HEADER DNA 10-APR-13 2M6V TITLE SOLUTION NMR STRUCTURE OF THE D(GGGTTGGGTTTTGGGTGGG) QUADRUPLEX IN TITLE 2 SODIUM CONDITIONS COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (5'- COMPND 3 D(*GP*GP*GP*TP*TP*GP*GP*GP*TP*TP*TP*TP*GP*GP*GP*TP*GP*GP*G)-3'); COMPND 4 CHAIN: A; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES KEYWDS G-QUADRUPLEX, FOLDING TOPOLOGY, DNA EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR A.I.KARSISIOTIS,M.WEBBA DA SILVA REVDAT 4 31-OCT-18 2M6V 1 JRNL REVDAT 3 29-AUG-18 2M6V 1 JRNL REVDAT 2 22-OCT-14 2M6V 1 AUTHOR REVDAT 1 16-JUL-14 2M6V 0 JRNL AUTH S.A.DVORKIN,A.I.KARSISIOTIS,M.WEBBA DA SILVA JRNL TITL ENCODING CANONICAL DNA QUADRUPLEX STRUCTURE. JRNL REF SCI ADV V. 4 T3007 2018 JRNL REFN ESSN 2375-2548 JRNL PMID 30182059 JRNL DOI 10.1126/SCIADV.AAT3007 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : FELIX, X-PLOR, X-PLOR_NIH REMARK 3 AUTHORS : ACCELRYS SOFTWARE INC. (FELIX), BRUNGER (X-PLOR), REMARK 3 SCHWIETERS, KUSZEWSKI, TJANDRA AND CLORE (X-PLOR_ REMARK 3 NIH) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2M6V COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 18-APR-13. REMARK 100 THE DEPOSITION ID IS D_1000103283. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 278; 293 REMARK 210 PH : 7.8; 7.8 REMARK 210 IONIC STRENGTH : 25; 25 REMARK 210 PRESSURE : AMBIENT ATM; AMBIENT ATM REMARK 210 SAMPLE CONTENTS : 5 MM DNA (5' REMARK 210 -D(*GP*GP*GP*TP*TP*GP*GP*GP*TP*TP*TP*TP*GP*GP*GP*TP*GP*GP*G)-3'), REMARK 210 20 MM SODIUM PHOSPHATE, 93% H2O/7% D2O; 5 MM DNA (5'-D(*GP*GP* REMARK 210 GP*TP*TP*GP*GP*GP*TP*TP*TP*TP*GP*GP*GP*TP*GP*GP*G)-3'), 20 MM REMARK 210 SODIUM PHOSPHATE, 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-1H NOESY; 2D 1H-1H TOCSY; REMARK 210 2D DQF-COSY; 2D [1H-13C] H1(C5) REMARK 210 H8 JR HMBC; 2D [1H-31P]-HSQC REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ REMARK 210 SPECTROMETER MODEL : VNMRS 500 REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : SPARKY, X-PLOR, X-PLOR_NIH, REMARK 210 MOLMOL, VNMRJ REMARK 210 METHOD USED : SIMULATED ANNEALING, MOLECULAR REMARK 210 DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 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 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: MONOMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A 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 1 DT A 4 C6 - C5 - C7 ANGL. DEV. = -3.6 DEGREES REMARK 500 1 DT A 12 C6 - C5 - C7 ANGL. DEV. = -3.6 DEGREES REMARK 500 2 DT A 16 C6 - C5 - C7 ANGL. DEV. = -3.8 DEGREES REMARK 500 3 DT A 4 C6 - C5 - C7 ANGL. DEV. = -3.6 DEGREES REMARK 500 3 DT A 16 C6 - C5 - C7 ANGL. DEV. = -3.9 DEGREES REMARK 500 4 DT A 12 C6 - C5 - C7 ANGL. DEV. = -3.6 DEGREES REMARK 500 4 DT A 16 C6 - C5 - C7 ANGL. DEV. = -3.8 DEGREES REMARK 500 5 DT A 11 C6 - C5 - C7 ANGL. DEV. = -3.6 DEGREES REMARK 500 5 DT A 16 C6 - C5 - C7 ANGL. DEV. = -4.2 DEGREES REMARK 500 6 DT A 12 C6 - C5 - C7 ANGL. DEV. = -3.6 DEGREES REMARK 500 6 DT A 16 C6 - C5 - C7 ANGL. DEV. = -4.1 DEGREES REMARK 500 7 DT A 16 C6 - C5 - C7 ANGL. DEV. = -3.9 DEGREES REMARK 500 8 DT A 16 C6 - C5 - C7 ANGL. DEV. = -4.0 DEGREES REMARK 500 9 DT A 11 C6 - C5 - C7 ANGL. DEV. = -3.7 DEGREES REMARK 500 10 DT A 11 C6 - C5 - C7 ANGL. DEV. = -3.6 DEGREES REMARK 500 10 DT A 12 C6 - C5 - C7 ANGL. DEV. = -3.7 DEGREES REMARK 500 10 DT A 16 C6 - C5 - C7 ANGL. DEV. = -3.7 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 19158 RELATED DB: BMRB DBREF 2M6V A 1 19 PDB 2M6V 2M6V 1 19 SEQRES 1 A 19 DG DG DG DT DT DG DG DG DT DT DT DT DG SEQRES 2 A 19 DG DG DT DG DG DG 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 ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL ENDMDL MASTER 112 0 0 0 0 0 0 6 0 0 0 2 END