HEADER RNA 26-APR-11 2LC8 TITLE SOLUTION STRUCTURE OF THE MLV READTHROUGH PSEUDOKNOT COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA (56-MER); COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: MOLONEY MURINE LEUKEMIA VIRUS; SOURCE 4 ORGANISM_TAXID: 11801; SOURCE 5 OTHER_DETAILS: RNA WAS PREPARED BY IN VITRO TRANSCRIPTION KEYWDS PSEUDOKNOT, FRAMESHIFT, RNA EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR B.HOUCK-LOOMIS,M.A.DURNEY REVDAT 4 14-JUN-23 2LC8 1 REMARK REVDAT 3 27-APR-16 2LC8 1 DBREF REMARK SEQRES REVDAT 2 28-DEC-11 2LC8 1 JRNL REVDAT 1 23-NOV-11 2LC8 0 JRNL AUTH B.HOUCK-LOOMIS,M.A.DURNEY,C.SALGUERO,N.SHANKAR,J.M.NAGLE, JRNL AUTH 2 S.P.GOFF,V.M.D SOUZA JRNL TITL AN EQUILIBRIUM-DEPENDENT RETROVIRAL MRNA SWITCH REGULATES JRNL TITL 2 TRANSLATIONAL RECODING JRNL REF NATURE V. 480 561 2011 JRNL REFN ISSN 0028-0836 JRNL PMID 22121021 JRNL DOI 10.1038/NATURE10657 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CYANA, CYANA REMARK 3 AUTHORS : GUNTERT, MUMENTHALER AND WUTHRICH (CYANA), REMARK 3 GUNTERT, MUMENTHALER AND WUTHRICH (CYANA) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2LC8 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 28-APR-11. REMARK 100 THE DEPOSITION ID IS D_1000102218. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.4 REMARK 210 IONIC STRENGTH : 0.02 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.2-2.0 MM RNA (59-MER), 100% REMARK 210 D2O; 0.2-2.0 MM [U-100% 13C; U- REMARK 210 100% 15N] RNA (59-MER), 100% D2O; REMARK 210 0.2-2.0 MM [U-100% 2H] RNA (59- REMARK 210 MER), 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-1H NOESY; 2D 1H-13C HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 700 MHZ; 900 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT VIOLATIONS 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 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 465 REMARK 465 MISSING RESIDUES REMARK 465 THE FOLLOWING RESIDUES WERE NOT LOCATED IN THE REMARK 465 EXPERIMENT. (RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 465 SSSEQ=SEQUENCE NUMBER; I=INSERTION CODE.) REMARK 465 MODELS 1-10 REMARK 465 RES C SSSEQI REMARK 465 G A 1 REMARK 465 G A 2 REMARK 465 A A 3 REMARK 465 A A 60 REMARK 465 C A 61 REMARK 465 C A 62 REMARK 465 C A 63 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 4 O4' - C4' - C3' ANGL. DEV. = -8.9 DEGREES REMARK 500 1 G A 4 C1' - O4' - C4' ANGL. DEV. = 6.9 DEGREES REMARK 500 1 G A 4 C6 - N1 - C2 ANGL. DEV. = -6.6 DEGREES REMARK 500 1 G A 4 N1 - C2 - N3 ANGL. DEV. = 5.2 DEGREES REMARK 500 1 G A 4 C5 - C6 - N1 ANGL. DEV. = 5.9 DEGREES REMARK 500 1 G A 5 O4' - C4' - C3' ANGL. DEV. = -9.8 DEGREES REMARK 500 1 G A 5 C1' - O4' - C4' ANGL. DEV. = 6.8 DEGREES REMARK 500 1 G A 5 C6 - N1 - C2 ANGL. DEV. = -6.6 DEGREES REMARK 500 1 G A 5 N1 - C2 - N3 ANGL. DEV. = 5.2 DEGREES REMARK 500 1 G A 5 C5 - C6 - N1 ANGL. DEV. = 6.0 DEGREES REMARK 500 1 U A 6 O4' - C4' - C3' ANGL. DEV. = -9.0 DEGREES REMARK 500 1 U A 6 C1' - O4' - C4' ANGL. DEV. = 7.2 DEGREES REMARK 500 1 C A 7 O4' - C4' - C3' ANGL. DEV. = -11.0 DEGREES REMARK 500 1 C A 7 C1' - O4' - C4' ANGL. DEV. = 6.3 DEGREES REMARK 500 1 A A 8 O4' - C4' - C3' ANGL. DEV. = -8.5 DEGREES REMARK 500 1 A A 8 C1' - O4' - C4' ANGL. DEV. = 7.0 DEGREES REMARK 500 1 G A 9 O4' - C4' - C3' ANGL. DEV. = -9.0 DEGREES REMARK 500 1 G A 9 C1' - O4' - C4' ANGL. DEV. = 6.9 DEGREES REMARK 500 1 G A 9 C6 - N1 - C2 ANGL. DEV. = -6.6 DEGREES REMARK 500 1 G A 9 N1 - C2 - N3 ANGL. DEV. = 5.2 DEGREES REMARK 500 1 G A 9 C5 - C6 - N1 ANGL. DEV. = 5.9 DEGREES REMARK 500 1 G A 10 O4' - C4' - C3' ANGL. DEV. = -8.8 DEGREES REMARK 500 1 G A 10 C1' - O4' - C4' ANGL. DEV. = 6.9 DEGREES REMARK 500 1 G A 10 C6 - N1 - C2 ANGL. DEV. = -6.7 DEGREES REMARK 500 1 G A 10 N1 - C2 - N3 ANGL. DEV. = 5.2 DEGREES REMARK 500 1 G A 10 C5 - C6 - N1 ANGL. DEV. = 6.0 DEGREES REMARK 500 1 G A 11 O4' - C4' - C3' ANGL. DEV. = -9.4 DEGREES REMARK 500 1 G A 11 C1' - O4' - C4' ANGL. DEV. = 6.9 DEGREES REMARK 500 1 G A 11 C6 - N1 - C2 ANGL. DEV. = -6.6 DEGREES REMARK 500 1 G A 11 N1 - C2 - N3 ANGL. DEV. = 5.2 DEGREES REMARK 500 1 G A 11 C5 - C6 - N1 ANGL. DEV. = 5.9 DEGREES REMARK 500 1 U A 12 O4' - C4' - C3' ANGL. DEV. = -12.7 DEGREES REMARK 500 1 C A 13 O4' - C4' - C3' ANGL. DEV. = -9.8 DEGREES REMARK 500 1 C A 13 C1' - O4' - C4' ANGL. DEV. = 6.9 DEGREES REMARK 500 1 A A 14 O4' - C4' - C3' ANGL. DEV. = -7.8 DEGREES REMARK 500 1 A A 14 C1' - O4' - C4' ANGL. DEV. = 7.3 DEGREES REMARK 500 1 G A 15 O4' - C4' - C3' ANGL. DEV. = -8.5 DEGREES REMARK 500 1 G A 15 C1' - O4' - C4' ANGL. DEV. = 7.0 DEGREES REMARK 500 1 G A 15 C6 - N1 - C2 ANGL. DEV. = -6.6 DEGREES REMARK 500 1 G A 15 N1 - C2 - N3 ANGL. DEV. = 5.2 DEGREES REMARK 500 1 G A 15 C5 - C6 - N1 ANGL. DEV. = 5.9 DEGREES REMARK 500 1 G A 16 O4' - C4' - C3' ANGL. DEV. = -11.6 DEGREES REMARK 500 1 G A 16 C1' - O4' - C4' ANGL. DEV. = 6.0 DEGREES REMARK 500 1 G A 16 C6 - N1 - C2 ANGL. DEV. = -6.6 DEGREES REMARK 500 1 G A 16 N1 - C2 - N3 ANGL. DEV. = 5.2 DEGREES REMARK 500 1 G A 16 C5 - C6 - N1 ANGL. DEV. = 5.9 DEGREES REMARK 500 1 A A 17 O4' - C4' - C3' ANGL. DEV. = -8.8 DEGREES REMARK 500 1 A A 17 C1' - O4' - C4' ANGL. DEV. = 7.1 DEGREES REMARK 500 1 G A 18 O4' - C4' - C3' ANGL. DEV. = -8.9 DEGREES REMARK 500 1 G A 18 C1' - O4' - C4' ANGL. DEV. = 6.9 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 1590 ANGLE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 17601 RELATED DB: BMRB DBREF 2LC8 A 1 63 PDB 2LC8 2LC8 1 63 SEQRES 1 A 63 G G A G G U C A G G G U C SEQRES 2 A 63 A G G A G C C C C C C C C SEQRES 3 A 63 U G A A C C C A G G A U A SEQRES 4 A 63 A C C C U C A A A G U C G SEQRES 5 A 63 G G G G G C A A 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 MODEL 1