10 20 30 40 50 60 70 80 1ATO - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER RNA 14-AUG-97 1ATO
TITLE THE STRUCTURE OF THE ISOLATED, CENTRAL HAIRPIN OF THE HDV TITLE 2 ANTIGENOMIC RIBOZYME, NMR, 10 STRUCTURES
COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA (5'- COMPND 3 R(*GP*GP*CP*AP*CP*CP*UP*CP*CP*UP*CP*GP*CP*GP*GP*UP*GP*CP*C) COMPND 4 -3'); COMPND 5 CHAIN: A; COMPND 6 FRAGMENT: CENTRAL HAIRPIN; COMPND 7 SYNONYM: HEPATITIS DELTA VIRUS RIBOZYME; COMPND 8 OTHER_DETAILS: RNA
SOURCE MOL_ID: 1; SOURCE 2 ORGANISM_SCIENTIFIC: HEPATITIS DELTA VIRUS; SOURCE 3 ORGANISM_TAXID: 12475
KEYWDS CENTRAL LOOP, HEPATITIS DELTA VIRUS, RIBOZYME, RNA HAIRPIN
EXPDTA SOLUTION NMR
NUMMDL 10
AUTHOR M.H.KOLK,H.A.HEUS,C.W.HILBERS
REVDAT 2 24-FEB-09 1ATO 1 VERSN REVDAT 1 12-NOV-97 1ATO 0
JRNL AUTH M.H.KOLK,H.A.HEUS,C.W.HILBERS JRNL TITL THE STRUCTURE OF THE ISOLATED, CENTRAL HAIRPIN OF JRNL TITL 2 THE HDV ANTIGENOMIC RIBOZYME: NOVEL STRUCTURAL JRNL TITL 3 FEATURES AND SIMILARITY OF THE LOOP IN THE JRNL TITL 4 RIBOZYME AND FREE IN SOLUTION. JRNL REF EMBO J. V. 16 3685 1997 JRNL REFN ISSN 0261-4189 JRNL PMID 9218809 JRNL DOI 10.1093/EMBOJ/16.12.3685
REMARK 1
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 REMARK 3 THE JRNL CITATION ABOVE.
REMARK 4 REMARK 4 1ATO COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL.
REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 6.55 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : NULL REMARK 210 SAMPLE CONTENTS : NULL REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : NOESY-JR, TOCSY, 13C1H-HMQC, REMARK 210 31P1H-HETCOR, 31P1H-HETERO- REMARK 210 HOMO-TOCSY, 31P1H-HETERO-TOCSY REMARK 210 -NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 400 MHZ, 500 MHZ, 600 MHZ, REMARK 210 750 MHZ REMARK 210 SPECTROMETER MODEL : UNITY+, AM, AMX REMARK 210 SPECTROMETER MANUFACTURER : VARIAN, BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : X-PLOR 3.1 REMARK 210 METHOD USED : SIMULATED ANNEALING, REMARK 210 RESTRAINED MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 70 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 REMARK 210 CONFORMERS, SELECTION CRITERIA : LEAST RESTRAINT VIOLATION, REMARK 210 LOWEST ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL 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' U A 10 OP1 C A 11 2.08 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 1 N7 - C8 - N9 ANGL. DEV. = 4.7 DEGREES REMARK 500 1 G A 1 C8 - N9 - C4 ANGL. DEV. = -2.8 DEGREES REMARK 500 1 G A 2 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 1 G A 2 C8 - N9 - C4 ANGL. DEV. = -2.7 DEGREES REMARK 500 1 A A 4 N7 - C8 - N9 ANGL. DEV. = 3.8 DEGREES REMARK 500 1 G A 12 N7 - C8 - N9 ANGL. DEV. = 4.7 DEGREES REMARK 500 1 G A 12 C8 - N9 - C4 ANGL. DEV. = -2.9 DEGREES REMARK 500 1 G A 14 N7 - C8 - N9 ANGL. DEV. = 4.7 DEGREES REMARK 500 1 G A 14 C8 - N9 - C4 ANGL. DEV. = -2.7 DEGREES REMARK 500 1 G A 15 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 1 G A 15 C8 - N9 - C4 ANGL. DEV. = -2.6 DEGREES REMARK 500 1 G A 17 N7 - C8 - N9 ANGL. DEV. = 4.6 DEGREES REMARK 500 1 G A 17 C8 - N9 - C4 ANGL. DEV. = -2.6 DEGREES REMARK 500 2 G A 1 N7 - C8 - N9 ANGL. DEV. = 4.6 DEGREES REMARK 500 2 G A 1 C8 - N9 - C4 ANGL. DEV. = -2.8 DEGREES REMARK 500 2 G A 2 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 2 G A 2 C8 - N9 - C4 ANGL. DEV. = -2.7 DEGREES REMARK 500 2 A A 4 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 2 C A 11 C3' - C2' - C1' ANGL. DEV. = 4.8 DEGREES REMARK 500 2 G A 12 N7 - C8 - N9 ANGL. DEV. = 4.9 DEGREES REMARK 500 2 G A 12 C8 - N9 - C4 ANGL. DEV. = -2.9 DEGREES REMARK 500 2 G A 14 N7 - C8 - N9 ANGL. DEV. = 4.7 DEGREES REMARK 500 2 G A 14 C8 - N9 - C4 ANGL. DEV. = -2.8 DEGREES REMARK 500 2 G A 15 N7 - C8 - N9 ANGL. DEV. = 4.6 DEGREES REMARK 500 2 G A 15 C8 - N9 - C4 ANGL. DEV. = -2.8 DEGREES REMARK 500 2 G A 17 N7 - C8 - N9 ANGL. DEV. = 4.6 DEGREES REMARK 500 2 G A 17 C8 - N9 - C4 ANGL. DEV. = -2.6 DEGREES REMARK 500 3 G A 1 N7 - C8 - N9 ANGL. DEV. = 4.6 DEGREES REMARK 500 3 G A 1 C8 - N9 - C4 ANGL. DEV. = -2.8 DEGREES REMARK 500 3 G A 2 N7 - C8 - N9 ANGL. DEV. = 4.6 DEGREES REMARK 500 3 G A 2 C8 - N9 - C4 ANGL. DEV. = -2.8 DEGREES REMARK 500 3 A A 4 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 3 G A 12 N7 - C8 - N9 ANGL. DEV. = 4.9 DEGREES REMARK 500 3 G A 12 C8 - N9 - C4 ANGL. DEV. = -3.0 DEGREES REMARK 500 3 G A 14 N7 - C8 - N9 ANGL. DEV. = 4.6 DEGREES REMARK 500 3 G A 14 C8 - N9 - C4 ANGL. DEV. = -2.6 DEGREES REMARK 500 3 G A 15 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 3 G A 15 C8 - N9 - C4 ANGL. DEV. = -2.7 DEGREES REMARK 500 3 G A 17 N7 - C8 - N9 ANGL. DEV. = 4.6 DEGREES REMARK 500 3 G A 17 C8 - N9 - C4 ANGL. DEV. = -2.5 DEGREES REMARK 500 4 G A 1 N7 - C8 - N9 ANGL. DEV. = 4.6 DEGREES REMARK 500 4 G A 1 C8 - N9 - C4 ANGL. DEV. = -2.8 DEGREES REMARK 500 4 G A 2 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 4 G A 2 C8 - N9 - C4 ANGL. DEV. = -2.6 DEGREES REMARK 500 4 A A 4 N7 - C8 - N9 ANGL. DEV. = 3.8 DEGREES REMARK 500 4 G A 12 N7 - C8 - N9 ANGL. DEV. = 4.9 DEGREES REMARK 500 4 G A 12 C8 - N9 - C4 ANGL. DEV. = -2.6 DEGREES REMARK 500 4 G A 14 N7 - C8 - N9 ANGL. DEV. = 4.6 DEGREES REMARK 500 4 G A 14 C8 - N9 - C4 ANGL. DEV. = -2.9 DEGREES REMARK 500 4 G A 15 N7 - C8 - N9 ANGL. DEV. = 4.6 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 132 ANGLE DEVIATIONS. 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 1 G A 1 0.06 SIDE_CHAIN REMARK 500 1 C A 3 0.06 SIDE_CHAIN REMARK 500 1 A A 4 0.05 SIDE_CHAIN REMARK 500 1 C A 6 0.06 SIDE_CHAIN REMARK 500 1 G A 17 0.05 SIDE_CHAIN REMARK 500 2 G A 1 0.06 SIDE_CHAIN REMARK 500 2 C A 6 0.06 SIDE_CHAIN REMARK 500 2 C A 19 0.06 SIDE_CHAIN REMARK 500 3 G A 1 0.06 SIDE_CHAIN REMARK 500 3 C A 6 0.06 SIDE_CHAIN REMARK 500 3 G A 17 0.05 SIDE_CHAIN REMARK 500 4 G A 1 0.06 SIDE_CHAIN REMARK 500 4 C A 3 0.06 SIDE_CHAIN REMARK 500 4 A A 4 0.05 SIDE_CHAIN REMARK 500 4 C A 6 0.06 SIDE_CHAIN REMARK 500 4 G A 15 0.05 SIDE_CHAIN REMARK 500 4 G A 17 0.05 SIDE_CHAIN REMARK 500 4 C A 18 0.06 SIDE_CHAIN REMARK 500 5 G A 1 0.06 SIDE_CHAIN REMARK 500 5 C A 3 0.06 SIDE_CHAIN REMARK 500 5 C A 6 0.06 SIDE_CHAIN REMARK 500 5 G A 17 0.05 SIDE_CHAIN REMARK 500 5 C A 19 0.06 SIDE_CHAIN REMARK 500 6 G A 1 0.06 SIDE_CHAIN REMARK 500 6 C A 3 0.06 SIDE_CHAIN REMARK 500 6 A A 4 0.05 SIDE_CHAIN REMARK 500 6 G A 17 0.05 SIDE_CHAIN REMARK 500 6 C A 19 0.06 SIDE_CHAIN REMARK 500 7 G A 1 0.05 SIDE_CHAIN REMARK 500 7 C A 6 0.06 SIDE_CHAIN REMARK 500 7 G A 15 0.05 SIDE_CHAIN REMARK 500 7 C A 19 0.06 SIDE_CHAIN REMARK 500 8 G A 1 0.06 SIDE_CHAIN REMARK 500 8 A A 4 0.05 SIDE_CHAIN REMARK 500 8 C A 5 0.06 SIDE_CHAIN REMARK 500 8 C A 6 0.06 SIDE_CHAIN REMARK 500 8 G A 15 0.05 SIDE_CHAIN REMARK 500 8 C A 19 0.06 SIDE_CHAIN REMARK 500 9 G A 1 0.06 SIDE_CHAIN REMARK 500 9 G A 17 0.05 SIDE_CHAIN REMARK 500 10 G A 1 0.06 SIDE_CHAIN REMARK 500 10 C A 3 0.06 SIDE_CHAIN REMARK 500 10 C A 6 0.06 SIDE_CHAIN REMARK 500 10 C A 19 0.06 SIDE_CHAIN REMARK 500 REMARK 500 REMARK: NULL
DBREF 1ATO A 1 19 PDB 1ATO 1ATO 1 19
SEQRES 1 A 19 G G C A C C U C C U C G C SEQRES 2 A 19 G G U G 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