1XSU - Header Asymmetric Unit

HEADER RNA 20-OCT-04 1XSU

TITLE SOLUTION STRUCTURE OF E.COLI RNASE P RNA P4 STEM, U69C/C70U TITLE 2 MUTATION, COMPLEXED WITH COBALT (III) HEXAMMINE.

COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA (27-MER); COMPND 3 CHAIN: A; COMPND 4 SYNONYM: RNASE P RNA P4 STEM; COMPND 5 ENGINEERED: YES; COMPND 6 MUTATION: YES

SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: ENZYMATICALLY SYNTHESIZED FROM DNA SOURCE 4 OLIGONUCLEOTIDE TEMPLATE NY T7 RNA POLYMERASE

KEYWDS RIBONUCLEASE P RNA, RIBOZYME, TRANSFER RNA PROCESSING, P4 KEYWDS 2 STEM, U69C/C70U MUTANT, METAL BINDING SITE, METAL COMPLEX, KEYWDS 3 COBALT (III) HEXAMMINE COMPLEX

EXPDTA SOLUTION NMR

MDLTYP MINIMIZED AVERAGE

AUTHOR M.SCHMITZ

REVDAT 2 24-FEB-09 1XSU 1 VERSN REVDAT 1 28-DEC-04 1XSU 0

JRNL AUTH M.SCHMITZ JRNL TITL CHANGE OF RNASE P RNA FUNCTION BY SINGLE BASE JRNL TITL 2 MUTATION CORRELATES WITH PERTURBATION OF METAL ION JRNL TITL 3 BINDING IN P4 AS DETERMINED BY NMR SPECTROSCOPY JRNL REF NUCLEIC ACIDS RES. V. 32 6358 2004 JRNL REFN ISSN 0305-1048 JRNL PMID 15576680 JRNL DOI 10.1093/NAR/GKH961

REMARK 1

REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.

REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.1 REMARK 3 AUTHORS : A. BRUENGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: THE AVERAGE STRUCTURE IS BASED ON REMARK 3 THE SUPERPOSITION OF 18 STRUCTURES AFTER REFINEMENT. THE REMARK 3 AVERAGE RMS DEVIATION BETWEEN THE ENSEMBLE AND THE AVERAGE REMARK 3 STRUCTURE IS 1.87 ANGSTROM. A TOTAL OF 261 NOE-DERIVED REMARK 3 DISTANCE CONSTRAINTS, 246 DIHEDRAL CONSTRAINTS AND 48 DISTANCE REMARK 3 CONSTRAINTS FROM HYDROGEN BONDS WERE USED IN REFINEMENT. 12 REMARK 3 NOE DERIVED INTERMOLECULAR DISTANCE CONSTRAINTS WERE USED TO REMARK 3 LOCALIZE THE BOUND COBALT (III) HEXAMMINE.

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

REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 25-OCT-04. REMARK 100 THE RCSB ID CODE IS RCSB030727.

REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 288; 288 REMARK 210 PH : 6.4; 6.4 REMARK 210 IONIC STRENGTH : 100 MM NACL; 100 MM NACL, 6 REMARK 210 MM CO(NH3)6CL REMARK 210 PRESSURE : AMBIENT; AMBIENT REMARK 210 SAMPLE CONTENTS : 2MM P4 U69C/C70U RNA; 100MM REMARK 210 NACL; 10MM PHOSPHATE BUFFER; REMARK 210 90% H2O, 10% D2O; 2MM P4 U69C/ REMARK 210 C70U RNA; 100MM NACL; 10MM REMARK 210 PHOSPHATE BUFFER; 100% D2O; REMARK 210 2MM P4 U69C/C70U RNA; 100MM REMARK 210 NACL; 6MM HEXAMMINE COBALT REMARK 210 CHLORIDE; 10MM PHOSPHATE REMARK 210 BUFFER; 90% H2O, 10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY, DQF-COSY, 31P-1H- REMARK 210 HETERO-COSY, 31P-1H-HETERO- REMARK 210 TOCSY-NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : DMX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XWINNMR 1.2, NMRPIPE 2.1, X- REMARK 210 PLOR 3.1 REMARK 210 METHOD USED : RESTRAINED MOLECULAR DYNAMICS REMARK 210 AND 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: THE STRUCTURE WAS DETERMINED USING STANDARD 2D REMARK 210 HOMONUCLEAR TECHNIQUES AS WELL AS 13C AND 31P HETERONUCLEAR REMARK 210 EXPERIMENTS PERFORMED AT NATURAL ABUNDANCE. INTERMOLECULAR NOE REMARK 210 CROSSPEAKS BETWEEN RNA PROTONS AND COBALT (III) HEXAMMINE REMARK 210 PROTONS AND INTERMOLECULAR DISTANCE CONSTRAINTS DERIVED REMARK 210 THEREOF WERE USED TO DETERMINE THE SITE OF COBALT (III) REMARK 210 HEXAMMINE BINDING.

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 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE NCO A 28

REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1F6X RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF WILDTYPE RNASE P RNA P4 REMARK 900 OLIGORIBONUCLEOTIDE REMARK 900 RELATED ID: 1F78 RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF WILDTYPE RNASE P RNA P4 REMARK 900 OLIGORIBONUCLEOTIDE, COMPLEXED WITH COBALT (III) HEXAMMINE REMARK 900 RELATED ID: 1F6Z RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF C70U MUTANT RNASE P RNA P4 REMARK 900 OLIGORIBONUCLEOTIDE REMARK 900 RELATED ID: 1F79 RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF C70U MUTANT RNASE P RNA P4 REMARK 900 OLIGORIBONUCLEOTIDE, COMPLEXED WITH COBALT (III) HEXAMMINE REMARK 900 RELATED ID: 1XST RELATED DB: PDB REMARK 900 U69A MUTATION

DBREF 1XSU A 1 27 PDB 1XSU 1XSU 1 27

SEQRES 1 A 27 G G A A G C U C G G U C U SEQRES 2 A 27 U C G G A C C G G C U U C SEQRES 3 A 27 C

HET NCO A 28 25

HETNAM NCO COBALT HEXAMMINE(III)

FORMUL 2 NCO CO H18 N6 3+

SITE 1 AC1 3 G A 9 G A 10 C A 19

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