HEADER RNA 06-JUL-04 1TXS TITLE STEM-LOOP D OF THE CLOVERLEAF DOMAIN OF ENTEROVIRAL 5'UTR TITLE 2 RNA COMPND MOL_ID: 1; COMPND 2 MOLECULE: ENTEROVIRAL 5'-UTR; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: RNA WAS PREPARED BY IN VITRO TRANSCRIPTION SOURCE 4 WITH T7 RNA POLYMERASE KEYWDS TETRALOOP UACG, CLOSING WOBBLE UG PAIR, PYRIMIDINE- KEYWDS 2 PYRIMIDINE MISMATCHES, TWO-NUCLEOTIDE BULGE, RNA EXPDTA SOLUTION NMR NUMMDL 20 AUTHOR Z.DU,J.YU,N.B.ULYANOV,R.ANDINO,T.L.JAMES REVDAT 2 24-FEB-09 1TXS 1 VERSN REVDAT 1 05-OCT-04 1TXS 0 JRNL AUTH Z.DU,J.YU,N.B.ULYANOV,R.ANDINO,T.L.JAMES JRNL TITL SOLUTION STRUCTURE OF A CONSENSUS STEM-LOOP D RNA JRNL TITL 2 DOMAIN THAT PLAYS IMPORTANT ROLES IN REGULATING JRNL TITL 3 TRANSLATION AND REPLICATION IN ENTEROVIRUSES AND JRNL TITL 4 RHINOVIRUSES JRNL REF BIOCHEMISTRY V. 43 11959 2004 JRNL REFN ISSN 0006-2960 JRNL PMID 15379536 JRNL DOI 10.1021/BI048973P REMARK 1 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : DYANA 1.5, XPLOR NIH REMARK 3 AUTHORS : GUNTERT (DYANA), BRUNGER (XPLOR) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1TXS COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 03-AUG-04. REMARK 100 THE RCSB ID CODE IS RCSB023012. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 278; 298; 303 REMARK 210 PH : 6.5; 6.5; 6.5 REMARK 210 IONIC STRENGTH : 25 MM SODIUM CHLORIDE, 25 MM REMARK 210 SODIUM PHOSPHATE; 25 MM SODIUM REMARK 210 CHLORIDE, 25 MM SODIUM REMARK 210 PHOSPHATE; 25 MM SODIUM REMARK 210 CHLORIDE, 25 MM SODIUM REMARK 210 PHOSPHATE REMARK 210 PRESSURE : AMBIENT; AMBIENT; AMBIENT REMARK 210 SAMPLE CONTENTS : 1-2 MM UNLABELED RNA, 25 MM REMARK 210 SODIUM CHLORIDE, 25 MM SODIUM REMARK 210 PHOSPHATE; 1-2 MM UNLABELED REMARK 210 RNA, 25 MM SODIUM CHLORIDE, 25 REMARK 210 MM SODIUM PHOSPHATE; 1-2 MM REMARK 210 13C&15N-LABELED RNA, 25 MM REMARK 210 SODIUM CHLORIDE, 25 MM SODIUM REMARK 210 PHOSPHATE; 1-2 MM 13C&15N- REMARK 210 LABELED RNA, 25 MM SODIUM REMARK 210 CHLORIDE, 25 MM SODIUM REMARK 210 PHOSPHATE; 1-2 MM 13C&15N- REMARK 210 LABELED RNA, 25 MM SODIUM REMARK 210 CHLORIDE, 25 MM SODIUM REMARK 210 PHOSPHATE, 2.5% (WEIGHT/ REMARK 210 VOLUME) OF C12E6/N-HEXANOL REMARK 210 MIXTURE (MOLAR RATIO 0.64) REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY, DQF-COSY, 2D TOCSY, REMARK 210 3D_13C-SEPARATED_NOESY, 2D REMARK 210 H(N)CO, 2D HNN-COSY, 2D CT REMARK 210 NONDECOUPLED 13C-HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : VNMR 6.1, NMRPIPE 2.1, SPARKY REMARK 210 3.1 REMARK 210 METHOD USED : TORSION ANGLE DYNAMICS AND REMARK 210 RESTRAINED MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 25 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : LOWEST TOTAL ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: THIS STRUCTURE WAS DETERMINED USING 541 NOE RESTRAINTS REMARK 210 AND 136 RDC RESTRAINTS. 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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS REMARK 500 REMARK 500 THE STEREOCHEMICAL PARAMETERS OF THE FOLLOWING RESIDUES REMARK 500 HAVE VALUES WHICH DEVIATE FROM EXPECTED VALUES BY MORE REMARK 500 THAN 6*RMSD (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN REMARK 500 IDENTIFIER; SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 STANDARD TABLE: REMARK 500 FORMAT: (10X,I3,1X,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) REMARK 500 REMARK 500 EXPECTED VALUES PROTEIN: ENGH AND HUBER, 1999 REMARK 500 EXPECTED VALUES NUCLEIC ACID: CLOWNEY ET AL 1996 REMARK 500 REMARK 500 M RES CSSEQI ATM1 RES CSSEQI ATM2 DEVIATION REMARK 500 1 C A 21 C4' C A 21 C3' 0.069 REMARK 500 2 C A 21 C4' C A 21 C3' 0.073 REMARK 500 3 C A 21 C4' C A 21 C3' 0.070 REMARK 500 4 C A 21 C4' C A 21 C3' 0.068 REMARK 500 6 C A 21 C4' C A 21 C3' 0.067 REMARK 500 10 C A 21 C4' C A 21 C3' 0.074 REMARK 500 12 C A 21 C4' C A 21 C3' 0.072 REMARK 500 13 C A 21 C4' C A 21 C3' 0.070 REMARK 500 14 C A 21 C4' C A 21 C3' 0.076 REMARK 500 17 G A 33 C4' G A 33 C3' 0.066 REMARK 500 18 C A 21 C4' C A 21 C3' 0.076 REMARK 500 19 G A 33 C4' G A 33 C3' 0.067 REMARK 500 20 C A 21 C4' C A 21 C3' 0.069 REMARK 500 REMARK 500 REMARK: NULL DBREF 1TXS A 1 38 PDB 1TXS 1TXS 1 38 SEQRES 1 A 38 G G G C U A G C A C U C U SEQRES 2 A 38 G G U A U U A C G G U A C SEQRES 3 A 38 C U U U G U G C G C C 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 ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL MASTER 102 0 0 0 0 0 0 6 0 0 0 3 END