10 20 30 40 50 60 70 80 2JTP - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER RNA 04-AUG-07 2JTP
TITLE SOLUTION STRUCTURE OF THE FRAMESHIFT-INDUCING RNA STEM-LOOP TITLE 2 IN SIV
COMPND MOL_ID: 1; COMPND 2 MOLECULE: SIV17-50 RNA (34-MER); COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: IN VITRO TRANSCRIPTION USING PURIFIED T7 SOURCE 4 RNA POLYMERASE AND SYNTHETIC DNA OLIGONUCLEOTIDES
KEYWDS SIV, RNA STEM-LOOP, TRILOOP, FRAMESHIFTING, HIV-2
EXPDTA SOLUTION NMR
NUMMDL 20
AUTHOR R.J.MARCHESCHI,D.W.STAPLE,S.E.BUTCHER
REVDAT 3 24-FEB-09 2JTP 1 VERSN REVDAT 2 16-OCT-07 2JTP 1 JRNL REVDAT 1 02-OCT-07 2JTP 0
JRNL AUTH R.J.MARCHESCHI,D.W.STAPLE,S.E.BUTCHER JRNL TITL PROGRAMMED RIBOSOMAL FRAMESHIFTING IN SIV IS JRNL TITL 2 INDUCED BY A HIGHLY STRUCTURED RNA STEM-LOOP JRNL REF J.MOL.BIOL. V. 373 652 2007 JRNL REFN ISSN 0022-2836 JRNL PMID 17868691 JRNL DOI 10.1016/J.JMB.2007.08.033
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR_NIH REMARK 3 AUTHORS : SCHWIETERS, KUSZEWSKI, TJANDRA AND CLORE REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4 REMARK 4 2JTP COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 13-SEP-07. REMARK 100 THE RCSB ID CODE IS RCSB100277.
REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 308 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 1 MM SIV17-50 RNA (34-MER), REMARK 210 90% H2O/10% D2O; 1 MM SIV17-50 REMARK 210 RNA (34-MER), 100% D2O; 1 MM REMARK 210 [U-100% 13C; U-100% 15N] REMARK 210 SIV17-50 RNA (34-MER), 90% REMARK 210 H2O/10% D2O; 1 MM [U-100% 13C; REMARK 210 U-100% 15N] SIV17-50 RNA (34- REMARK 210 MER), 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-1H TOCSY, 2D 1H-1H REMARK 210 NOESY, 2D 1H-1H COSY, 2D 1H- REMARK 210 15N HSQC, 2D 1H-13C HSQC, 3D REMARK 210 1H-13C-1H HCCH-TOCSY, 3D NOESY REMARK 210 -HMQC, J-MODULATED 1H-13C CT- REMARK 210 HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 750 MHZ, 600 MHZ, 800 MHZ, REMARK 210 500 MHZ, 900 MHZ REMARK 210 SPECTROMETER MODEL : DMX, INOVA REMARK 210 SPECTROMETER MANUFACTURER : BRUKER, VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XWINNMR 3.5, SPARKY 3.111, REMARK 210 CNS 1.1, X-PLOR_NIH, VNMR, REMARK 210 NMRDRAW REMARK 210 METHOD USED : SIMULATED ANNEALING, TORSION REMARK 210 ANGLE DYNAMICS, MOLECULAR REMARK 210 DYNAMICS, RESIDUAL DIPOLAR REMARK 210 COUPLINGS 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: 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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND ANGLES 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,A3,1X,A1,I4,A1,3(1X,A4,2X),12X,F5.1) 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 ATM2 ATM3 REMARK 500 1 G A 1 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 1 G A 1 C8 - N9 - C4 ANGL. DEV. = -2.6 DEGREES REMARK 500 1 G A 2 N7 - C8 - N9 ANGL. DEV. = 4.6 DEGREES REMARK 500 1 G A 2 C8 - N9 - C4 ANGL. DEV. = -2.7 DEGREES REMARK 500 1 A A 3 N7 - C8 - N9 ANGL. DEV. = 3.6 DEGREES REMARK 500 1 G A 5 N7 - C8 - N9 ANGL. DEV. = 4.6 DEGREES REMARK 500 1 G A 5 C8 - N9 - C4 ANGL. DEV. = -2.7 DEGREES REMARK 500 1 G A 6 N7 - C8 - N9 ANGL. DEV. = 4.6 DEGREES REMARK 500 1 G A 6 C8 - N9 - C4 ANGL. DEV. = -2.6 DEGREES REMARK 500 1 G A 7 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 1 G A 7 C8 - N9 - C4 ANGL. DEV. = -2.7 DEGREES REMARK 500 1 G A 8 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 1 G A 8 C8 - N9 - C4 ANGL. DEV. = -2.7 DEGREES REMARK 500 1 A A 9 N7 - C8 - N9 ANGL. DEV. = 3.8 DEGREES REMARK 500 1 A A 10 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 1 A A 11 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 1 G A 12 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 1 G A 12 C8 - N9 - C4 ANGL. DEV. = -2.7 DEGREES REMARK 500 1 A A 13 N7 - C8 - N9 ANGL. DEV. = 3.8 DEGREES REMARK 500 1 A A 14 N7 - C8 - N9 ANGL. DEV. = 3.8 DEGREES REMARK 500 1 G A 15 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 1 G A 15 C8 - N9 - C4 ANGL. DEV. = -2.7 DEGREES REMARK 500 1 G A 20 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 1 G A 20 C8 - N9 - C4 ANGL. DEV. = -2.6 DEGREES REMARK 500 1 A A 22 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 1 A A 23 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 1 A A 31 N7 - C8 - N9 ANGL. DEV. = 3.8 DEGREES REMARK 500 2 G A 1 N7 - C8 - N9 ANGL. DEV. = 4.6 DEGREES REMARK 500 2 G A 1 C8 - N9 - C4 ANGL. DEV. = -2.6 DEGREES REMARK 500 2 G A 2 N7 - C8 - N9 ANGL. DEV. = 4.7 DEGREES REMARK 500 2 G A 2 C8 - N9 - C4 ANGL. DEV. = -2.7 DEGREES REMARK 500 2 A A 3 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 2 G A 5 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 2 G A 5 C8 - N9 - C4 ANGL. DEV. = -2.7 DEGREES REMARK 500 2 G A 6 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 2 G A 6 C8 - N9 - C4 ANGL. DEV. = -2.6 DEGREES REMARK 500 2 G A 7 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 2 G A 7 C8 - N9 - C4 ANGL. DEV. = -2.7 DEGREES REMARK 500 2 G A 8 N7 - C8 - N9 ANGL. DEV. = 4.4 DEGREES REMARK 500 2 G A 8 C8 - N9 - C4 ANGL. DEV. = -2.6 DEGREES REMARK 500 2 A A 9 N7 - C8 - N9 ANGL. DEV. = 3.9 DEGREES REMARK 500 2 A A 10 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 2 A A 11 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 2 G A 12 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 2 G A 12 C8 - N9 - C4 ANGL. DEV. = -2.6 DEGREES REMARK 500 2 A A 13 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 2 A A 14 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 2 G A 15 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 2 G A 15 C8 - N9 - C4 ANGL. DEV. = -2.7 DEGREES REMARK 500 2 G A 20 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 540 ANGLE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL
DBREF 2JTP A 1 34 PDB 2JTP 2JTP 1 34
SEQRES 1 A 34 G G A U G G G G A A A G A SEQRES 2 A 34 A G C C C C G C A A U U U SEQRES 3 A 34 C C C C A U 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