HEADER RNA 02-MAY-97 1AJF TITLE SOLUTION STRUCTURE OF THE P5B STEM LOOP FROM A GROUP I INTRON TITLE 2 COMPLEXED WITH COBALT (III) HEXAMMINE, NMR, MINIMIZED AVERAGE TITLE 3 STRUCTURE COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA (5'- COMPND 3 R(*GP*AP*CP*AP*GP*GP*GP*GP*AP*AP*AP*CP*UP*UP*UP*GP*UP*C)-3'); COMPND 4 CHAIN: A; COMPND 5 FRAGMENT: TETRALOOP OF TETRALOOP-TETRALOOP RECEPTOR TERTIARY COMPND 6 INTERACTION; COMPND 7 SYNONYM: GAAA TETRALOOP OF A GROUP I INTRON; COMPND 8 ENGINEERED: YES; COMPND 9 MUTATION: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 4 ORGANISM_TAXID: 32630; SOURCE 5 OTHER_DETAILS: SYNTHESIZED ENZYMATICALLY IN-VITRO USING T7 RNA SOURCE 6 POLYMERASE KEYWDS RIBONUCLEIC ACID, COBALT (III) HEXAMMINE, METAL BINDING, RNA KEYWDS 2 STRUCTURE, RNA EXPDTA SOLUTION NMR AUTHOR J.S.KIEFT,I.TINOCO JUNIOR REVDAT 4 27-OCT-21 1AJF 1 SOURCE REMARK LINK REVDAT 3 24-FEB-09 1AJF 1 VERSN REVDAT 2 01-APR-03 1AJF 1 JRNL REVDAT 1 07-JUL-97 1AJF 0 JRNL AUTH J.S.KIEFT,I.TINOCO JR. JRNL TITL SOLUTION STRUCTURE OF A METAL-BINDING SITE IN THE MAJOR JRNL TITL 2 GROOVE OF RNA COMPLEXED WITH COBALT (III) HEXAMMINE. JRNL REF STRUCTURE V. 5 713 1997 JRNL REFN ISSN 0969-2126 JRNL PMID 9195889 JRNL DOI 10.1016/S0969-2126(97)00225-6 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.1 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REFINEMENT DETAILS CAN BE FOUND IN THE REMARK 3 JRNL CITATION ABOVE. REMARK 4 REMARK 4 1AJF COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL. REMARK 100 THE DEPOSITION ID IS D_1000170890. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 283 REMARK 210 PH : 6.4 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : NULL REMARK 210 SAMPLE CONTENTS : NULL REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : DQF-COSY; D2O NOESY; H2O NOESY; REMARK 210 13C-1H HMQC REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : AMX; GN REMARK 210 SPECTROMETER MANUFACTURER : BRUKER; GE REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : FELIX 95, X-PLOR 3.1, DISCOVER REMARK 210 BIOSYM REMARK 210 METHOD USED : RESTRAINED MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 32 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 1 REMARK 210 CONFORMERS, SELECTION CRITERIA : NOE ENERGY (LEAST RESTRAINT REMARK 210 VIOLATIONS), TOTAL 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 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 O6 G A 7 H41 C A 12 1.60 REMARK 500 REMARK 500 REMARK: NULL REMARK 620 REMARK 620 METAL COORDINATION REMARK 620 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 620 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE): REMARK 620 REMARK 620 COORDINATION ANGLES FOR: M RES CSSEQI METAL REMARK 620 NCO A 19 CO REMARK 620 N RES CSSEQI ATOM REMARK 620 1 G A 6 N7 REMARK 620 2 NCO A 19 N1 106.5 REMARK 620 3 NCO A 19 N2 75.8 177.5 REMARK 620 4 NCO A 19 N3 131.4 92.7 85.0 REMARK 620 5 NCO A 19 N4 53.6 81.9 100.3 173.9 REMARK 620 6 NCO A 19 N5 121.9 100.2 79.1 96.8 81.4 REMARK 620 7 NCO A 19 N6 55.0 80.5 100.4 86.4 95.5 176.8 REMARK 620 N 1 2 3 4 5 6 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 19 DBREF 1AJF A 1 18 PDB 1AJF 1AJF 1 18 SEQRES 1 A 18 G A C A G G G G A A A C U SEQRES 2 A 18 U U G U C HET NCO A 19 25 HETNAM NCO COBALT HEXAMMINE(III) FORMUL 2 NCO CO H18 N6 3+ LINK N7 G A 6 CO NCO A 19 1555 1555 3.11 SITE 1 AC1 6 G A 5 G A 6 G A 7 G A 8 SITE 2 AC1 6 C A 12 U A 13 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