10 20 30 40 50 60 70 80 1EU6 - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER DNA 14-APR-00 1EU6
TITLE DIMERIC SOLUTION STRUCTURE OF THE CYCLIC OCTAMER TITLE 2 CD(CATTCATT)
COMPND MOL_ID: 1; COMPND 2 MOLECULE: CYCLIC OLIGONUCLEOTIDE D(CATTCATT); COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES
KEYWDS QUADRUPLEX, FOUR-STRANDED STRUCTURE, UNUSUAL DNA, BI-LOOP
EXPDTA SOLUTION NMR
NUMMDL 10
AUTHOR N.ESCAJA,E.PEDROSO,M.RICO,C.GONZALEZ
REVDAT 2 24-FEB-09 1EU6 1 VERSN REVDAT 1 24-JAN-01 1EU6 0
JRNL AUTH N.ESCAJA,E.PEDROSO,M.RICO,C.GONZALEZ JRNL TITL DIMERIC SOLUTION STRUCTURE OF TWO CYCLIC OCTAMERS: JRNL TITL 2 FOUR-STRANDED DNA STRUCTURES STABILIZED BY A:T:A:T JRNL TITL 3 AND G:C:G:C JRNL REF J.AM.CHEM.SOC. V. 122 12732 2000 JRNL REFN ISSN 0002-7863 JRNL DOI 10.1021/JA002778Q
REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH C.GONZALEZ,N.ESCAJA,M.RICO,E.PEDROSO REMARK 1 TITL NMR STRUCTURE OF TWO CYCLIC OLIGONUCLEOTIDES. A REMARK 1 TITL 2 MONOMER DIMER EQUILIBRIUM BETWEEN DUMBELLL AND REMARK 1 TITL 3 QUADRUPLEX STRUCTURES REMARK 1 REF J.AM.CHEM.SOC. V. 120 2176 1998 REMARK 1 PUBL JACSAT REMARK 1 REFN ISSN 0002-7863 REMARK 1 DOI 10.1021/JA973691G
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : DYANA 1.5, AMBER 4.1 REMARK 3 AUTHORS : P. GUNTERT ET AL. (DYANA), D. PEARLMAN (AMBER) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: SEE REFERENCE
REMARK 4 REMARK 4 1EU6 COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 17-APR-00. REMARK 100 THE RCSB ID CODE IS RCSB010893.
REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 293 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : 0.01 REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 20MM OLIGONUCLEOTIDE REMARK 210 CONCENTRATION, 25MM BUFFER REMARK 210 PHOSPHATE REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY, DQF-COSY, ROESY, REMARK 210 TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : AMX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : XWINNMR 1.3, XEASY 1.0, DYANA REMARK 210 1.5, MARDIGRAS 4.0 REMARK 210 METHOD USED : RELAXATION MATRIX, RESTRAINED REMARK 210 MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 10 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 REMARK 210 CONFORMERS, SELECTION CRITERIA : ALL CALCULATED STRUCTURES REMARK 210 SUBMITTED 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: 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 6 DT A 8 C5' DT A 8 C4' 0.046 REMARK 500 8 DT A 4 C5' DT A 4 C4' 0.047 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 DA A 2 O4' - C1' - N9 ANGL. DEV. = 7.7 DEGREES REMARK 500 1 DA A 2 O3' - P - O5' ANGL. DEV. = -14.5 DEGREES REMARK 500 1 DT A 3 O4' - C1' - N1 ANGL. DEV. = 1.8 DEGREES REMARK 500 1 DT A 3 C6 - C5 - C7 ANGL. DEV. = -5.7 DEGREES REMARK 500 1 DT A 4 O4' - C1' - N1 ANGL. DEV. = 3.5 DEGREES REMARK 500 1 DA A 6 O4' - C1' - C2' ANGL. DEV. = 3.5 DEGREES REMARK 500 1 DT A 7 C6 - C5 - C7 ANGL. DEV. = -5.7 DEGREES REMARK 500 1 DT A 8 C6 - C5 - C7 ANGL. DEV. = -3.7 DEGREES REMARK 500 1 DA B 2 O4' - C1' - N9 ANGL. DEV. = 9.5 DEGREES REMARK 500 1 DT B 3 O4' - C1' - N1 ANGL. DEV. = 2.3 DEGREES REMARK 500 1 DT B 3 C4 - C5 - C7 ANGL. DEV. = 3.7 DEGREES REMARK 500 1 DT B 3 C6 - C5 - C7 ANGL. DEV. = -5.8 DEGREES REMARK 500 1 DT B 4 O4' - C1' - N1 ANGL. DEV. = 2.8 DEGREES REMARK 500 1 DT B 4 C6 - C5 - C7 ANGL. DEV. = -3.7 DEGREES REMARK 500 1 DA B 6 O4' - C1' - C2' ANGL. DEV. = 3.7 DEGREES REMARK 500 1 DA B 6 O4' - C1' - N9 ANGL. DEV. = 4.8 DEGREES REMARK 500 1 DA B 6 C4 - C5 - C6 ANGL. DEV. = -3.1 DEGREES REMARK 500 1 DT B 7 O4' - C1' - N1 ANGL. DEV. = 1.9 DEGREES REMARK 500 1 DT B 7 C4 - C5 - C7 ANGL. DEV. = 3.6 DEGREES REMARK 500 1 DT B 7 C6 - C5 - C7 ANGL. DEV. = -5.7 DEGREES REMARK 500 2 DA A 2 O4' - C1' - C2' ANGL. DEV. = 3.1 DEGREES REMARK 500 2 DA A 2 C4 - C5 - C6 ANGL. DEV. = -3.3 DEGREES REMARK 500 2 DT A 3 O4' - C1' - N1 ANGL. DEV. = 2.7 DEGREES REMARK 500 2 DT A 3 C6 - C5 - C7 ANGL. DEV. = -5.2 DEGREES REMARK 500 2 DT A 4 O4' - C1' - N1 ANGL. DEV. = 2.6 DEGREES REMARK 500 2 DA A 6 O4' - C1' - C2' ANGL. DEV. = 3.6 DEGREES REMARK 500 2 DA A 6 C4 - C5 - C6 ANGL. DEV. = -3.5 DEGREES REMARK 500 2 DT A 7 O4' - C1' - N1 ANGL. DEV. = 2.8 DEGREES REMARK 500 2 DT A 7 C6 - C5 - C7 ANGL. DEV. = -4.9 DEGREES REMARK 500 2 DT A 8 O4' - C1' - N1 ANGL. DEV. = 2.6 DEGREES REMARK 500 2 DA B 2 O4' - C1' - C2' ANGL. DEV. = 3.5 DEGREES REMARK 500 2 DA B 2 O4' - C1' - N9 ANGL. DEV. = 2.5 DEGREES REMARK 500 2 DT B 3 O4' - C1' - N1 ANGL. DEV. = 2.1 DEGREES REMARK 500 2 DT B 3 C6 - C5 - C7 ANGL. DEV. = -5.7 DEGREES REMARK 500 2 DT B 4 O4' - C1' - N1 ANGL. DEV. = 4.0 DEGREES REMARK 500 2 DA B 6 O4' - C1' - C2' ANGL. DEV. = 3.2 DEGREES REMARK 500 2 DA B 6 O4' - C1' - N9 ANGL. DEV. = 3.3 DEGREES REMARK 500 2 DT B 7 C6 - C5 - C7 ANGL. DEV. = -5.3 DEGREES REMARK 500 2 DT B 8 O4' - C1' - N1 ANGL. DEV. = 3.4 DEGREES REMARK 500 3 DA A 2 O4' - C1' - N9 ANGL. DEV. = 4.1 DEGREES REMARK 500 3 DA A 2 O3' - P - O5' ANGL. DEV. = -11.8 DEGREES REMARK 500 3 DT A 3 O4' - C1' - N1 ANGL. DEV. = 3.1 DEGREES REMARK 500 3 DT A 3 C6 - C5 - C7 ANGL. DEV. = -5.6 DEGREES REMARK 500 3 DT A 4 O4' - C1' - N1 ANGL. DEV. = 4.5 DEGREES REMARK 500 3 DA A 6 O4' - C1' - C2' ANGL. DEV. = 3.8 DEGREES REMARK 500 3 DA A 6 O4' - C1' - N9 ANGL. DEV. = 1.9 DEGREES REMARK 500 3 DA A 6 C4 - C5 - C6 ANGL. DEV. = -3.2 DEGREES REMARK 500 3 DT A 7 C4 - C5 - C7 ANGL. DEV. = 3.6 DEGREES REMARK 500 3 DT A 7 C6 - C5 - C7 ANGL. DEV. = -5.7 DEGREES REMARK 500 3 DT A 8 O4' - C1' - N1 ANGL. DEV. = 1.9 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 205 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 DA A 2 0.08 SIDE_CHAIN REMARK 500 1 DA B 2 0.16 SIDE_CHAIN REMARK 500 1 DA B 6 0.09 SIDE_CHAIN REMARK 500 2 DT A 3 0.07 SIDE_CHAIN REMARK 500 3 DA A 2 0.07 SIDE_CHAIN REMARK 500 3 DA B 2 0.06 SIDE_CHAIN REMARK 500 4 DT B 3 0.07 SIDE_CHAIN REMARK 500 6 DA A 2 0.10 SIDE_CHAIN REMARK 500 6 DT A 7 0.07 SIDE_CHAIN REMARK 500 6 DA B 6 0.12 SIDE_CHAIN REMARK 500 6 DT B 7 0.07 SIDE_CHAIN REMARK 500 7 DT A 8 0.07 SIDE_CHAIN REMARK 500 7 DT B 8 0.08 SIDE_CHAIN REMARK 500 8 DA A 6 0.09 SIDE_CHAIN REMARK 500 9 DA A 2 0.08 SIDE_CHAIN REMARK 500 9 DT B 3 0.07 SIDE_CHAIN REMARK 500 9 DT B 7 0.07 SIDE_CHAIN REMARK 500 10 DA A 2 0.07 SIDE_CHAIN REMARK 500 10 DT A 3 0.07 SIDE_CHAIN REMARK 500 10 DT A 4 0.07 SIDE_CHAIN REMARK 500 10 DT A 7 0.07 SIDE_CHAIN REMARK 500 10 DA B 2 0.06 SIDE_CHAIN REMARK 500 REMARK 500 REMARK: NULL
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1EU2 RELATED DB: PDB REMARK 900 DIMERIC STRUCTURE OF CYCLIC D(TGCTCGCT) REMARK 900 RELATED ID: 4687 RELATED DB: BMRB REMARK 900 1H ASSIGMENTS OF THE DIMERIC FORM OF CYCLIC D(TGCTCGCT)
DBREF 1EU6 A 1 8 PDB 1EU6 1EU6 1 8 DBREF 1EU6 B 1 8 PDB 1EU6 1EU6 1 8
SEQRES 1 A 8 DC DA DT DT DC DA DT DT SEQRES 1 B 8 DC DA DT DT DC DA DT DT
LINK O3' DT A 8 P DC A 1 1555 1555 1.59 LINK O3' DT B 8 P DC B 1 1555 1555 1.59
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