HEADER RNA 04-JUN-08 2K4C TITLE TRNAPHE-BASED HOMOLOGY MODEL FOR TRNAVAL REFINED AGAINST BASE N-H RDCS TITLE 2 IN TWO MEDIA AND SAXS DATA COMPND MOL_ID: 1; COMPND 2 MOLECULE: 76-MER; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: ESCHERICHIA COLI; SOURCE 3 ORGANISM_TAXID: 562; SOURCE 4 EXPRESSION_SYSTEM: ESCHERICHIA COLI; SOURCE 5 EXPRESSION_SYSTEM_TAXID: 562; SOURCE 6 EXPRESSION_SYSTEM_STRAIN: BL21(DE3); SOURCE 7 EXPRESSION_SYSTEM_VECTOR: PVALT7; SOURCE 8 OTHER_DETAILS: SAMPLE IS UNIFORMLY 15N LABELED KEYWDS TRNAVAL, RDC, SAXS, NCS, RNA EXPDTA SOLUTION NMR; SOLUTION SCATTERING AUTHOR A.GRISHAEV,J.YING,M.D.CANNY,A.PARDI,A.BAX REVDAT 3 24-JUN-20 2K4C 1 SOURCE REMARK DBREF REVDAT 2 30-DEC-08 2K4C 1 JRNL REVDAT 1 09-DEC-08 2K4C 0 JRNL AUTH A.GRISHAEV,J.YING,M.D.CANNY,A.PARDI,A.BAX JRNL TITL SOLUTION STRUCTURE OF TRNAVAL FROM REFINEMENT OF HOMOLOGY JRNL TITL 2 MODEL AGAINST RESIDUAL DIPOLAR COUPLING AND SAXS DATA. JRNL REF J.BIOMOL.NMR V. 42 99 2008 JRNL REFN ISSN 0925-2738 JRNL PMID 18787959 JRNL DOI 10.1007/S10858-008-9267-X REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH J.YING,A.GRISHAEV,M.LATHAM,A.PARDI,A.BAX REMARK 1 TITL MAGNETIC FIELD INDUCED RESIDUAL DIPOLAR COUPLINGS OF IMINO REMARK 1 TITL 2 GROUPS IN NUCLEIC ACIDS FROM MEASUREMENTS AT A SINGLE REMARK 1 TITL 3 MAGNETIC FIELD REMARK 1 REF J.BIOMOL.NMR V. 39 91 2007 REMARK 1 REFN ISSN 0925-2738 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR NIH 2.9.14, CNS 1.0 REMARK 3 AUTHORS : SCHWIETERS, KUSZEWSKI, TJANDRA AND CLORE (X-PLOR REMARK 3 NIH), BRUNGER, ADAMS, CLORE, GROS, NILGES AND READ REMARK 3 (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: TRNAVAL SOLUTION STRUCTURE IS OBTAINED REMARK 3 BY REFINEMENT OF THE TRNAPHE BASED HOMOLOGY MODEL AGAINST RDC REMARK 3 DATA (BASE N-H RDCS) FROM PF1 AND SELF-ALIGNMENT (MSA), AND SAXS REMARK 3 DATA. TOTALS OF 24 PF1 RDCS AND 20 MSA RDCS WERE FITTED. DURING REMARK 3 THE REFINEMENT, THE LOCAL GEOMETRY WAS KEPT CLOSE TO THE TRNAPHE REMARK 3 BASED HOMOLOGY MODEL USING A SET OF NON-CRYSTALLOGRAPHIC REMARK 3 SYMMETRY RESTRAINT TERMS. THE NCS POTENTIALS INCLUDED: 70 REMARK 3 SEQUENTIAL I/I+1 TERMS AND 34 ADDITIONAL TERMS FOR BASE PAIRS REMARK 3 AND TRIPLETS. THE EXPERIMENTAL SAXS DATA BETWEEN Q=0.03 AND 0.35 REMARK 3 A^-1 WERE FITTED AS WELL. REMARK 4 REMARK 4 2K4C COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-JUN-08. REMARK 100 THE DEPOSITION ID IS D_1000100659. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298; 298 REMARK 210 PH : 6.8; 7.0 REMARK 210 IONIC STRENGTH : 0.155; 0.225 REMARK 210 PRESSURE : AMBIENT ATM; AMBIENT ATM REMARK 210 SAMPLE CONTENTS : 0.5 MM [U-100% 15N] RNA (76 REMARK 210 -MER), 10 MM SODIUM PHOSPHATE, REMARK 210 80 MM SODIUM CHLORIDE, 5 MM REMARK 210 MAGNESIUM CHLORIDE, 0.1 MM EDTA, REMARK 210 90% H2O/10% D2O; 0.41 MM [U-100% REMARK 210 15N] RNA (76-MER), 10 MM SODIUM REMARK 210 PHOSPHATE, 150 MM SODIUM REMARK 210 CHLORIDE, 5 MM MAGNESIUM REMARK 210 CHLORIDE, 0.1 MM EDTA, 100% H2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-15N TROSY-HSQC; 2D 1H-15N REMARK 210 HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ; 500 MHZ REMARK 210 SPECTROMETER MODEL : DRX; DMX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : SIMULATED ANNEALING/TORSION REMARK 210 ANGLE DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 3 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 1 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 265 REMARK 265 EXPERIMENTAL DETAILS 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 DBREF1 2K4C A 1 76 GB CP053595.1 DBREF2 2K4C A 1845291569 2034689 2034614 SEQRES 1 A 76 G G G U G A U U A G C U C SEQRES 2 A 76 A G C U G G G A G A G C A SEQRES 3 A 76 C C U C C C U U A C A A G SEQRES 4 A 76 G A G G G G G U C G G C G SEQRES 5 A 76 G U U C G A U C C C G U C SEQRES 6 A 76 A U C A C C C A C C A 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