HEADER RNA 02-DEC-05 2F88 TITLE SOLUTION NMR STRUCTURE OF DOMAIN 5 FROM THE PYAIELLA TITLE 2 LITTORALIS (PL) GROUP II INTRON COMPND MOL_ID: 1; COMPND 2 MOLECULE: D5-PL RNA RIBOZYME DOMAIN; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: DOMAIN 5 OF PL GROUP II INTRON SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: RNA WAS SYNTHESIZED BY IN VITRO SOURCE 4 TRANSCRIPTION WITH T7 RNA POLYMERASE' KEYWDS RNA HAIRPIN, GNRA TETRALOOP, INTERNAL BULGE, MG METAL KEYWDS 2 BINDING SITE EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR K.T.DAYIE REVDAT 2 24-FEB-09 2F88 1 VERSN REVDAT 1 28-FEB-06 2F88 0 JRNL AUTH M.SEETHARAMAN,N.V.ELDHO,R.A.PADGETT,K.T.DAYIE JRNL TITL STRUCTURE OF A SELF-SPLICING GROUP II INTRON JRNL TITL 2 CATALYTIC EFFECTOR DOMAIN 5: PARALLELS WITH JRNL TITL 3 SPLICEOSOMAL U6 RNA JRNL REF RNA V. 12 235 2006 JRNL REFN ISSN 1355-8382 JRNL PMID 16428604 JRNL DOI 10.1261/RNA.2237806 REMARK 1 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: STRUCTURES BASED ON 549 NOE-DERIVED REMARK 3 DISTANCE RESTRAINTS, 304 DIHEDRAL RESTRAINTS, 60 HYDROGEN BOND REMARK 3 RESTRAINTS, AND 37 RESIDUAL DIPOLAR COUPLING RESTRAINTS REMARK 4 REMARK 4 2F88 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-DEC-05. REMARK 100 THE RCSB ID CODE IS RCSB035573. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 278; 298; 308; 318 REMARK 210 PH : 6.5; 6.5; 6.5; 6.5 REMARK 210 IONIC STRENGTH : 100 MM KCL; 100 MM KCL; 100 REMARK 210 MM KCL; 100 MM KCL REMARK 210 PRESSURE : NULL; NULL; NULL; NULL REMARK 210 SAMPLE CONTENTS : 1 MM FULLY 13C/15N A,C,G,U REMARK 210 LABELED D5-PL, 100 MM KCL, 10 REMARK 210 MM PHOSPHATE, 0-10 MM MGCL2, REMARK 210 92% H2O AND 8% D2O OR 99.999% REMARK 210 D2O; 1 MM A-13C/15N URACIL REMARK 210 LABELED D5-PL, 100 MM KCL, 10 REMARK 210 MM PHOSPHATE BUFFER, 0-10 MM REMARK 210 MGCL2, 92% H2O AND 8% D2O OR REMARK 210 99.999% D2O; 1 MM UNLABELED REMARK 210 D5-PL, 100 MM KCL, 10 MM REMARK 210 PHOSPHATE BUFFER, 0-10 MM REMARK 210 MGCL2, 92% H2O AND 8% D2O OR REMARK 210 99.999% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY, 2D TOCSY, 3D_13C- REMARK 210 SEPARATED_NOESY, 3D_15N- REMARK 210 SEPARATED_NOESY, 3D 1H-13C-1H REMARK 210 HCCH TOCSY, 3D 1H-13C-1H HCCH REMARK 210 COSY, 3D 1H-13C-1H HCCH COSY REMARK 210 TROSY, 3D HCCNH, 3D_13C- REMARK 210 SEPARATED_ROESY, 13C/15N HSQC, REMARK 210 13C/15N TROSY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ, 600 MHZ, 800 MHZ REMARK 210 SPECTROMETER MODEL : INOVA, AVANCE REMARK 210 SPECTROMETER MANUFACTURER : VARIAN, BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NMRPIPE 2.1, SPARKY 3, CNS 1.1 REMARK 210 METHOD USED : TORSION ANGLE MOLECULAR REMARK 210 DYNAMICS CARTESIAN SPACE REMARK 210 SIMULATED ANNEALING RESIDUAL REMARK 210 DIPOLAR COUPLINGS REFINEMENT REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 30 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT VIOLATIONS, REMARK 210 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 A BATTERY OF REMARK 210 STANDARD HOMONUCLEAR AND RECENTLY OPTIMIZED TRIPLE-RESONANCE REMARK 210 NMR EXPERIMENTS 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. DBREF 2F88 A 1 34 PDB 2F88 2F88 1 34 SEQRES 1 A 34 G A G C C G U G U G C G A SEQRES 2 A 34 U G A A A G U C G C A A G SEQRES 3 A 34 C A C G G U U C 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 ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL MASTER 75 0 0 0 0 0 0 6 0 0 0 3 END