HEADER RNA 30-AUG-99 1C4L TITLE SOLUTION STRUCTURE OF AN RNA DUPLEX INCLUDING A C-U BASE-PAIR COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA (5'-R(*CP*GP*AP*CP*UP*CP*AP*GP*G)-3'); COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES; COMPND 5 MOL_ID: 2; COMPND 6 MOLECULE: RNA (5'-R(*CP*CP*UP*GP*CP*GP*UP*CP*G)-3'); COMPND 7 CHAIN: B; COMPND 8 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: THIS OLIGONUCLEOTIDE WAS CHEMICALLY SYNTHESIZED SOURCE 4 (PHOSPHORAMIDITE METHOD).; SOURCE 5 MOL_ID: 2; SOURCE 6 SYNTHETIC: YES; SOURCE 7 OTHER_DETAILS: THIS OLIGONUCLEOTIDE WAS CHEMICALLY SYNTHESIZED SOURCE 8 (PHOSPHORAMIDITE METHOD). KEYWDS C-U BASE PAIR, RNA EXPDTA SOLUTION NMR MDLTYP MINIMIZED AVERAGE AUTHOR Y.TANAKA,C.KOJIMA,T.YAMAZAKI,T.S.KODAMA,K.YASUNO,S.MIYASHITA,A.M.ONO, AUTHOR 2 A.S.ONO,M.KAINOSHO,Y.KYOGOKU REVDAT 5 27-DEC-23 1C4L 1 REMARK REVDAT 4 16-FEB-22 1C4L 1 REMARK REVDAT 3 24-FEB-09 1C4L 1 VERSN REVDAT 2 01-APR-03 1C4L 1 JRNL REVDAT 1 09-AUG-00 1C4L 0 JRNL AUTH Y.TANAKA,C.KOJIMA,T.YAMAZAKI,T.S.KODAMA,K.YASUNO, JRNL AUTH 2 S.MIYASHITA,A.ONO,A.ONO,M.KAINOSHO,Y.KYOGOKU JRNL TITL SOLUTION STRUCTURE OF AN RNA DUPLEX INCLUDING A C-U BASE JRNL TITL 2 PAIR. JRNL REF BIOCHEMISTRY V. 39 7074 2000 JRNL REFN ISSN 0006-2960 JRNL PMID 10852704 JRNL DOI 10.1021/BI000018M REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH Y.TANAKA,C.KOJIMA,T.YAMAZAKI,Y.KYOGOKU,S.MIYASHITA,A.S.ONO, REMARK 1 AUTH 2 M.KAINOSHO REMARK 1 TITL STRUCTURE MODEL AND PHYSICOCHEMICAL PROPERTIES OF THE C-U REMARK 1 TITL 2 MISMATCH PAIR IN THE DOUBLE STRANDED RNA IN SOLUTION REMARK 1 REF NUCLEIC ACIDS SYMP.SER. V. 37 271 1997 REMARK 1 REFN ISSN 0261-3166 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.851, X-PLOR 3.8.1 REMARK 3 AUTHORS : BRUNGER (X-PLOR), BRUNGER (X-PLOR) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REMARK 3 DISTANCE CONSTRAINTS (NOE 433, HYDROGEN BOND (BASE-PAIR) 54), REMARK 3 DIHEDRAL ANGLE REMARK 3 CONSTRAINTS 45 REMARK 4 REMARK 4 1C4L COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 30-AUG-99. REMARK 100 THE DEPOSITION ID IS D_1000001298. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 300; 278 REMARK 210 PH : 7.0; 7.0 REMARK 210 IONIC STRENGTH : 50MM(NACL); 50MM(NACL) REMARK 210 PRESSURE : 1 ATM; 1 ATM REMARK 210 SAMPLE CONTENTS : R[CGACUCAGG]_R[CCUG(15N4)CGUCG] REMARK 210 (AMINO-NITROGEN OF CYTIDINE IS REMARK 210 POINT-LABELED (> 95%)); REMARK 210 R[CGACUCAGG]_R[CCUG(15N4)CGUCG] REMARK 210 (AMINO-NITROGEN OF CYTIDINE IS REMARK 210 POINT-LABELED (> 95%)) REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D_1H_NOESY; 2D_PCOSY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 500 MHZ REMARK 210 SPECTROMETER MODEL : DRX; ARX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : X-PLOR 3.851, X-PLOR 3.8.1 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 50 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 1 REMARK 210 CONFORMERS, SELECTION CRITERIA : SUMMATION OF TOTAL ENERGY REMARK 210 (COVALENT GEOMETRY, NON-BOND REMARK 210 ENERGY, DISTANCE AND DIHEDRAL REMARK 210 ANGLE CONSTRAINTS) REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 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 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 2 N7 - C8 - N9 ANGL. DEV. = 4.2 DEGREES REMARK 500 G A 2 C8 - N9 - C4 ANGL. DEV. = -2.7 DEGREES REMARK 500 A A 3 N7 - C8 - N9 ANGL. DEV. = 3.6 DEGREES REMARK 500 A A 7 N7 - C8 - N9 ANGL. DEV. = 3.8 DEGREES REMARK 500 A A 7 C8 - N9 - C4 ANGL. DEV. = -2.5 DEGREES REMARK 500 G A 8 N7 - C8 - N9 ANGL. DEV. = 4.4 DEGREES REMARK 500 G A 8 C8 - N9 - C4 ANGL. DEV. = -2.9 DEGREES REMARK 500 G A 9 N7 - C8 - N9 ANGL. DEV. = 4.4 DEGREES REMARK 500 G A 9 C8 - N9 - C4 ANGL. DEV. = -2.9 DEGREES REMARK 500 G B 13 N7 - C8 - N9 ANGL. DEV. = 4.3 DEGREES REMARK 500 G B 13 C8 - N9 - C4 ANGL. DEV. = -2.5 DEGREES REMARK 500 G B 15 N7 - C8 - N9 ANGL. DEV. = 4.1 DEGREES REMARK 500 G B 15 C8 - N9 - C4 ANGL. DEV. = -2.6 DEGREES REMARK 500 G B 18 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 G B 18 C8 - N9 - C4 ANGL. DEV. = -2.8 DEGREES REMARK 500 REMARK 500 REMARK: NULL DBREF 1C4L A 1 9 PDB 1C4L 1C4L 1 9 DBREF 1C4L B 10 18 PDB 1C4L 1C4L 10 18 SEQRES 1 A 9 C G A C U C A G G SEQRES 1 B 9 C C U G C G U C G 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