HEADER RNA BINDING PROTEIN 15-DEC-05 2FE9 TITLE SOLUTION STRUCTURE OF THE VTS1 SAM DOMAIN IN THE PRESENCE OF RNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: PROTEIN VTS1; COMPND 3 CHAIN: A; COMPND 4 FRAGMENT: RESIDUES: 438-523; COMPND 5 SYNONYM: VTI1-2 SUPPRESSOR PROTEIN 1; COMPND 6 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: SACCHAROMYCES CEREVISIAE; SOURCE 3 ORGANISM_COMMON: BAKER'S YEAST; SOURCE 4 ORGANISM_TAXID: 4932; SOURCE 5 GENE: VTS1; SOURCE 6 EXPRESSION_SYSTEM: ESCHERICHIA COLI BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_TAXID: 469008; SOURCE 8 EXPRESSION_SYSTEM_STRAIN: BL21(DE3) KEYWDS VTS1, SAM DOMAIN, SMAUG, RNA BINDING PROTEIN, TRANSLATIONAL CONTROL EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR T.A.EDWARDS,J.A.BUTTERWICK,A.G.PALMER,A.K.AGGARWAL REVDAT 5 14-JUN-23 2FE9 1 REMARK REVDAT 4 05-FEB-20 2FE9 1 REMARK REVDAT 3 24-FEB-09 2FE9 1 VERSN REVDAT 2 28-FEB-06 2FE9 1 JRNL REVDAT 1 24-JAN-06 2FE9 0 JRNL AUTH T.A.EDWARDS,J.A.BUTTERWICK,L.ZENG,Y.K.GUPTA,X.WANG, JRNL AUTH 2 R.P.WHARTON,A.G.PALMER,A.K.AGGARWAL JRNL TITL SOLUTION STRUCTURE OF THE VTS1 SAM DOMAIN IN THE PRESENCE OF JRNL TITL 2 RNA. JRNL REF J.MOL.BIOL. V. 356 1065 2006 JRNL REFN ISSN 0022-2836 JRNL PMID 16405996 JRNL DOI 10.1016/J.JMB.2005.12.004 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2FE9 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-JAN-06. REMARK 100 THE DEPOSITION ID IS D_1000035772. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303 REMARK 210 PH : 6.25 REMARK 210 IONIC STRENGTH : 100 MM NACL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.5 MM VTS1 U-13C,15N; 0.5 MM 13 REMARK 210 -NT TCE; 20 MM PHOSPHATE BUFFER; REMARK 210 90% H2O, 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 3D_13C-SEPARATED_NOESY; 3D_15N REMARK 210 -SEPARATED_NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 700 MHZ; 800 MHZ REMARK 210 SPECTROMETER MODEL : DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE 2004, SPARKY 3 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS WITH CNS 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: THE RESIDUE NUMBERING USED IN THIS ENTRY IS NOT THE SAME REMARK 210 AS THE FULL VTS1 SEQUENCE. THE RESIDUES HERE ARE NUMBERED 1-86 REMARK 210 WHICH CORRESPOND TO RESIDUES 438-523 IN THE FULL-LENGTH PROTEIN. 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 HG1 THR A 38 HZ3 LYS A 54 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 2 -77.39 -91.85 REMARK 500 1 MET A 5 85.69 56.56 REMARK 500 1 ASN A 18 66.64 -114.09 REMARK 500 1 PRO A 39 -179.80 -66.86 REMARK 500 1 LEU A 46 -169.19 -62.38 REMARK 500 1 VAL A 56 83.51 -68.64 REMARK 500 2 MET A 5 71.01 58.53 REMARK 500 2 ASN A 18 67.12 -112.07 REMARK 500 2 PRO A 39 -179.14 -66.22 REMARK 500 2 LEU A 46 -165.96 -63.37 REMARK 500 2 ALA A 58 109.48 -55.57 REMARK 500 3 ASN A 2 20.29 -162.78 REMARK 500 3 SER A 3 -82.99 61.59 REMARK 500 3 SER A 4 99.57 61.26 REMARK 500 3 MET A 5 99.35 -59.02 REMARK 500 3 ASN A 18 67.42 -113.24 REMARK 500 3 ARG A 27 19.79 44.89 REMARK 500 3 PRO A 39 -179.19 -67.71 REMARK 500 3 ILE A 44 -9.54 -57.92 REMARK 500 3 LEU A 46 -165.65 -62.44 REMARK 500 3 VAL A 56 85.56 -66.52 REMARK 500 4 MET A 5 85.16 57.49 REMARK 500 4 ASN A 18 65.12 -117.96 REMARK 500 4 LEU A 46 -163.34 -64.13 REMARK 500 5 ASN A 18 69.95 -115.52 REMARK 500 5 ARG A 27 0.28 53.30 REMARK 500 5 TYR A 31 34.74 -96.94 REMARK 500 5 LEU A 46 -165.49 -63.57 REMARK 500 5 VAL A 56 81.12 -66.25 REMARK 500 6 ASN A 18 67.83 -111.78 REMARK 500 6 ARG A 27 14.25 47.19 REMARK 500 6 ILE A 44 -6.09 -58.73 REMARK 500 6 LEU A 46 -168.08 -63.20 REMARK 500 6 VAL A 56 87.30 -68.59 REMARK 500 7 SER A 3 48.46 -94.43 REMARK 500 7 PRO A 13 -19.80 -44.13 REMARK 500 7 ASN A 18 69.66 -118.50 REMARK 500 7 PRO A 39 -179.12 -69.41 REMARK 500 7 LEU A 46 -168.24 -63.59 REMARK 500 8 ASN A 2 -169.20 -115.77 REMARK 500 8 MET A 5 78.01 58.61 REMARK 500 8 ASN A 18 70.19 -115.78 REMARK 500 8 LEU A 46 -165.64 -64.19 REMARK 500 8 VAL A 56 77.86 -68.80 REMARK 500 9 SER A 3 41.70 -88.76 REMARK 500 9 ASN A 18 64.83 -113.69 REMARK 500 9 PRO A 39 -179.35 -66.82 REMARK 500 9 LEU A 46 -165.64 -63.05 REMARK 500 9 ASP A 79 29.02 44.68 REMARK 500 10 SER A 4 -49.15 75.17 REMARK 500 REMARK 500 THIS ENTRY HAS 123 RAMACHANDRAN OUTLIERS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 6922 RELATED DB: BMRB REMARK 900 VTS1 CHEMICAL SHIFTS IN COMPLEX WITH RNA DBREF 2FE9 A 1 86 UNP Q08831 VTS1_YEAST 438 523 SEQRES 1 A 86 SER ASN SER SER MET ASN PRO LYS SER LEU THR ASP PRO SEQRES 2 A 86 LYS LEU LEU LYS ASN ILE PRO MET TRP LEU LYS SER LEU SEQRES 3 A 86 ARG LEU HIS LYS TYR SER ASP ALA LEU SER GLY THR PRO SEQRES 4 A 86 TRP ILE GLU LEU ILE TYR LEU ASP ASP GLU THR LEU GLU SEQRES 5 A 86 LYS LYS GLY VAL LEU ALA LEU GLY ALA ARG ARG LYS LEU SEQRES 6 A 86 LEU LYS ALA PHE GLY ILE VAL ILE ASP TYR LYS GLU ARG SEQRES 7 A 86 ASP LEU ILE ASP ARG SER ALA TYR HELIX 1 1 ASP A 12 ASN A 18 1 7 HELIX 2 2 ASN A 18 SER A 25 1 8 HELIX 3 3 LEU A 26 ARG A 27 5 2 HELIX 4 4 LEU A 28 LYS A 30 5 3 HELIX 5 5 TYR A 31 GLY A 37 1 7 HELIX 6 6 PRO A 39 ILE A 44 1 6 HELIX 7 7 ASP A 47 GLY A 55 1 9 HELIX 8 8 ALA A 58 ARG A 78 1 21 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