HEADER RNA BINDING PROTEIN 12-MAY-03 1P9K TITLE THE SOLUTION STRUCTURE OF YBCJ FROM E. COLI REVEALS A RECENTLY TITLE 2 DISCOVERED ALFAL MOTIF INVOLVED IN RNA-BINDING COMPND MOL_ID: 1; COMPND 2 MOLECULE: ORF, HYPOTHETICAL PROTEIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 83333; SOURCE 4 STRAIN: K12; SOURCE 5 GENE: YBCJ; 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: PET20B KEYWDS ALFAL MOTIF, RNA-BINDING PROTEIN, E.COLI, MONTREAL-KINGSTON BACTERIAL KEYWDS 2 STRUCTURAL GENOMICS INITIATIVE, BSGI, STRUCTURAL GENOMICS, RNA KEYWDS 3 BINDING PROTEIN EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR L.VOLPON,C.LIEVRE,M.J.OSBORNE,S.GANDHI,P.IANNUZZI,R.LAROCQUE,A.MATTE, AUTHOR 2 M.CYGLER,K.GEHRING,I.EKIEL,MONTREAL-KINGSTON BACTERIAL STRUCTURAL AUTHOR 3 GENOMICS INITIATIVE (BSGI) REVDAT 3 13-JUL-11 1P9K 1 VERSN REVDAT 2 24-FEB-09 1P9K 1 VERSN REVDAT 1 25-NOV-03 1P9K 0 SPRSDE 25-NOV-03 1P9K 1O09 JRNL AUTH L.VOLPON,C.LIEVRE,M.J.OSBORNE,S.GANDHI,P.IANNUZZI, JRNL AUTH 2 R.LAROCQUE,M.CYGLER,K.GEHRING,I.EKIEL JRNL TITL THE SOLUTION STRUCTURE OF YBCJ FROM ESCHERICHIA COLI REVEALS JRNL TITL 2 A RECENTLY DISCOVERED ALPHAL MOTIF INVOLVED IN RNA BINDING. JRNL REF J.BACTERIOL. V. 185 4204 2003 JRNL REFN ISSN 0021-9193 JRNL PMID 12837795 JRNL DOI 10.1128/JB.185.14.4204-4210.2003 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : TALOS 2003.027.13.05, ARIA 1.1, CNS 1.1 REMARK 3 AUTHORS : BAX (TALOS), NILGES (ARIA), BRUNGER (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURES ARE BASED ON A TOTAL OF REMARK 3 1205 RESTRAINTS, 1011 ARE NOE-DERIVED DISTANCE CONSTRAINTS, 89 REMARK 3 DIHEDRAL ANGLE RESTRAINTS, 54 DISTANCE RESTRAINTS FROM HYDROGEN REMARK 3 BONDS (27 HYDROGEN BONDS), AND 51 15N-1H RESIDUAL DIPOLAR REMARK 3 COUPLINGS. REMARK 4 REMARK 4 1P9K COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-MAY-03. REMARK 100 THE RCSB ID CODE IS RCSB019178. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 313 REMARK 210 PH : 6.8 REMARK 210 IONIC STRENGTH : 50MM PHOSPHATE, 300MM NACL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 4-7MM YBCJ U-15N,13C; 50MM REMARK 210 PHOSPHATE BUFFER, 300MM NACL, REMARK 210 15MM DTT, 1MM SODIUM AZIDE, PH REMARK 210 6.8; 4-7MM YBCJ U-15N,13C; 50MM REMARK 210 PHOSPHATE BUFFER, 300MM NACL, REMARK 210 15MM DTT, 1MM SODIUM AZIDE, PH REMARK 210 6.8, 8MG/ML OF PF1 PHAGE REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY; DQF-COSY; HNHA; 3D_15N REMARK 210 -SEPARATED_NOESY; IPAP-HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : DRX; AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : GIFA 4.31, XWINNMR 2.1, XEASY REMARK 210 1.3.13 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 60 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT VIOLATIONS,STRUCTURES REMARK 210 WITH THE LOWEST ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 7 REMARK 210 REMARK 210 REMARK: THIS STRUCTURE WAS DETERMINED USING STANDARD 2D REMARK 210 HOMONUCLEAR AND 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 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 HZ2 TRP A 32 HB VAL A 75 1.55 REMARK 500 HB3 GLU A 55 H THR A 56 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 SER A 2 80.29 -151.58 REMARK 500 1 MET A 3 72.91 -168.58 REMARK 500 1 MET A 7 -31.32 74.43 REMARK 500 1 SER A 8 115.99 67.72 REMARK 500 1 LYS A 17 57.40 -143.86 REMARK 500 1 HIS A 20 -170.36 171.38 REMARK 500 1 GLN A 38 -74.69 -54.91 REMARK 500 1 ALA A 42 -79.14 -74.11 REMARK 500 1 GLN A 47 -14.62 -46.33 REMARK 500 1 VAL A 48 -88.21 -74.92 REMARK 500 1 LYS A 49 128.87 -172.84 REMARK 500 1 ASP A 51 85.91 -55.66 REMARK 500 1 GLU A 55 -151.39 -106.94 REMARK 500 1 THR A 56 57.30 -166.96 REMARK 500 1 ALA A 64 -150.39 74.40 REMARK 500 1 ALA A 71 -87.01 46.67 REMARK 500 2 SER A 2 103.26 63.43 REMARK 500 2 ARG A 6 94.51 61.65 REMARK 500 2 LYS A 17 56.62 -151.06 REMARK 500 2 HIS A 20 -164.32 163.01 REMARK 500 2 ALA A 42 -79.81 -72.21 REMARK 500 2 ALA A 44 -72.18 -63.09 REMARK 500 2 GLN A 47 -9.52 -47.96 REMARK 500 2 VAL A 48 -90.67 -74.66 REMARK 500 2 LYS A 49 119.37 -167.02 REMARK 500 2 ASP A 51 98.20 -44.70 REMARK 500 2 ALA A 64 -155.01 74.48 REMARK 500 2 ALA A 71 -85.03 48.72 REMARK 500 3 SER A 2 -171.44 65.68 REMARK 500 3 ILE A 4 117.89 60.36 REMARK 500 3 HIS A 5 -60.45 -172.82 REMARK 500 3 ARG A 6 167.66 58.40 REMARK 500 3 MET A 7 -172.30 58.28 REMARK 500 3 SER A 8 161.59 67.55 REMARK 500 3 ASN A 9 -62.38 -165.46 REMARK 500 3 HIS A 20 -174.60 168.14 REMARK 500 3 LEU A 23 -39.28 -38.08 REMARK 500 3 GLN A 38 -79.42 -61.11 REMARK 500 3 ALA A 42 -79.09 -74.40 REMARK 500 3 GLN A 47 -10.88 -48.26 REMARK 500 3 VAL A 48 -96.66 -75.33 REMARK 500 3 ASP A 51 97.05 -44.79 REMARK 500 3 THR A 56 46.19 -147.29 REMARK 500 3 ALA A 64 -151.27 72.69 REMARK 500 3 ALA A 71 -85.85 47.55 REMARK 500 4 HIS A 5 139.43 64.50 REMARK 500 4 ARG A 6 71.46 -168.66 REMARK 500 4 MET A 7 -62.90 -99.48 REMARK 500 4 LYS A 17 54.72 -149.84 REMARK 500 4 HIS A 20 -165.65 162.75 REMARK 500 REMARK 500 THIS ENTRY HAS 277 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: YBCJ_ECOLI RELATED DB: TARGETDB DBREF 1P9K A 3 79 UNP P0AAS7 YBCJ_ECOLI 1 77 SEQADV 1P9K GLY A 1 UNP P0AAS7 CLONING ARTIFACT SEQADV 1P9K SER A 2 UNP P0AAS7 CLONING ARTIFACT SEQRES 1 A 79 GLY SER MET ILE HIS ARG MET SER ASN MET ALA THR PHE SEQRES 2 A 79 SER LEU GLY LYS HIS PRO HIS VAL GLU LEU CYS ASP LEU SEQRES 3 A 79 LEU LYS LEU GLU GLY TRP SER GLU SER GLY ALA GLN ALA SEQRES 4 A 79 LYS ILE ALA ILE ALA GLU GLY GLN VAL LYS VAL ASP GLY SEQRES 5 A 79 ALA VAL GLU THR ARG LYS ARG CYS LYS ILE VAL ALA GLY SEQRES 6 A 79 GLN THR VAL SER PHE ALA GLY HIS SER VAL GLN VAL VAL SEQRES 7 A 79 ALA HELIX 1 1 GLU A 22 GLY A 31 1 10 HELIX 2 2 LYS A 40 VAL A 48 1 9 SHEET 1 A 4 THR A 12 SER A 14 0 SHEET 2 A 4 HIS A 73 VAL A 78 1 O GLN A 76 N PHE A 13 SHEET 3 A 4 GLN A 66 PHE A 70 -1 N GLN A 66 O VAL A 77 SHEET 4 A 4 LYS A 49 VAL A 50 -1 N LYS A 49 O SER A 69 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