1EKA - Header Asymmetric Unit

HEADER RNA 07-MAR-00 1EKA

TITLE NMR AND MOLECULAR MODELING REVEAL THAT DIFFERENT HYDROGEN TITLE 2 BONDING PATTERNS ARE POSSIBLE FOR GU PAIRS: ONE HYDROGEN TITLE 3 BOND FOR EACH GU PAIR IN R(GGCGUGCC)2 AND TWO FOR EACH GU TITLE 4 PAIR IN R(GAGUGCUC)2

COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA (5'-R(*GP*AP*GP*UP*GP*CP*UP*C)-3'); COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES

SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES

KEYWDS RNA, GU PAIR, HYDROGEN BONDS, DUBLE HELIX

EXPDTA SOLUTION NMR

MDLTYP MINIMIZED AVERAGE

AUTHOR X.CHEN,J.A.MCDOWELL,R.KIERZEK,T.R.KRUGH,D.H.TURNER

REVDAT 2 24-FEB-09 1EKA 1 VERSN REVDAT 1 13-NOV-00 1EKA 0

JRNL AUTH X.CHEN,J.A.MCDOWELL,R.KIERZEK,T.R.KRUGH,D.H.TURNER JRNL TITL NUCLEAR MAGNETIC RESONANCE SPECTROSCOPY AND JRNL TITL 2 MOLECULAR MODELING REVEAL THAT DIFFERENT HYDROGEN JRNL TITL 3 BONDING PATTERNS ARE POSSIBLE FOR G.U PAIRS: ONE JRNL TITL 4 HYDROGEN BOND FOR EACH G.U PAIR IN R(GGCGUGCC)(2) JRNL TITL 5 AND TWO FOR EACH G.U PAIR IN R(GAGUGCUC)(2). JRNL REF BIOCHEMISTRY V. 39 8970 2000 JRNL REFN ISSN 0006-2960 JRNL PMID 10913310 JRNL DOI 10.1021/BI992938E

REMARK 1

REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.

REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : NULL REMARK 3 AUTHORS : NULL REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL

REMARK 4 REMARK 4 1EKA COMPLIES WITH FORMAT V. 3.15, 01-DEC-08

REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 08-MAR-00. REMARK 100 THE RCSB ID CODE IS RCSB010668.

REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 32 REMARK 210 PH : 7 REMARK 210 IONIC STRENGTH : 0.1M REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 3.5 MM RNA OLIGOMER; 1.5 MM REMARK 210 RNA OLIGOMER REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : NULL REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ REMARK 210 SPECTROMETER MODEL : UNITYPLUS, INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : SIMULATED ANNEALING, REMARK 210 MOLECULAR DYNAMICS, ENERGY REMARK 210 MINIMIZATION 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 : NULL 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 U A 4 O4' - C1' - N1 ANGL. DEV. = 5.5 DEGREES REMARK 500 G A 5 O4' - C1' - N9 ANGL. DEV. = 4.2 DEGREES REMARK 500 C A 6 O4' - C1' - N1 ANGL. DEV. = 4.7 DEGREES REMARK 500 U B 4 O4' - C1' - N1 ANGL. DEV. = 5.2 DEGREES REMARK 500 C B 6 O4' - C1' - N1 ANGL. DEV. = 4.4 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 U A 7 0.06 SIDE_CHAIN REMARK 500 U B 7 0.07 SIDE_CHAIN REMARK 500 REMARK 500 REMARK: NULL

DBREF 1EKA A 1 8 PDB 1EKA 1EKA 1 8 DBREF 1EKA B 1 8 PDB 1EKA 1EKA 1 8

SEQRES 1 A 8 G A G U G C U C SEQRES 1 B 8 G A G U G C U 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