1JUA - Header Asymmetric Unit

HEADER DNA 24-AUG-01 1JUA

TITLE SOLUTION STRUCTURE OF THE DEOXYRIBOSE HIV-1LAI INITIATION TITLE 2 SEQUENCE STABLE DIMER

COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'- COMPND 3 D(*CP*TP*TP*GP*CP*TP*GP*AP*AP*GP*CP*GP*CP*GP*CP*AP*CP*GP*GP COMPND 4 *CP*AP*AP*G)-3'; COMPND 5 CHAIN: A, B; COMPND 6 ENGINEERED: YES; COMPND 7 OTHER_DETAILS: DSL1 STABLE DIMER

SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES

KEYWDS HIV, SL1, DNA, KISSING-COMPLEX, LOOP-LOOP DIMER, STABLE KEYWDS 2 DIMER

EXPDTA SOLUTION NMR

NUMMDL 13

AUTHOR F.BARBAULT,T.HUYNH-DINH,J.PAOLETTI,G.LANCELOT

REVDAT 2 24-FEB-09 1JUA 1 VERSN REVDAT 1 20-JAN-04 1JUA 0

JRNL AUTH F.BARBAULT,T.HUYNH-DINH,J.PAOLETTI,G.LANCELOT JRNL TITL A NEW PECULIAR DNA STRUCTURE: NMR SOLUTION JRNL TITL 2 STRUCTURE OF A DNA KISSING COMPLEX. JRNL REF J.BIOMOL.STRUCT.DYN. V. 19 649 2002 JRNL REFN ISSN 0739-1102 JRNL PMID 11843626

REMARK 1

REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.

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

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

REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 31-AUG-01. REMARK 100 THE RCSB ID CODE IS RCSB014193.

REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 278; 300 REMARK 210 PH : 5.8; 5.8 REMARK 210 IONIC STRENGTH : 50MM NACL; 50MM NACL REMARK 210 PRESSURE : AMBIENT; AMBIENT REMARK 210 SAMPLE CONTENTS : 2.7MM OLIGONUCLEOTIDE 10 MM REMARK 210 PHOSPHATE BUFFER 50 MM NACL; REMARK 210 2.7MM OLIGONUCLEOTIDE 10 MM REMARK 210 PHOSPHATE BUFFER 50 MM NACL REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY, DQF-COSY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : VNMR, CNS 1.0, RELAZ 1.0 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 RELAXATION MATRIX REFINEMENT REMARK 210 CHEMICAL SHIFTS BACK- REMARK 210 CALCULATION REFINEMENT REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 13 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 13 REMARK 210 CONFORMERS, SELECTION CRITERIA : BACK CALCULATED DATA AGREE REMARK 210 WITH EXPERIMENTAL NOESY REMARK 210 SPECTRUM, STRUCTURES WITH REMARK 210 ACCEPTABLE COVALENT GEOMETRY, REMARK 210 STRUCTURES WITH THE LEAST REMARK 210 RESTRAINT VIOLATIONS, REMARK 210 STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 9 REMARK 210 REMARK 210 REMARK: THIS STRUCTURE WAS DETERMINED USING STANDARD 2D REMARK 210 HOMONUCLEAR TECHNIQUES.

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 9 DG A 12 O4' - C1' - N9 ANGL. DEV. = 2.3 DEGREES REMARK 500 9 DC A 13 O4' - C1' - N1 ANGL. DEV. = 2.7 DEGREES REMARK 500 9 DC A 15 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 9 DG B 12 O4' - C1' - N9 ANGL. DEV. = 2.3 DEGREES REMARK 500 9 DC B 13 O4' - C1' - N1 ANGL. DEV. = 2.7 DEGREES REMARK 500 9 DC B 15 O4' - C1' - N1 ANGL. DEV. = 2.1 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 9 DC A 11 0.08 SIDE_CHAIN REMARK 500 9 DG A 12 0.07 SIDE_CHAIN REMARK 500 9 DC A 13 0.11 SIDE_CHAIN REMARK 500 9 DC B 11 0.08 SIDE_CHAIN REMARK 500 9 DG B 12 0.07 SIDE_CHAIN REMARK 500 9 DC B 13 0.11 SIDE_CHAIN REMARK 500 REMARK 500 REMARK: NULL

REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1JTJ RELATED DB: PDB REMARK 900 SOLUTION STRUCTURE OF HIV-1LAI MUTATED SL1 HAIRPIN REMARK 900 RELATED ID: 1JU0 RELATED DB: PDB REMARK 900 NMR SOLUTION STRUCTURE OF A DNA KISSING COMPLEX REMARK 900 RELATED ID: 1JU1 RELATED DB: PDB REMARK 900 DIMER INITIATION SEQUENCE OF HIV-1LAI GENOMIC RNA : NMR REMARK 900 SOLUTION STRUCTURE OF THE EXTENDED DUPLEX

DBREF 1JUA A 1 23 PDB 1JUA 1JUA 1 23 DBREF 1JUA B 1 23 PDB 1JUA 1JUA 1 23

SEQRES 1 A 23 DC DT DT DG DC DT DG DA DA DG DC DG DC SEQRES 2 A 23 DG DC DA DC DG DG DC DA DA DG SEQRES 1 B 23 DC DT DT DG DC DT DG DA DA DG DC DG DC SEQRES 2 B 23 DG DC DA DC DG DG DC DA DA DG

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