HEADER RNA 29-JUL-93 1RAU TITLE SOLUTION STRUCTURE OF AN UNUSUALLY STABLE RNA TETRAPLEX CONTAINING G- TITLE 2 AND U-QUARTET STRUCTURES COMPND MOL_ID: 1; COMPND 2 MOLECULE: RNA (5'-R(*UP*GP*GP*GP*GP*U)-3'); COMPND 3 CHAIN: A, B, C, D; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: CHEMICALLY SYNTHESIZED KEYWDS RNA, TETRAPLEX EXPDTA SOLUTION NMR AUTHOR C.CHEONG,P.B.MOORE REVDAT 3 02-MAR-22 1RAU 1 REMARK REVDAT 2 24-FEB-09 1RAU 1 VERSN REVDAT 1 31-JAN-94 1RAU 0 JRNL AUTH C.CHEONG,P.B.MOORE JRNL TITL SOLUTION STRUCTURE OF AN UNUSUALLY STABLE RNA TETRAPLEX JRNL TITL 2 CONTAINING G- AND U-QUARTET STRUCTURES. JRNL REF BIOCHEMISTRY V. 31 8406 1992 JRNL REFN ISSN 0006-2960 JRNL PMID 1382577 JRNL DOI 10.1021/BI00151A003 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: STRUCTURE CALCULATION: MOLECULAR REMARK 3 DYNAMICS AND ENERGY MINIMIZATION USING RELAXATION MATRIX ROUTINE REMARK 3 IN X-PLOR CONSTRAINTS: TOTAL 428 DISTANCE CONSTRAINTS (ABOUT 18/ REMARK 3 NUCLEOTIDE) 212 FROM INTRANUCLEOTIDE NOES 112 FROM REMARK 3 INTERNUCLEOTIDE NOES 36 FROM HYDROGEN BONDS 8 FROM EXCHANGEABLE REMARK 3 PROTON NOES 60 DERIVED FROM BACKBONE TORSION ANGLES DIHEDRAL REMARK 3 ANGLE CONSTRAINTS 104 BACKBONE AND GLYCOSIDIC TORSION ANGLES REMARK 3 SUGAR RING TORSION ANGLES CONSTRAINTS TO MAKE QUARTET PLANES REMARK 3 PLANAR 4-FOLD ROTATIONAL SYMMETRY CONSTRAINTS QUALITY OF REMARK 3 STRUCTURE NUMBER OF REFINED STRUCTURES: 8 RMS DEVIATION: 0.71A REMARK 3 FOR ALL HEAVY ATOMS REMARK 4 REMARK 4 1RAU 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_1000175979. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 278; 313 REMARK 210 PH : 6.7; 5.2 REMARK 210 IONIC STRENGTH : NULL; NULL REMARK 210 PRESSURE : NULL; NULL REMARK 210 SAMPLE CONTENTS : NULL; NULL REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : NULL REMARK 210 SPECTROMETER FIELD STRENGTH : NULL REMARK 210 SPECTROMETER MODEL : NULL REMARK 210 SPECTROMETER MANUFACTURER : NULL REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : NULL REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 8 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 1 REMARK 210 CONFORMERS, SELECTION CRITERIA : NULL REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL REMARK 210 REMARK 210 REMARK: ATA COLLECTION PARAMETERS: FREQUENCY: 500 MHZ FOR 1H, 202 REMARK 210 MHZ FOR 31P SAMPLE TUBE: 5 MM SPECTRA FOR ASSIGNMENTS: REMARK 210 HOMONUCLEAR PROTON 2D, 1H-31P COSY; SPECTRA FOR CONSTRAINTS: REMARK 210 NOESY, DQF-COSY, 1H-31P COSY MOLECULAR CHARACTERISTICS: OLIGOMER REMARK 210 STATE: TETRAMERIC MOLECULAR WEIGHT: 13 KD NUCLEOTIDES: 24 REMARK 210 SOLUTION CONDITIONS: SOLVENT: H2O AND 100% D2O TEMPERATURES: 5C REMARK 210 AND 40C PH: 6.7 AND 5.2 STRAND CONCENTRATION: 2.2 MM ADDITIVES: REMARK 210 10 MM POTASSIUM PHOSPHATE, 50 MM KCL, 0.5 MM EDTA OR 18 MM REMARK 210 POTASSIUM PHOSPHATE, 88 MM KCL, 0.9 MM 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: TETRAMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B, C, D 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 U A 1 O4' - C1' - N1 ANGL. DEV. = 4.8 DEGREES REMARK 500 G A 2 N7 - C8 - N9 ANGL. DEV. = 3.5 DEGREES REMARK 500 G A 2 C8 - N9 - C4 ANGL. DEV. = -2.8 DEGREES REMARK 500 G A 4 N7 - C8 - N9 ANGL. DEV. = 3.3 DEGREES REMARK 500 G A 4 C8 - N9 - C4 ANGL. DEV. = -2.6 DEGREES REMARK 500 G A 5 N9 - C1' - C2' ANGL. DEV. = -10.6 DEGREES REMARK 500 U A 6 C5' - C4' - C3' ANGL. DEV. = -9.4 DEGREES REMARK 500 U A 6 C5' - C4' - O4' ANGL. DEV. = 7.8 DEGREES REMARK 500 U A 6 O4' - C1' - C2' ANGL. DEV. = -7.2 DEGREES REMARK 500 U A 6 O4' - C1' - N1 ANGL. DEV. = 13.6 DEGREES REMARK 500 U B 1 O4' - C1' - N1 ANGL. DEV. = 4.7 DEGREES REMARK 500 G B 2 N7 - C8 - N9 ANGL. DEV. = 3.4 DEGREES REMARK 500 G B 2 C8 - N9 - C4 ANGL. DEV. = -2.8 DEGREES REMARK 500 G B 4 N7 - C8 - N9 ANGL. DEV. = 3.3 DEGREES REMARK 500 G B 4 C8 - N9 - C4 ANGL. DEV. = -2.6 DEGREES REMARK 500 G B 5 N9 - C1' - C2' ANGL. DEV. = -10.5 DEGREES REMARK 500 U B 6 C5' - C4' - C3' ANGL. DEV. = -9.4 DEGREES REMARK 500 U B 6 C5' - C4' - O4' ANGL. DEV. = 7.8 DEGREES REMARK 500 U B 6 O4' - C1' - C2' ANGL. DEV. = -7.2 DEGREES REMARK 500 U B 6 O4' - C1' - N1 ANGL. DEV. = 13.7 DEGREES REMARK 500 U C 1 O4' - C1' - N1 ANGL. DEV. = 4.8 DEGREES REMARK 500 G C 2 N7 - C8 - N9 ANGL. DEV. = 3.4 DEGREES REMARK 500 G C 2 C8 - N9 - C4 ANGL. DEV. = -2.7 DEGREES REMARK 500 G C 4 N7 - C8 - N9 ANGL. DEV. = 3.3 DEGREES REMARK 500 G C 4 C8 - N9 - C4 ANGL. DEV. = -2.5 DEGREES REMARK 500 G C 5 N9 - C1' - C2' ANGL. DEV. = -10.6 DEGREES REMARK 500 U C 6 C5' - C4' - C3' ANGL. DEV. = -9.4 DEGREES REMARK 500 U C 6 C5' - C4' - O4' ANGL. DEV. = 7.8 DEGREES REMARK 500 U C 6 O4' - C1' - C2' ANGL. DEV. = -7.2 DEGREES REMARK 500 U C 6 O4' - C1' - N1 ANGL. DEV. = 13.6 DEGREES REMARK 500 U D 1 O4' - C1' - N1 ANGL. DEV. = 4.8 DEGREES REMARK 500 G D 2 N7 - C8 - N9 ANGL. DEV. = 3.4 DEGREES REMARK 500 G D 2 C8 - N9 - C4 ANGL. DEV. = -2.7 DEGREES REMARK 500 G D 4 O4' - C1' - N9 ANGL. DEV. = 4.2 DEGREES REMARK 500 G D 4 N7 - C8 - N9 ANGL. DEV. = 3.3 DEGREES REMARK 500 G D 4 C8 - N9 - C4 ANGL. DEV. = -2.6 DEGREES REMARK 500 G D 5 N9 - C1' - C2' ANGL. DEV. = -10.5 DEGREES REMARK 500 U D 6 C5' - C4' - C3' ANGL. DEV. = -9.4 DEGREES REMARK 500 U D 6 C5' - C4' - O4' ANGL. DEV. = 7.8 DEGREES REMARK 500 U D 6 O4' - C1' - C2' ANGL. DEV. = -7.2 DEGREES REMARK 500 U D 6 O4' - C1' - N1 ANGL. DEV. = 13.6 DEGREES REMARK 500 REMARK 500 REMARK: NULL DBREF 1RAU A 1 6 PDB 1RAU 1RAU 1 6 DBREF 1RAU B 1 6 PDB 1RAU 1RAU 1 6 DBREF 1RAU C 1 6 PDB 1RAU 1RAU 1 6 DBREF 1RAU D 1 6 PDB 1RAU 1RAU 1 6 SEQRES 1 A 6 U G G G G U SEQRES 1 B 6 U G G G G U SEQRES 1 C 6 U G G G G U SEQRES 1 D 6 U G G G G U 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