HEADER RNA 09-AUG-08 2K7E TITLE NMR STRUCTURE OF THE HUMAN TRNALYS3 BOUND TO THE HIV GENOME LOOP I COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA (5'-R(*GP*CP*GP*GP*UP*GP*UP*AP*AP*AP*AP*G)-3'); COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: HIV A-LOOP; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: RNA (5'-R(*CP*UP*(SUR)P*UP*UP*AP*AP*(PSU)P*CP*UP*GP*C)-3'); COMPND 8 CHAIN: B; COMPND 9 ENGINEERED: YES; COMPND 10 OTHER_DETAILS: TRNALYS3 ASL SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2; SOURCE 4 SYNTHETIC: YES KEYWDS RNA, TRNALYS3, PSEUDOURIDINE, HIV, 2-THIOURIDINE, S2U, PSU, KEYWDS 2 MODIFICATIONS EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR Y.BILBILLE,F.P.A.VENDEIX,R.GUENTHER,A.MALKIEWICZ,X.ARIZA,J.VILARRASA, AUTHOR 2 P.AGRIS REVDAT 4 16-MAR-22 2K7E 1 REMARK LINK REVDAT 3 02-FEB-10 2K7E 1 JRNL REVDAT 2 24-FEB-09 2K7E 1 VERSN REVDAT 1 07-OCT-08 2K7E 0 JRNL AUTH Y.BILBILLE,F.A.VENDEIX,R.GUENTHER,A.MALKIEWICZ,X.ARIZA, JRNL AUTH 2 J.VILARRASA,P.F.AGRIS JRNL TITL THE STRUCTURE OF THE HUMAN TRNALYS3 ANTICODON BOUND TO THE JRNL TITL 2 HIV GENOME IS STABILIZED BY MODIFIED NUCLEOSIDES AND JRNL TITL 3 ADJACENT MISMATCH BASE PAIRS. JRNL REF NUCLEIC ACIDS RES. V. 37 3342 2009 JRNL REFN ISSN 0305-1048 JRNL PMID 19324888 JRNL DOI 10.1093/NAR/GKP187 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : CNS 1.1, CNS 1.1 REMARK 3 AUTHORS : BRUNGER, ADAMS, CLORE, GROS, NILGES AND READ REMARK 3 (CNS), BRUNGER, ADAMS, CLORE, GROS, NILGES AND REMARK 3 READ (CNS) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2K7E COMPLIES WITH FORMAT V. 3.15, 01-DEC-08 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 11-AUG-08. REMARK 100 THE DEPOSITION ID IS D_1000100769. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 276; 293 REMARK 210 PH : 6.5; 6.5 REMARK 210 IONIC STRENGTH : 0.1; 0.1 REMARK 210 PRESSURE : AMBIENT; AMBIENT REMARK 210 SAMPLE CONTENTS : 0.3 MM RNA (5' REMARK 210 -R(*GP*CP*GP*GP*UP*GP*UP*AP*AP*AP*AP*G)-3'), 0.3 MM T-RNA (5'-R(* REMARK 210 CP*UP*(SUR)P*UP*UP*AP*AP*(PSU)P*CP*UP*GP*C)-3'), 10 MM SODIUM REMARK 210 PHOSPHATE, 100 MM SODIUM CHLORIDE, 90% H2O/10% D2O; 0.3 MM RNA REMARK 210 (5'-R(*GP*CP*GP*GP*UP*GP*UP*AP*AP*AP*AP*G)-3'), 0.3 MM T-RNA (5'- REMARK 210 R(*CP*UP*(SUR)P*UP*UP*AP*AP*(PSU)P*CP*UP*GP*C)-3'), 10 MM SODIUM REMARK 210 PHOSPHATE, 100 MM SODIUM CHLORIDE, 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-1H NOESY; 2D 1H-13C HSQC; REMARK 210 2D DQF-COSY; 2D 1H-15N HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ; 600 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE; INOVA REMARK 210 SPECTROMETER MANUFACTURER : BRUKER; VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : SPARKY, MOLMOL, NMRDRAW, REMARK 210 NMRPIPE, NMRVIEW, XWINNMR REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT VIOLATIONS 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 H61 A A 10 O4 SUR B 3 1.60 REMARK 500 REMARK 500 REMARK: NULL DBREF 2K7E A 1 12 PDB 2K7E 2K7E 1 12 DBREF 2K7E B 1 12 PDB 2K7E 2K7E 1 12 SEQRES 1 A 12 G C G G U G U A A A A G SEQRES 1 B 12 C U SUR U U A A PSU C U G C MODRES 2K7E SUR B 3 U MODRES 2K7E PSU B 8 U PSEUDOURIDINE-5'-MONOPHOSPHATE HET SUR B 3 30 HET PSU B 8 30 HETNAM SUR 1-(BETA-D-RIBOFURANOSYL)-2-THIO-URACIL-5'-PHOSPHATE HETNAM PSU PSEUDOURIDINE-5'-MONOPHOSPHATE FORMUL 2 SUR C9 H13 N2 O8 P S FORMUL 2 PSU C9 H13 N2 O9 P LINK O3' U B 2 P SUR B 3 1555 1555 1.61 LINK O3' SUR B 3 P U B 4 1555 1555 1.61 LINK O3' A B 7 P PSU B 8 1555 1555 1.61 LINK O3' PSU B 8 P C B 9 1555 1555 1.61 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 MODEL 1