HEADER RNA BINDING PROTEIN 16-APR-13 2RT3 TITLE SOLUTION STRUCTURE OF THE SECOND RRM DOMAIN OF NRD1 COMPND MOL_ID: 1; COMPND 2 MOLECULE: NEGATIVE REGULATOR OF DIFFERENTIATION 1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RRM2 DOMAIN, RESIDUES 188-284; COMPND 5 SYNONYM: MULTICOPY SUPPRESSOR OF SPORULATION PROTEIN MSA2; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SCHIZOSACCHAROMYCES POMBE; SOURCE 3 ORGANISM_COMMON: FISSION YEAST; SOURCE 4 ORGANISM_TAXID: 284812; SOURCE 5 STRAIN: 972; SOURCE 6 GENE: NRD1; SOURCE 7 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 8 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 9 EXPRESSION_SYSTEM_VECTOR_TYPE: VECTOR; SOURCE 10 EXPRESSION_SYSTEM_VECTOR: PET-49B(+) KEYWDS NRD1, RNA-BINDING, RNA BINDING PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR A.KOBAYASHI,T.KANABA,M.MISHIMA REVDAT 2 01-MAY-24 2RT3 1 REMARK REVDAT 1 16-APR-14 2RT3 0 JRNL AUTH A.KOBAYASHI,T.KANABA,R.SATOH,T.FUJIWARA,Y.ITO,R.SUGIURA, JRNL AUTH 2 M.MISHIMA JRNL TITL STRUCTURE OF THE SECOND RRM DOMAIN OF NRD1, A FISSION YEAST JRNL TITL 2 MAPK TARGET RNA BINDING PROTEIN, AND IMPLICATION FOR ITS RNA JRNL TITL 3 RECOGNITION AND REGULATION JRNL REF BIOCHEM.BIOPHYS.RES.COMMUN. V. 437 12 2013 JRNL REFN ISSN 0006-291X JRNL PMID 23770370 JRNL DOI 10.1016/J.BBRC.2013.06.008 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS REMARK 3 AUTHORS : BRUNGER, ADAMS, CLORE, GROS, NILGES AND READ REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2RT3 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 01-MAY-13. REMARK 100 THE DEPOSITION ID IS D_1000150250. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303 REMARK 210 PH : 6.0 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 50 MM POTASSIUM PHOSPHATE-1, 100 REMARK 210 MM SODIUM CHLORIDE-2, 1 MM TCEP- REMARK 210 3, 0.1 MM EDTA-4, 1.0 MM [U-99% REMARK 210 13C; U-99% 15N] NRD1 RRM2-5, 93% REMARK 210 H2O/7% D2O; 50 MM POTASSIUM REMARK 210 PHOSPHATE-6, 100 MM SODIUM REMARK 210 CHLORIDE-7, 1 MM TCEP-8, 0.1 MM REMARK 210 EDTA-9, 1.2 MM [U-99% 15N] NRD1 REMARK 210 RRM2-10, 93% H2O/7% D2O; 50 MM REMARK 210 POTASSIUM PHOSPHATE-11, 100 MM REMARK 210 SODIUM CHLORIDE-12, 1 MM TCEP-13, REMARK 210 0.1 MM EDTA-14, 1.0 MM [U-99% REMARK 210 13C; U-99% 15N] NRD1 RRM2-15, REMARK 210 100% D2O; 50 MM POTASSIUM REMARK 210 PHOSPHATE-16, 100 MM SODIUM REMARK 210 CHLORIDE-17, 1 MM TCEP-18, 0.1 REMARK 210 MM EDTA-19, 0.35 MM [U-10% 13C; REMARK 210 U-99% 15N] NRD1 RRM2-20, 93% H2O/ REMARK 210 7% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N HSQC; 3D HNCACB; 3D REMARK 210 CBCA(CO)NH; 3D HN(CA)CO; 3D HNCO; REMARK 210 3D H(CCO)NH; 3D C(CO)NH; 4D REMARK 210 H(CCO)NH; 3D 1H-13C NOESY; 3D 1H- REMARK 210 15N NOESY; 3D HNHB; 3D HA(CA)HB; REMARK 210 2D 1H-13C CT-HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE III REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : CYANA, SPARKY, TALOS, NMRPIPE, REMARK 210 TOPSPIN REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 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: 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: 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 HD21 LEU A 226 HZ PHE A 248 1.33 REMARK 500 HA LEU A 261 HE3 TRP A 267 1.35 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 ASN A 192 -88.64 64.86 REMARK 500 1 ARG A 206 0.69 56.59 REMARK 500 1 ASN A 212 51.29 168.93 REMARK 500 1 ASP A 277 -164.96 59.56 REMARK 500 1 CYS A 279 31.15 -95.44 REMARK 500 2 ASN A 192 -56.25 -159.10 REMARK 500 2 SER A 193 81.92 62.89 REMARK 500 2 GLN A 201 31.96 -145.72 REMARK 500 2 ARG A 206 6.65 55.15 REMARK 500 2 ASN A 212 38.38 177.64 REMARK 500 2 ASP A 277 150.07 68.55 REMARK 500 3 ARG A 206 9.14 54.20 REMARK 500 3 ASN A 212 49.74 177.40 REMARK 500 4 ALA A 190 -59.34 68.88 REMARK 500 4 SER A 191 30.10 -90.80 REMARK 500 4 SER A 193 -84.28 69.50 REMARK 500 4 LEU A 196 71.22 51.79 REMARK 500 4 GLN A 201 76.81 50.95 REMARK 500 4 ARG A 206 1.13 48.97 REMARK 500 4 ASN A 212 42.11 178.22 REMARK 500 4 ASP A 277 144.37 179.28 REMARK 500 5 SER A 194 -171.03 59.43 REMARK 500 5 ARG A 206 5.03 56.81 REMARK 500 5 ASN A 212 34.86 -179.01 REMARK 500 6 SER A 189 87.20 57.46 REMARK 500 6 SER A 191 178.49 66.34 REMARK 500 6 LEU A 196 93.95 -53.76 REMARK 500 6 SER A 202 -5.44 67.59 REMARK 500 6 ARG A 206 5.04 57.65 REMARK 500 6 ASN A 212 52.73 179.72 REMARK 500 6 ALA A 280 98.06 -163.28 REMARK 500 7 SER A 194 39.13 -84.68 REMARK 500 7 LEU A 196 95.36 -59.29 REMARK 500 7 ALA A 198 16.69 57.26 REMARK 500 7 ARG A 206 -0.61 55.43 REMARK 500 7 ASN A 212 37.57 173.66 REMARK 500 7 CYS A 279 36.34 -87.98 REMARK 500 8 GLN A 201 105.58 -28.72 REMARK 500 8 ARG A 206 -3.73 56.71 REMARK 500 8 ASN A 212 39.54 174.83 REMARK 500 8 ASP A 277 122.95 67.40 REMARK 500 8 ALA A 280 91.97 -67.01 REMARK 500 8 LEU A 283 79.79 -105.74 REMARK 500 9 SER A 189 111.84 -167.32 REMARK 500 9 SER A 194 -168.53 60.86 REMARK 500 9 LEU A 196 99.13 -62.48 REMARK 500 9 GLN A 201 40.16 -103.14 REMARK 500 9 ARG A 206 3.97 56.25 REMARK 500 9 ASN A 212 37.15 175.81 REMARK 500 9 CYS A 279 67.19 -110.17 REMARK 500 REMARK 500 THIS ENTRY HAS 118 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 11523 RELATED DB: BMRB DBREF 2RT3 A 188 284 UNP Q09702 NRD1_SCHPO 188 284 SEQRES 1 A 97 ASN SER ALA SER ASN SER SER VAL LEU LEU ALA VAL GLN SEQRES 2 A 97 GLN SER GLY ALA CYS ARG ASN VAL PHE LEU GLY ASN LEU SEQRES 3 A 97 PRO ASN GLY ILE THR GLU ASP GLU ILE ARG GLU ASP LEU SEQRES 4 A 97 GLU PRO PHE GLY PRO ILE ASP GLN ILE LYS ILE VAL THR SEQRES 5 A 97 GLU ARG ASN ILE ALA PHE VAL HIS PHE LEU ASN ILE ALA SEQRES 6 A 97 ALA ALA ILE LYS ALA VAL GLN GLU LEU PRO LEU ASN PRO SEQRES 7 A 97 LYS TRP SER LYS ARG ARG ILE TYR TYR GLY ARG ASP ARG SEQRES 8 A 97 CYS ALA VAL GLY LEU LYS HELIX 1 1 VAL A 195 GLN A 200 1 6 HELIX 2 2 THR A 218 GLU A 227 1 10 HELIX 3 3 ASN A 250 LEU A 261 1 12 HELIX 4 4 PRO A 262 ASN A 264 5 3 HELIX 5 5 LYS A 266 ARG A 270 5 5 SHEET 1 A 4 GLN A 234 VAL A 238 0 SHEET 2 A 4 ILE A 243 HIS A 247 -1 O ILE A 243 N VAL A 238 SHEET 3 A 4 VAL A 208 LEU A 210 -1 N LEU A 210 O ALA A 244 SHEET 4 A 4 ILE A 272 TYR A 274 -1 O TYR A 273 N PHE A 209 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