HEADER DNA-RNA HYBRID 29-MAR-96 1NAO TITLE SOLUTION STRUCTURE OF AN RNA 2'-O-METHYLATED RNA DUPLEX CONTAINING AN TITLE 2 RNA/DNA HYBRID SEGMENT AT THE CENTER, NMR, MINIMIZED AVERAGE TITLE 3 STRUCTURE COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA (5'-R(*GP*GP*AP*GP*AP*UP*GP*AP*C)-3'); COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: A SUBSTRATE OF RNASE H; COMPND 6 MOL_ID: 2; COMPND 7 MOLECULE: DNA/RNA (5'-R(*OMGP*OMUP*OMC)-D(P*AP*TP*CP*T)- COMPND 8 R(P*OMCP*OMC)-3'); COMPND 9 CHAIN: B; COMPND 10 ENGINEERED: YES; COMPND 11 OTHER_DETAILS: A SUBSTRATE OF RNASE H SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 MOL_ID: 2; SOURCE 4 SYNTHETIC: YES KEYWDS DNA/RNA DUPLEX, DNA-RNA HYBRID EXPDTA SOLUTION NMR AUTHOR T.NISHIZAKI,S.IWAI,E.OHTSUKA,H.NAKAMURA REVDAT 4 22-MAY-24 1NAO 1 REMARK REVDAT 3 23-FEB-22 1NAO 1 REMARK LINK REVDAT 2 24-FEB-09 1NAO 1 VERSN REVDAT 1 27-JAN-97 1NAO 0 JRNL AUTH T.NISHIZAKI,S.IWAI,E.OHTSUKA,H.NAKAMURA JRNL TITL SOLUTION STRUCTURE OF AN RNA.2'-O-METHYLATED RNA HYBRID JRNL TITL 2 DUPLEX CONTAINING AN RNA.DNA HYBRID SEGMENT AT THE CENTER. JRNL REF BIOCHEMISTRY V. 36 2577 1997 JRNL REFN ISSN 0006-2960 JRNL PMID 9054564 JRNL DOI 10.1021/BI962297C 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: NULL REMARK 4 REMARK 4 1NAO 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_1000175209. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 313 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : NULL REMARK 210 SAMPLE CONTENTS : NULL REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : NULL REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : AMX600 REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : X-PLOR REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 10 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 1 REMARK 210 CONFORMERS, SELECTION CRITERIA : AVERAGED REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL REMARK 210 REMARK 210 REMARK: 00MM NACL, 50MM NA PHOSPHATE, 3MM EDTA 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: 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 G A 1 C3' - C2' - C1' ANGL. DEV. = 5.2 DEGREES REMARK 500 G A 1 N7 - C8 - N9 ANGL. DEV. = 4.4 DEGREES REMARK 500 G A 1 C8 - N9 - C4 ANGL. DEV. = -2.5 DEGREES REMARK 500 G A 2 N7 - C8 - N9 ANGL. DEV. = 4.6 DEGREES REMARK 500 A A 3 N7 - C8 - N9 ANGL. DEV. = 3.8 DEGREES REMARK 500 G A 4 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 G A 4 C8 - N9 - C4 ANGL. DEV. = -2.6 DEGREES REMARK 500 A A 5 N7 - C8 - N9 ANGL. DEV. = 4.2 DEGREES REMARK 500 U A 6 C3' - C2' - C1' ANGL. DEV. = 5.3 DEGREES REMARK 500 U A 6 O4' - C1' - N1 ANGL. DEV. = 4.9 DEGREES REMARK 500 G A 7 C3' - C2' - C1' ANGL. DEV. = 4.9 DEGREES REMARK 500 G A 7 N7 - C8 - N9 ANGL. DEV. = 4.4 DEGREES REMARK 500 A A 8 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 DA B 13 O4' - C1' - N9 ANGL. DEV. = 2.5 DEGREES REMARK 500 DA B 13 N7 - C8 - N9 ANGL. DEV. = 4.0 DEGREES REMARK 500 DT B 14 O4' - C1' - N1 ANGL. DEV. = 3.3 DEGREES REMARK 500 DC B 15 O4' - C1' - N1 ANGL. DEV. = 3.4 DEGREES REMARK 500 DT B 16 O4' - C1' - N1 ANGL. DEV. = 3.2 DEGREES REMARK 500 REMARK 500 REMARK: NULL DBREF 1NAO A 1 9 PDB 1NAO 1NAO 1 9 DBREF 1NAO B 10 18 PDB 1NAO 1NAO 10 18 SEQRES 1 A 9 G G A G A U G A C SEQRES 1 B 9 OMG OMU OMC DA DT DC DT OMC OMC MODRES 1NAO OMG B 10 G O2'-METHYLGUANOSINE-5'-MONOPHOSPHATE MODRES 1NAO OMU B 11 U O2'-METHYLURIDINE 5'-MONOPHOSPHATE MODRES 1NAO OMC B 12 C O2'-METHYLYCYTIDINE-5'-MONOPHOSPHATE MODRES 1NAO OMC B 17 C O2'-METHYLYCYTIDINE-5'-MONOPHOSPHATE MODRES 1NAO OMC B 18 C O2'-METHYLYCYTIDINE-5'-MONOPHOSPHATE HET OMG B 10 21 HET OMU B 11 21 HET OMC B 12 21 HET OMC B 17 21 HET OMC B 18 21 HETNAM OMG O2'-METHYLGUANOSINE-5'-MONOPHOSPHATE HETNAM OMU O2'-METHYLURIDINE 5'-MONOPHOSPHATE HETNAM OMC O2'-METHYLYCYTIDINE-5'-MONOPHOSPHATE FORMUL 2 OMG C11 H16 N5 O8 P FORMUL 2 OMU C10 H15 N2 O9 P FORMUL 2 OMC 3(C10 H16 N3 O8 P) LINK O3' OMG B 10 P OMU B 11 1555 1555 1.62 LINK O3' OMU B 11 P OMC B 12 1555 1555 1.61 LINK O3' OMC B 12 P DA B 13 1555 1555 1.62 LINK O3' DT B 16 P OMC B 17 1555 1555 1.62 LINK O3' OMC B 17 P OMC B 18 1555 1555 1.62 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