10 20 30 40 50 60 70 80 1Z2J - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER RNA 08-MAR-05 1Z2J
TITLE SOLUTION STRUCTURE OF THE HIV-1 FRAMESHIFT INDUCING ELEMENT
COMPND MOL_ID: 1; COMPND 2 MOLECULE: HIV-1 FRAMESHIFT SITE RNA; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: RNA WAS PRODUCED FROM IN VITRO TRANSCRIPTON SOURCE 4 WITH T7 RNA PLOYMERASE FROM DNA TEMPLATES.
KEYWDS STEM-LOOP, PURINE BULGE, TETRALOOP, RNA
EXPDTA SOLUTION NMR
NUMMDL 20
AUTHOR D.W.STAPLE,S.E.BUTCHER
REVDAT 2 24-FEB-09 1Z2J 1 VERSN REVDAT 1 14-JUN-05 1Z2J 0
JRNL AUTH D.W.STAPLE,S.E.BUTCHER JRNL TITL SOLUTION STRUCTURE AND THERMODYNAMIC INVESTIGATION JRNL TITL 2 OF THE HIV-1 FRAMESHIFT INDUCING ELEMENT. JRNL REF J.MOL.BIOL. V. 349 1011 2005 JRNL REFN ISSN 0022-2836 JRNL PMID 15927637 JRNL DOI 10.1016/J.JMB.2005.03.038
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : XPLOR-NIH REMARK 3 AUTHORS : SCHWIETERS REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4 REMARK 4 1Z2J COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-MAR-05. REMARK 100 THE RCSB ID CODE IS RCSB032216.
REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 303; 283 REMARK 210 PH : 6.8; 6.8 REMARK 210 IONIC STRENGTH : 50 MM NACL; 50 MM NACL REMARK 210 PRESSURE : 1 ATM; 1 ATM REMARK 210 SAMPLE CONTENTS : ALL NMR SAMPLES WERE 1 MM REMARK 210 RNA, AND APPROXIMATELY 50 MM REMARK 210 NACL, 100% D2O; ALL NMR REMARK 210 SAMPLES WERE 1 MM RNA, AND REMARK 210 APPROXIMATELY 50 MM NACL, 90% REMARK 210 H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY, 2D TOCSY, 3D_13C- REMARK 210 SEPARATED_NOESY, HNN-COSY, REMARK 210 HCCH-TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ, 750 MHZ, 800 MHZ, REMARK 210 900 MHZ REMARK 210 SPECTROMETER MODEL : DMX, INOVA REMARK 210 SPECTROMETER MANUFACTURER : BRUKER, VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XWINNMR, NMRPIPE, SPARKY, CNS REMARK 210 METHOD USED : NULL REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : 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 : 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 O2' A A 22 O5' A A 23 2.02 REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: COVALENT BOND LENGTHS 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,2(A3,1X,A1,I4,A1,1X,A4,3X),1X,F6.3) 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 RES CSSEQI ATM2 DEVIATION REMARK 500 10 A A 33 C4' A A 33 C3' -0.064 REMARK 500 11 A A 33 C4' A A 33 C3' -0.062 REMARK 500 20 A A 33 C4' A A 33 C3' -0.071 REMARK 500 REMARK 500 REMARK: NULL 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 1 G A 11 C1' - O4' - C4' ANGL. DEV. = -4.6 DEGREES REMARK 500 2 G A 11 C1' - O4' - C4' ANGL. DEV. = -4.5 DEGREES REMARK 500 3 G A 11 C1' - O4' - C4' ANGL. DEV. = -4.6 DEGREES REMARK 500 3 A A 28 C1' - O4' - C4' ANGL. DEV. = -4.3 DEGREES REMARK 500 4 G A 11 C1' - O4' - C4' ANGL. DEV. = -4.9 DEGREES REMARK 500 5 G A 11 C1' - O4' - C4' ANGL. DEV. = -4.6 DEGREES REMARK 500 5 A A 28 C1' - O4' - C4' ANGL. DEV. = -4.2 DEGREES REMARK 500 5 C A 31 C1' - O4' - C4' ANGL. DEV. = -4.3 DEGREES REMARK 500 6 G A 11 C1' - O4' - C4' ANGL. DEV. = -4.3 DEGREES REMARK 500 7 G A 11 C1' - O4' - C4' ANGL. DEV. = -4.8 DEGREES REMARK 500 7 C A 31 C1' - O4' - C4' ANGL. DEV. = -4.2 DEGREES REMARK 500 8 G A 11 C1' - O4' - C4' ANGL. DEV. = -4.4 DEGREES REMARK 500 8 A A 28 C1' - O4' - C4' ANGL. DEV. = -4.2 DEGREES REMARK 500 9 G A 11 C1' - O4' - C4' ANGL. DEV. = -4.6 DEGREES REMARK 500 9 A A 28 C1' - O4' - C4' ANGL. DEV. = -4.3 DEGREES REMARK 500 9 C A 31 C1' - O4' - C4' ANGL. DEV. = -4.4 DEGREES REMARK 500 10 G A 11 C1' - O4' - C4' ANGL. DEV. = -4.6 DEGREES REMARK 500 11 G A 11 C1' - O4' - C4' ANGL. DEV. = -4.7 DEGREES REMARK 500 12 G A 11 C1' - O4' - C4' ANGL. DEV. = -4.6 DEGREES REMARK 500 12 A A 28 C1' - O4' - C4' ANGL. DEV. = -4.3 DEGREES REMARK 500 13 A A 28 C1' - O4' - C4' ANGL. DEV. = -4.3 DEGREES REMARK 500 14 G A 11 C1' - O4' - C4' ANGL. DEV. = -4.9 DEGREES REMARK 500 15 G A 11 C1' - O4' - C4' ANGL. DEV. = -4.3 DEGREES REMARK 500 16 G A 11 C1' - O4' - C4' ANGL. DEV. = -4.4 DEGREES REMARK 500 17 G A 11 C1' - O4' - C4' ANGL. DEV. = -4.7 DEGREES REMARK 500 17 A A 28 C1' - O4' - C4' ANGL. DEV. = -4.4 DEGREES REMARK 500 18 G A 11 C1' - O4' - C4' ANGL. DEV. = -4.5 DEGREES REMARK 500 18 A A 28 C1' - O4' - C4' ANGL. DEV. = -4.5 DEGREES REMARK 500 19 G A 11 C1' - O4' - C4' ANGL. DEV. = -4.8 DEGREES REMARK 500 20 G A 11 C1' - O4' - C4' ANGL. DEV. = -4.6 DEGREES REMARK 500 20 A A 22 C1' - O4' - C4' ANGL. DEV. = -5.0 DEGREES REMARK 500 REMARK 500 REMARK: NULL
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1PJY RELATED DB: PDB REMARK 900 HIV-1 FRAMESHIFT SITE STEM-LOOP
DBREF 1Z2J A 1 45 PDB 1Z2J 1Z2J 1 45
SEQRES 1 A 45 G G G A A G A U C U G G C SEQRES 2 A 45 C U U C C C A C A A G G G SEQRES 3 A 45 A A G G C C A G G G A A U SEQRES 4 A 45 C U U C C C
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