10 20 30 40 50 60 70 80 1F5H - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER RNA 14-JUN-00 1F5H
TITLE THE G7(SYN)-G4(ANTI) STRUCTURE OF R(GCAGGCGUGC)2
COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-R(*GP*CP*AP*GP*GP*CP*GP*UP*GP*C)-3'; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES
KEYWDS GUANINE-GUANINE, GG MISMATCH, CONFORMATIONAL EXCHANGE, BASE KEYWDS 2 FLIPPING, SYN GLYCOSIDIC TORSION, RNA
EXPDTA SOLUTION NMR
NUMMDL 26
MDLTYP MINIMIZED AVERAGE
AUTHOR M.E.BURKARD,D.H.TURNER
REVDAT 3 24-FEB-09 1F5H 1 VERSN REVDAT 2 05-APR-05 1F5H 1 JRNL REMARK REVDAT 1 26-JUN-00 1F5H 0
JRNL AUTH M.E.BURKARD,D.H.TURNER JRNL TITL NMR STRUCTURES OF R(GCAGGCGUGC)2 AND DETERMINANTS JRNL TITL 2 OF STABILITY FOR SINGLE GUANOSINE-GUANOSINE BASE JRNL TITL 3 PAIRS JRNL REF BIOCHEMISTRY V. 39 11748 2000 JRNL REFN ISSN 0006-2960 JRNL PMID 10995243 JRNL DOI 10.1021/BI000720I
REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH R.KIERZEK,M.E.BURKARD,D.H.TURNER REMARK 1 TITL THERMODYAMICS OF SINGLE MISMATCHES IN RNA DUPLEXES REMARK 1 REF BIOCHEMISTRY V. 38 14214 1999 REMARK 1 REFN ISSN 0006-2960 REMARK 1 DOI 10.1021/BI991186L
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : DISCOVER 95.0 REMARK 3 AUTHORS : BIOSYM REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE STRUCTURES ARE BASED ON 88 NOE REMARK 3 DISTANCE RESTRAINTS, 11 HYDROGEN-BOND RESTRAINTS FOR WATSON- REMARK 3 CRICK PAIRS, AND LOOSELY RESTRAINED TORSION ANGLES. 22 OF 25 REMARK 3 STRUCTURES WERE USED TO GENERATE THE MINIMIZED, AVERAGED REMARK 3 STRUCTURE. G4 WAS RESTRAINED TO THE SYN GLYCOSIDIC CONFORMATION
REMARK 4 REMARK 4 1F5H COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 15-JUN-00. REMARK 100 THE RCSB ID CODE IS RCSB011266.
REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 310.15 REMARK 210 PH : 7 REMARK 210 IONIC STRENGTH : 80 MM REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 80 MM NACL; 10 MM PHOSPHATE, REMARK 210 PH 7 REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY, DQF-COSY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : VNMR 5.2, FELIX 95.0, REMARK 210 DISCOVER 95.0 REMARK 210 METHOD USED : SIMULATED ANNEALING; ENERGY REMARK 210 MINIMIZATION REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 40 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 26 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY. FIRST MODEL REPRESENTS REMARK 210 THE MINIMIZED AVERAGED REMARK 210 STRUCTURE REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: THIS STRUCTURE WAS DETERMINED USING STANDARD 2D REMARK 210 HOMONUCLEAR TECHNIQUES
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 C A 2 O4' - C1' - N1 ANGL. DEV. = 4.6 DEGREES REMARK 500 1 G A 4 O4' - C1' - N9 ANGL. DEV. = 7.2 DEGREES REMARK 500 1 C A 6 O4' - C1' - N1 ANGL. DEV. = 5.0 DEGREES REMARK 500 1 U A 8 O4' - C1' - N1 ANGL. DEV. = 5.7 DEGREES REMARK 500 1 C B 2 O4' - C1' - N1 ANGL. DEV. = 4.2 DEGREES REMARK 500 1 G B 4 O4' - C1' - N9 ANGL. DEV. = 5.4 DEGREES REMARK 500 1 C B 6 O4' - C1' - N1 ANGL. DEV. = 4.4 DEGREES REMARK 500 1 U B 8 O4' - C1' - N1 ANGL. DEV. = 5.2 DEGREES REMARK 500 2 C A 2 O4' - C1' - N1 ANGL. DEV. = 4.5 DEGREES REMARK 500 2 G A 4 O4' - C1' - N9 ANGL. DEV. = 6.0 DEGREES REMARK 500 2 C A 6 O4' - C1' - N1 ANGL. DEV. = 4.4 DEGREES REMARK 500 2 U A 8 O4' - C1' - N1 ANGL. DEV. = 5.2 DEGREES REMARK 500 2 C B 2 O4' - C1' - N1 ANGL. DEV. = 4.2 DEGREES REMARK 500 2 G B 4 O4' - C1' - N9 ANGL. DEV. = 5.7 DEGREES REMARK 500 2 U B 8 O4' - C1' - N1 ANGL. DEV. = 4.9 DEGREES REMARK 500 3 C A 2 O4' - C1' - N1 ANGL. DEV. = 5.0 DEGREES REMARK 500 3 G A 4 O4' - C1' - N9 ANGL. DEV. = 6.8 DEGREES REMARK 500 3 C A 6 O4' - C1' - N1 ANGL. DEV. = 4.6 DEGREES REMARK 500 3 U A 8 O4' - C1' - N1 ANGL. DEV. = 5.1 DEGREES REMARK 500 3 C B 2 O4' - C1' - N1 ANGL. DEV. = 4.3 DEGREES REMARK 500 3 G B 4 O4' - C1' - N9 ANGL. DEV. = 5.7 DEGREES REMARK 500 3 C B 6 O4' - C1' - N1 ANGL. DEV. = 4.4 DEGREES REMARK 500 3 U B 8 O4' - C1' - N1 ANGL. DEV. = 4.7 DEGREES REMARK 500 4 C A 2 O4' - C1' - N1 ANGL. DEV. = 4.6 DEGREES REMARK 500 4 G A 4 O4' - C1' - N9 ANGL. DEV. = 7.0 DEGREES REMARK 500 4 C A 6 O4' - C1' - N1 ANGL. DEV. = 5.0 DEGREES REMARK 500 4 U A 8 O4' - C1' - N1 ANGL. DEV. = 5.6 DEGREES REMARK 500 4 G B 4 O4' - C1' - N9 ANGL. DEV. = 5.6 DEGREES REMARK 500 4 C B 6 O4' - C1' - N1 ANGL. DEV. = 4.3 DEGREES REMARK 500 4 U B 8 O4' - C1' - N1 ANGL. DEV. = 5.1 DEGREES REMARK 500 5 C A 2 O4' - C1' - N1 ANGL. DEV. = 5.1 DEGREES REMARK 500 5 A A 3 O4' - C1' - N9 ANGL. DEV. = 5.1 DEGREES REMARK 500 5 G A 4 O4' - C1' - N9 ANGL. DEV. = 4.9 DEGREES REMARK 500 5 C A 6 O4' - C1' - N1 ANGL. DEV. = 4.9 DEGREES REMARK 500 5 U A 8 O4' - C1' - N1 ANGL. DEV. = 5.6 DEGREES REMARK 500 5 C B 2 O4' - C1' - N1 ANGL. DEV. = 4.2 DEGREES REMARK 500 5 G B 4 O4' - C1' - N9 ANGL. DEV. = 5.6 DEGREES REMARK 500 5 C B 6 O4' - C1' - N1 ANGL. DEV. = 4.4 DEGREES REMARK 500 5 U B 8 O4' - C1' - N1 ANGL. DEV. = 4.6 DEGREES REMARK 500 6 C A 2 O4' - C1' - N1 ANGL. DEV. = 4.7 DEGREES REMARK 500 6 G A 4 O4' - C1' - N9 ANGL. DEV. = 7.4 DEGREES REMARK 500 6 C A 6 O4' - C1' - N1 ANGL. DEV. = 4.2 DEGREES REMARK 500 6 U A 8 O4' - C1' - N1 ANGL. DEV. = 5.1 DEGREES REMARK 500 6 C B 2 O4' - C1' - N1 ANGL. DEV. = 4.3 DEGREES REMARK 500 6 G B 4 O4' - C1' - N9 ANGL. DEV. = 7.0 DEGREES REMARK 500 6 C B 6 O4' - C1' - N1 ANGL. DEV. = 4.4 DEGREES REMARK 500 6 U B 8 O4' - C1' - N1 ANGL. DEV. = 5.1 DEGREES REMARK 500 7 C A 2 O4' - C1' - N1 ANGL. DEV. = 4.7 DEGREES REMARK 500 7 G A 4 O4' - C1' - N9 ANGL. DEV. = 5.6 DEGREES REMARK 500 7 G A 5 O4' - C1' - N9 ANGL. DEV. = 4.8 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 211 ANGLE DEVIATIONS. 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 1 G A 1 0.06 SIDE_CHAIN REMARK 500 1 G A 9 0.06 SIDE_CHAIN REMARK 500 1 G B 1 0.06 SIDE_CHAIN REMARK 500 1 G B 9 0.05 SIDE_CHAIN REMARK 500 2 G A 1 0.07 SIDE_CHAIN REMARK 500 2 G A 5 0.06 SIDE_CHAIN REMARK 500 2 G A 9 0.06 SIDE_CHAIN REMARK 500 2 G B 1 0.06 SIDE_CHAIN REMARK 500 2 G B 5 0.06 SIDE_CHAIN REMARK 500 3 G A 1 0.07 SIDE_CHAIN REMARK 500 3 G A 9 0.06 SIDE_CHAIN REMARK 500 3 G B 1 0.07 SIDE_CHAIN REMARK 500 3 G B 5 0.06 SIDE_CHAIN REMARK 500 3 G B 9 0.07 SIDE_CHAIN REMARK 500 4 G A 1 0.07 SIDE_CHAIN REMARK 500 4 G B 1 0.06 SIDE_CHAIN REMARK 500 5 A A 3 0.07 SIDE_CHAIN REMARK 500 5 G A 5 0.06 SIDE_CHAIN REMARK 500 5 G A 9 0.06 SIDE_CHAIN REMARK 500 5 G B 1 0.07 SIDE_CHAIN REMARK 500 6 G A 1 0.06 SIDE_CHAIN REMARK 500 6 G B 1 0.06 SIDE_CHAIN REMARK 500 6 G B 9 0.05 SIDE_CHAIN REMARK 500 7 G A 1 0.06 SIDE_CHAIN REMARK 500 7 A A 3 0.07 SIDE_CHAIN REMARK 500 7 G A 4 0.07 SIDE_CHAIN REMARK 500 7 G B 1 0.07 SIDE_CHAIN REMARK 500 7 G B 9 0.07 SIDE_CHAIN REMARK 500 8 A A 3 0.07 SIDE_CHAIN REMARK 500 8 G A 5 0.06 SIDE_CHAIN REMARK 500 8 G B 1 0.07 SIDE_CHAIN REMARK 500 9 G A 1 0.06 SIDE_CHAIN REMARK 500 9 G B 1 0.07 SIDE_CHAIN REMARK 500 10 G A 1 0.06 SIDE_CHAIN REMARK 500 10 G B 1 0.07 SIDE_CHAIN REMARK 500 11 A A 3 0.07 SIDE_CHAIN REMARK 500 11 G A 5 0.07 SIDE_CHAIN REMARK 500 11 G B 1 0.07 SIDE_CHAIN REMARK 500 12 G A 1 0.07 SIDE_CHAIN REMARK 500 12 A B 3 0.07 SIDE_CHAIN REMARK 500 12 G B 5 0.06 SIDE_CHAIN REMARK 500 12 G B 9 0.07 SIDE_CHAIN REMARK 500 13 G A 1 0.06 SIDE_CHAIN REMARK 500 13 A A 3 0.08 SIDE_CHAIN REMARK 500 13 G B 1 0.07 SIDE_CHAIN REMARK 500 13 G B 5 0.06 SIDE_CHAIN REMARK 500 14 G A 1 0.07 SIDE_CHAIN REMARK 500 14 G A 4 0.06 SIDE_CHAIN REMARK 500 14 G B 1 0.07 SIDE_CHAIN REMARK 500 15 G A 1 0.06 SIDE_CHAIN REMARK 500 15 A B 3 0.07 SIDE_CHAIN REMARK 500 15 G B 5 0.06 SIDE_CHAIN REMARK 500 16 G A 1 0.06 SIDE_CHAIN REMARK 500 16 A B 3 0.07 SIDE_CHAIN REMARK 500 16 G B 5 0.06 SIDE_CHAIN REMARK 500 17 G A 1 0.07 SIDE_CHAIN REMARK 500 17 G B 1 0.07 SIDE_CHAIN REMARK 500 17 C B 6 0.07 SIDE_CHAIN REMARK 500 18 G A 1 0.07 SIDE_CHAIN REMARK 500 18 A B 3 0.08 SIDE_CHAIN REMARK 500 18 G B 5 0.06 SIDE_CHAIN REMARK 500 18 G B 9 0.06 SIDE_CHAIN REMARK 500 19 G A 1 0.06 SIDE_CHAIN REMARK 500 19 G B 1 0.06 SIDE_CHAIN REMARK 500 19 A B 3 0.08 SIDE_CHAIN REMARK 500 19 G B 5 0.07 SIDE_CHAIN REMARK 500 20 G A 1 0.06 SIDE_CHAIN REMARK 500 20 A A 3 0.07 SIDE_CHAIN REMARK 500 20 G A 4 0.07 SIDE_CHAIN REMARK 500 20 G A 9 0.05 SIDE_CHAIN REMARK 500 20 G B 1 0.07 SIDE_CHAIN REMARK 500 20 A B 3 0.06 SIDE_CHAIN REMARK 500 20 G B 9 0.07 SIDE_CHAIN REMARK 500 21 G A 1 0.06 SIDE_CHAIN REMARK 500 21 A B 3 0.07 SIDE_CHAIN REMARK 500 21 G B 5 0.07 SIDE_CHAIN REMARK 500 22 G A 1 0.06 SIDE_CHAIN REMARK 500 22 G A 5 0.06 SIDE_CHAIN REMARK 500 22 A B 3 0.07 SIDE_CHAIN REMARK 500 22 G B 5 0.07 SIDE_CHAIN REMARK 500 23 G A 4 0.07 SIDE_CHAIN REMARK 500 23 G A 5 0.06 SIDE_CHAIN REMARK 500 23 G A 9 0.05 SIDE_CHAIN REMARK 500 23 G B 1 0.07 SIDE_CHAIN REMARK 500 23 G B 9 0.07 SIDE_CHAIN REMARK 500 24 G A 1 0.06 SIDE_CHAIN REMARK 500 24 G A 5 0.06 SIDE_CHAIN REMARK 500 24 G B 1 0.07 SIDE_CHAIN REMARK 500 25 A A 3 0.06 SIDE_CHAIN REMARK 500 25 G A 5 0.06 SIDE_CHAIN REMARK 500 25 G B 1 0.06 SIDE_CHAIN REMARK 500 26 G A 1 0.07 SIDE_CHAIN REMARK 500 26 A B 3 0.07 SIDE_CHAIN REMARK 500 26 G B 5 0.06 SIDE_CHAIN REMARK 500 REMARK 500 REMARK: NULL
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1F5G RELATED DB: PDB REMARK 900 THE G7(SYN)-G4(ANTI) STRUCTURE OF R(GCAGGCGUGC)2
DBREF 1F5H A 1 10 PDB 1F5H 1F5H 1 10 DBREF 1F5H B 1 10 PDB 1F5H 1F5H 1 10
SEQRES 1 A 10 G C A G G C G U G C SEQRES 1 B 10 G C A G G C G U G 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