2RQJ - Header Asymmetric Unit

HEADER RNA 18-JUL-09 2RQJ

TITLE QUADRUPLEX STRUCTURE OF AN RNA APTAMER AGAINST BOVINE PRION TITLE 2 PROTEIN

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

SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES

KEYWDS APTAMER, PRION, QUADRUPLEX, RNA

EXPDTA SOLUTION NMR

NUMMDL 9

AUTHOR M.KATAHIRA,T.MASHIMA,A.MATSUGAMI,F.NISHIKAWA,S.NISHIKAWA

REVDAT 1 17-NOV-09 2RQJ 0

JRNL AUTH T.MASHIMA,A.MATSUGAMI,F.NISHIKAWA,S.NISHIKAWA, JRNL AUTH 2 M.KATAHIRA JRNL TITL UNIQUE QUADRUPLEX STRUCTURE AND INTERACTION OF AN JRNL TITL 2 RNA APTAMER AGAINST BOVINE PRION PROTEIN JRNL REF NUCLEIC ACIDS RES. V. 37 6249 2009 JRNL REFN ISSN 0305-1048 JRNL PMID 19666719 JRNL DOI 10.1093/NAR/GKP647

REMARK 1

REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.

REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR_NIH 2.20 REMARK 3 AUTHORS : SCHWIETERS, KUSZEWSKI, TJANDRA AND CLORE REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL

REMARK 4 REMARK 4 2RQJ COMPLIES WITH FORMAT V. 3.20, 01-DEC-08

REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 03-AUG-09. REMARK 100 THE RCSB ID CODE IS RCSB150165.

REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 278; 303 REMARK 210 PH : 6.2; 6.2 REMARK 210 IONIC STRENGTH : 0.1; 0.1 REMARK 210 PRESSURE : AMBIENT ATM; AMBIENT ATM REMARK 210 SAMPLE CONTENTS : 1MM RNA-1, 10MM POTASSIUM REMARK 210 PHOSPHATE-2, 100MM POTASSIUM REMARK 210 CHLORIDE-3, 0.01MM DSS-4, 3MM REMARK 210 SODIUM AZIDE-5, 95% H2O/5% REMARK 210 D2O; 1MM RNA-6, 10MM POTASSIUM REMARK 210 PHOSPHATE-7, 100MM POTASSIUM REMARK 210 CHLORIDE-8, 0.01MM DSS-9, 3MM REMARK 210 SODIUM AZIDE-10, 95% H2O/5% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-1H NOESY; 2D 1H-1H REMARK 210 TOCSY; 2D DQF-COSY; 2D 1H-13C REMARK 210 HSQC; JRHMBC REMARK 210 SPECTROMETER FIELD STRENGTH : 800 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : X-PLOR_NIH 2.20, XWINNMR, REMARK 210 TOPSPIN, SPARKY, NMRPIPE, PIPP REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 200 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 9 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: 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 6 O2' G B 22 1.36 REMARK 500 HO2' G A 10 HO2' A B 18 1.38 REMARK 500 HO2' G A 4 N1 A A 6 1.39 REMARK 500 HO2' G A 1 OP2 G A 2 1.39 REMARK 500 HO2' G A 10 O2' A B 18 1.39 REMARK 500 O2' A A 6 HO2' G B 22 1.41 REMARK 500 HO2' G B 16 N1 A B 18 1.41 REMARK 500 HO2' G A 4 HO5' G B 13 1.44 REMARK 500 HO2' A A 6 HO2' G B 22 1.45 REMARK 500 HO2' G B 13 OP2 G B 14 1.48 REMARK 500 HO2' G A 1 OP2 G A 2 1.49 REMARK 500 OP1 G A 2 H61 A A 3 1.49 REMARK 500 HO2' G A 1 OP2 G A 2 1.50 REMARK 500 HO2' G B 19 O5' G B 20 1.50 REMARK 500 HO2' G A 4 N1 A A 6 1.51 REMARK 500 HO2' G B 23 O5' A B 24 1.52 REMARK 500 HO2' G A 1 O5' G A 2 1.54 REMARK 500 HO2' A A 6 H22 G B 22 1.56 REMARK 500 O2' G B 16 H5' G B 17 1.56 REMARK 500 HO2' G A 7 OP2 G A 8 1.57 REMARK 500 N7 G A 1 H21 G A 10 1.58 REMARK 500 N7 G B 13 H21 G B 22 1.58 REMARK 500 HO2' G A 7 O5' G A 8 1.58 REMARK 500 N7 G B 13 H21 G B 22 1.58 REMARK 500 O2' G A 10 HO2' A B 18 1.58 REMARK 500 N7 G A 1 H21 G A 10 1.59 REMARK 500 N7 G A 1 H21 G A 10 1.59 REMARK 500 N7 G B 13 H21 G B 22 1.59 REMARK 500 N7 G A 1 H21 G A 10 1.59 REMARK 500 N7 G A 1 H21 G A 10 1.59 REMARK 500 N7 G B 13 H21 G B 22 1.59 REMARK 500 N7 G A 1 H21 G A 10 1.60 REMARK 500 N7 G B 13 H21 G B 22 1.60 REMARK 500 N7 G A 1 H21 G A 10 1.60 REMARK 500 O2' A A 6 O2' G B 22 2.12 REMARK 500 O2' A A 6 O2' G B 22 2.14 REMARK 500 REMARK 500 REMARK: NULL

DBREF 2RQJ A 1 12 PDB 2RQJ 2RQJ 1 12 DBREF 2RQJ B 13 24 PDB 2RQJ 2RQJ 13 24

SEQRES 1 A 12 G G A G G A G G A G G A SEQRES 1 B 12 G G A G G A G G A G G A

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