HEADER RNA 20-FEB-01 1I4C TITLE THE SOLUTION STRUCTURE OF THE MINOR FAMILY OF THE MUTANT STEM LOOP C TITLE 2 5'UUA3' TRILOOP OF BROME MOSAIC VIRUS (+) STRAND RNA CAVEAT 1I4C INCORRECT CARBON CHIRAL CENTER(S) COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA (5'-R(*GP*GP*UP*GP*CP*UP*UP*AP*GP*CP*AP*CP*C)-3'); COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: THE MINOR STRUCTURAL FAMILY OF 5'UUA3' MUTANT TRILOOP. SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: THIS SEQUENCE IS A MUTANT TRILOOP OF WHICH WILD TYPE SOURCE 4 SEQUENCE IS NATURALLY OCCURED IN BMV (+) STRAND RNA KEYWDS RNA, STEM-LOOP, TRILOOP, REPLICATION, BMV, VIRUS EXPDTA SOLUTION NMR MDLTYP MINIMIZED AVERAGE AUTHOR I.TINOCO JR.,C.-H.KIM REVDAT 4 23-FEB-22 1I4C 1 REMARK ATOM REVDAT 3 24-FEB-09 1I4C 1 VERSN REVDAT 2 01-APR-03 1I4C 1 JRNL REVDAT 1 21-APR-01 1I4C 0 JRNL AUTH C.H.KIM,I.TINOCO JR. JRNL TITL STRUCTURAL AND THERMODYNAMIC STUDIES ON MUTANT RNA MOTIFS JRNL TITL 2 THAT IMPAIR THE SPECIFICITY BETWEEN A VIRAL REPLICASE AND JRNL TITL 3 ITS PROMOTER. JRNL REF J.MOL.BIOL. V. 307 827 2001 JRNL REFN ISSN 0022-2836 JRNL PMID 11273704 JRNL DOI 10.1006/JMBI.2001.4497 REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH C.C.KAO REMARK 1 TITL RNA MOTIFS THAT DETERMINE SPECIFICITY BETWEEN A VIRAL REMARK 1 TITL 2 REPLICASE AND ITS PROMOTER REMARK 1 REF NAT.STRUCT.BIOL. V. 7 415 2000 REMARK 1 REFN ISSN 1072-8368 REMARK 1 DOI 10.1038/75202 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : FELIX 95, X-PLOR 3.1 REMARK 3 AUTHORS : BRUNGER, A. (X-PLOR) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1I4C COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 22-FEB-01. REMARK 100 THE DEPOSITION ID IS D_1000012887. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 283 REMARK 210 PH : 6.5 REMARK 210 IONIC STRENGTH : 5MM NACL REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 2MM 5'UUA3' TRILOOP, UNLABELED, REMARK 210 5MM SODIUM PHOSPHATE BUFFER PH REMARK 210 6.5 REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY; DQF-COSY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE; AMX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : X-PLOR 3.1 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : NULL REMARK 210 CONFORMERS, NUMBER SUBMITTED : 1 REMARK 210 CONFORMERS, SELECTION CRITERIA : NULL 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 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 HO2' A A 11 O4' C A 12 1.52 REMARK 500 HO2' G A 9 OP1 C A 10 1.59 REMARK 500 REMARK 500 REMARK: NULL 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 G A 1 O5' G A 1 C5' 18.176 REMARK 500 G A 1 C4' G A 1 C3' 18.609 REMARK 500 G A 1 C2' G A 1 C1' 18.823 REMARK 500 G A 1 C1' G A 1 N9 18.934 REMARK 500 G A 1 C2' G A 1 O2' 18.854 REMARK 500 C A 10 P C A 10 OP2 18.088 REMARK 500 C A 13 O3' C A 13 C3' 19.005 REMARK 500 C A 13 C2' C A 13 O2' 18.253 REMARK 500 REMARK 500 REMARK: NULL 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 G A 1 O5' - C5' - C4' ANGL. DEV. = -8.3 DEGREES REMARK 500 G A 1 C5' - C4' - C3' ANGL. DEV. = -32.9 DEGREES REMARK 500 G A 1 C4' - C3' - O3' ANGL. DEV. = -13.4 DEGREES REMARK 500 G A 1 C3' - C2' - C1' ANGL. DEV. = -21.0 DEGREES REMARK 500 G A 1 N9 - C1' - C2' ANGL. DEV. = 105.0 DEGREES REMARK 500 G A 1 C1' - C2' - O2' ANGL. DEV. = 103.7 DEGREES REMARK 500 G A 1 C3' - C2' - O2' ANGL. DEV. = -32.5 DEGREES REMARK 500 G A 1 C8 - N9 - C1' ANGL. DEV. = -54.4 DEGREES REMARK 500 G A 1 C4 - N9 - C1' ANGL. DEV. = -51.9 DEGREES REMARK 500 C A 10 O3' - P - OP2 ANGL. DEV. = -60.4 DEGREES REMARK 500 C A 10 OP1 - P - OP2 ANGL. DEV. = -34.4 DEGREES REMARK 500 C A 10 O5' - P - OP2 ANGL. DEV. = -31.6 DEGREES REMARK 500 C A 13 C4' - C3' - O3' ANGL. DEV. = -82.8 DEGREES REMARK 500 C A 13 C2' - C3' - O3' ANGL. DEV. = -21.6 DEGREES REMARK 500 C A 13 C1' - C2' - O2' ANGL. DEV. = -98.5 DEGREES REMARK 500 C A 13 C3' - C2' - O2' ANGL. DEV. = -18.4 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 G A 1 1.09 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1ESH RELATED DB: PDB REMARK 900 THE SOLUTION STRUCTURE OF THE WILD TYPE STEM LOOP C 5'AUA3' TRILOOP REMARK 900 OF BROME MOSAIC VIRUS (+) RNA. REMARK 900 RELATED ID: 1I46 RELATED DB: PDB REMARK 900 THE SOLUTION STRUCTURE OF THE MUTANT STEM LOOP C 5'GUA3' TRILOOP OF REMARK 900 BROME MOSAIC VIRUS (+) RNA REMARK 900 RELATED ID: 1I4B RELATED DB: PDB REMARK 900 THE SOLUTION STRUCTURE OF THE MAJOR FAMILY OF THE MUTANT STEM LOOP REMARK 900 C 5'UUA3' TRILOOP OF BROME MOSAIC VIRUS (+) RNA DBREF 1I4C A 1 13 PDB 1I4C 1I4C 1 13 SEQRES 1 A 13 G G U G C U U A G C A 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