOESY; HNHA REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : SPARKY 3.112, ARIA 2.0ALPHA REMARK 210 METHOD USED : SIMULATED ANNEALING MOLECULAR REMARK 210 DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 20 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 7 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: THE STRUCTURE WAS DETERMINED USING TRIPLE-RESONANCE NMR REMARK 210 SPECTROSCOPY. THE BOTH TWO DOMAINS RRM1 (RNA RECOGNITION MOTIF) REMARK 210 AND RRM2 CONTAIN THE SAME BETA-ALPHA-BETA-BETA-ALPHA-BETA REMARK 210 TOPOLOGY AS EXPECTED FOR RNA-RECOGNITION MOTIF. THE FOUR BETA REMARK 210 STRANDS FORM AN ANTI PARALLEL BETA SHEET. THE TWO ALPHA HELICES REMARK 210 ARE PACKED AGAINST THE BETA SHEET. OTHER NMR EXPERIMENTS REMARK 210 INCLUDING 15N T1 AND T2 AND {1H}-15N STEADY STATE NOE, AND REMARK 210 TITRATION WITH DNA AND RNA, WERE CARRIED OUT. THE RRM1 SHOWS REMARK 210 MORE CONFORMAT ON EXCHANGE THAN RRM2. THE N-TERMINAL REGION AND REMARK 210 THE LINKER BETWEEN THE RRM1 AND RRM2 SHOW MORE FLEXIBILITY THAN REMARK 210 OTHER REGIONS. IN ADDITION, TWO LOOPS L3 AND L5 IN RRM1 ALSO REMARK 210 DEMONSTRATE CONSIDERABLE FLEXIBILITY AND CONFORMATION EXCHANGE. REMARK 210 THE CONFORMATION EXCHANGE AND FLEXIBILITY IN THE RRM1 MAY BE REMARK 210 UTILIZED IN THE RECOGNITION PROCESS BY ALLOWING DIFFERENT REMARK 210 CONFORMATIONAL STATES TO BE ACCESSED AND FACILITATING INDUCED REMARK 210 FIT FOR COMPLEX FORMING. FROM THE TITRATION EXPERIMENTS,WE FOUND REMARK 210 THAT THE (GTC)3 AND (GUCU)3 MAINLY BIND THE TWO CENTRAL BETA REMARK 210 STRANDS OF THE RRM1 AND THE LINKER OF THE RRM1 AND RRM2 DOMAINS. 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 THR A 4 67.17 -101.78 REMARK 500 1 ASP A 6 -25.52 74.07 REMARK 500 1 ASP A 9 -40.13 -147.49 REMARK 500 1 PRO A 11 30.73 -89.12 REMARK 500 1 ALA A 15 -99.27 -60.13 REMARK 500 1 ILE A 16 139.94 179.59 REMARK 500 1 GLN A 22 59.36 73.11 REMARK 500 1 ARG A 25 17.14 59.05 REMARK 500 1 TRP A 27 -166.43 -114.92 REMARK 500 1 TYR A 43 -57.21 -143.28 REMARK 500 1 ARG A 49 -38.56 -173.10 REMARK 500 1 ASP A 50 82.74 71.66 REMARK 500 1 ARG A 51 9.46 51.63 REMARK 500 1 GLN A 53 -158.46 -90.37 REMARK 500 1 PRO A 56 -76.66 -94.40 REMARK 500 1 GLN A 57 139.16 73.30 REMARK 500 1 SER A 58 107.23 -52.68 REMARK 500 1 LEU A 79 -69.33 -147.93 REMARK 500 1 HIS A 80 -176.09 72.65 REMARK 500 1 PRO A 86 -54.63 -21.85 REMARK 500 1 HIS A 89 21.14 -174.13 REMARK 500 1 ALA A 97 80.90 33.31 REMARK 500 1 ASN A 102 -27.22 81.69 REMARK 500 1 ASN A 103 42.37 -98.86 REMARK 500 1 LYS A 118 38.95 -86.34 REMARK 500 1 PRO A 143 5.54 -64.33 REMARK 500 1 GLN A 170 54.88 -104.63 REMARK 500 1 ALA A 171 -55.24 -166.72 REMARK 500 1 GLN A 172 151.01 64.22 REMARK 500 1 GLU A 175 -44.13 -172.86 REMARK 500 2 ASN A 2 -55.48 -134.52 REMARK 500 2 ASP A 6 -69.22 172.69 REMARK 500 2 ALA A 15 -82.37 -58.45 REMARK 500 2 PRO A 24 74.26 -67.93 REMARK 500 2 TRP A 27 -147.21 -83.06 REMARK 500 2 TYR A 43 -59.68 -145.30 REMARK 500 2 ARG A 49 -91.67 62.58 REMARK 500 2 ASP A 50 -23.60 153.75 REMARK 500 2 ARG A 51 -53.91 75.06 REMARK 500 2 PRO A 55 72.21 -6.79 REMARK 500 2 PRO A 56 98.73 -11.26 REMARK 500 2 GLN A 57 -64.63 -93.59 REMARK 500 2 SER A 58 96.50 55.32 REMARK 500 2 LEU A 79 -66.10 -147.42 REMARK 500 2 HIS A 80 -149.99 65.90 REMARK 500 2 PRO A 86 -59.82 -25.34 REMARK 500 2 MET A 88 66.40 -104.88 REMARK 500 2 HIS A 90 49.69 -144.10 REMARK 500 2 ALA A 97 -122.61 20.13 REMARK 500 2 GLU A 100 42.61 -109.28 REMARK 500 REMARK 500 THIS ENTRY HAS 226 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6121 RELATED DB: BMRB REMARK 900 1H, 15N AND 13C CHEMICAL SHIFT ASSIGNMENTS OF RNA REPEATS BINDING REMARK 900 PROTEIN CUGBP1AB DBREF 2DHS A 1 187 UNP Q92879 CUGB1_HUMAN 1 187 SEQRES 1 A 187 MET ASN GLY THR LEU ASP HIS PRO ASP GLN PRO ASP LEU SEQRES 2 A 187 ASP ALA ILE LYS MET PHE VAL GLY GLN VAL PRO ARG THR SEQRES 3 A 187 TRP SER GLU LYS ASP LEU ARG GLU LEU PHE GLU GLN TYR SEQRES 4 A 187 GLY ALA VAL TYR GLU ILE ASN VAL LEU ARG ASP ARG SER SEQRES 5 A 187 GLN ASN PRO PRO GLN SER LYS GLY CYS CYS PHE VAL THR SEQRES 6 A 187 PHE TYR THR ARG LYS ALA ALA LEU GLU ALA GLN ASN ALA SEQRES 7 A 187 LEU HIS ASN MET LYS VAL LEU PRO GLY MET HIS HIS PRO SEQRES 8 A 187 ILE GLN MET LYS PRO ALA ASP SER GLU LYS ASN ASN ALA SEQRES 9 A 187 VAL GLU ASP ARG LYS LEU PHE ILE GLY MET ILE SER LYS SEQRES 10 A 187 LYS CYS THR GLU ASN ASP ILE ARG VAL MET PHE SER SER SEQRES 11 A 187 PHE GLY GLN ILE GLU GLU CYS ARG ILE LEU ARG GLY PRO SEQRES 12 A 187 ASP GLY LEU SER ARG GLY CYS ALA PHE VAL THR PHE THR SEQRES 13 A 187 THR ARG ALA MET ALA GLN THR ALA ILE LYS ALA MET HIS SEQRES 14 A 187 GLN ALA GLN THR MET GLU GLY CYS SER SER PRO MET VAL SEQRES 15 A 187 VAL LYS PHE ALA ASP HELIX 1 1 SER A 28 GLN A 38 1 11 HELIX 2 2 THR A 68 LEU A 79 1 12 HELIX 3 3 ASP A 98 LYS A 101 5 4 HELIX 4 4 ASN A 103 ARG A 108 5 6 HELIX 5 5 THR A 120 SER A 130 1 11 HELIX 6 6 THR A 157 HIS A 169 1 13 SHEET 1 A 4 VAL A 42 LEU A 48 0 SHEET 2 A 4 CYS A 61 PHE A 66 -1 O CYS A 61 N LEU A 48 SHEET 3 A 4 LYS A 17 GLY A 21 -1 N MET A 18 O VAL A 64 SHEET 4 A 4 GLN A 93 PRO A 96 -1 O LYS A 95 N PHE A 19 SHEET 1 B 4 ILE A 134 GLY A 142 0 SHEET 2 B 4 LEU A 146 PHE A 155 -1 O CYS A 150 N LEU A 140 SHEET 3 B 4 LEU A 110 ILE A 112 -1 N ILE A 112 O ALA A 151 SHEET 4 B 4 VAL A 183 PHE A 185 -1 O LYS A 184 N PHE A 111 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