HEADER DNA 24-JUL-14 2MS6 TITLE HUMAN TELOMERIC G-QUADRUPLEX DNA SEQUENCE (TTAGGGT)4 COMPLEXED WITH TITLE 2 FLAVONOID QUERCETIN COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA_(5'-D(*TP*TP*AP*GP*GP*GP*T)-3'); COMPND 3 CHAIN: A, B, C, D; COMPND 4 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 ORGANISM_SCIENTIFIC: SYNTHETIC CONSTRUCT; SOURCE 4 ORGANISM_TAXID: 32630 KEYWDS DNA G-QUADRUPLEX, QUERCETIN, TELOMERIC SEQUENCE, DNA EXPDTA SOLUTION NMR AUTHOR A.KUMAR,A.TAWANI REVDAT 3 01-MAY-24 2MS6 1 REMARK REVDAT 2 16-DEC-15 2MS6 1 JRNL REVDAT 1 28-JAN-15 2MS6 0 JRNL AUTH A.TAWANI,A.KUMAR JRNL TITL STRUCTURAL INSIGHT INTO THE INTERACTION OF FLAVONOIDS WITH JRNL TITL 2 HUMAN TELOMERIC SEQUENCE JRNL REF SCI REP V. 5 17574 2015 JRNL REFN ESSN 2045-2322 JRNL PMID 26627543 JRNL DOI 10.1038/SREP17574 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : DISCOVER, DISCOVER REMARK 3 AUTHORS : ACCELRYS SOFTWARE INC. (DISCOVER), MOLECULAR REMARK 3 SIMULATIONS INC. (DISCOVER) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2MS6 COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 01-AUG-14. REMARK 100 THE DEPOSITION ID IS D_1000103987. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.2 REMARK 210 IONIC STRENGTH : 0.1 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 2.25 MM DNA (5' REMARK 210 -D(*TP*TP*AP*GP*GP*GP*T)-3')-1, REMARK 210 90% H2O/10% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D DQF-COSY; 2D 1H-1H TOCSY; 2D REMARK 210 1H-1H NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 400 MHZ; 500 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : MOLECULAR DYNAMICS REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 1 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: 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 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 DT A 1 C5' DT A 1 C4' 0.049 REMARK 500 DT A 1 O3' DT A 1 C3' -0.055 REMARK 500 DT A 1 C5 DT A 1 C6 0.047 REMARK 500 DT A 1 C6 DT A 1 N1 -0.064 REMARK 500 DT A 2 O3' DT A 2 C3' -0.045 REMARK 500 DT A 2 C2 DT A 2 N3 -0.053 REMARK 500 DT A 2 C5 DT A 2 C6 0.055 REMARK 500 DT A 2 C6 DT A 2 N1 -0.054 REMARK 500 DA A 3 C3' DA A 3 C2' -0.049 REMARK 500 DA A 3 C5 DA A 3 N7 0.050 REMARK 500 DA A 3 N7 DA A 3 C8 0.086 REMARK 500 DA A 3 C8 DA A 3 N9 -0.049 REMARK 500 DA A 3 C6 DA A 3 N6 0.061 REMARK 500 DA A 3 O3' DG A 4 P -0.075 REMARK 500 DG A 4 P DG A 4 OP1 0.111 REMARK 500 DG A 4 P DG A 4 O5' -0.060 REMARK 500 DG A 4 N1 DG A 4 C2 -0.052 REMARK 500 DG A 4 C5 DG A 4 C6 0.060 REMARK 500 DG A 4 N7 DG A 4 C8 0.118 REMARK 500 DG A 4 C8 DG A 4 N9 -0.060 REMARK 500 DG A 4 O3' DG A 5 P -0.129 REMARK 500 DG A 5 P DG A 5 O5' -0.064 REMARK 500 DG A 5 C4' DG A 5 C3' 0.079 REMARK 500 DG A 5 C8 DG A 5 N9 -0.054 REMARK 500 DG A 5 O3' DG A 6 P -0.124 REMARK 500 DG A 6 P DG A 6 O5' -0.068 REMARK 500 DG A 6 N1 DG A 6 C2 -0.101 REMARK 500 DG A 6 N7 DG A 6 C8 0.073 REMARK 500 DT B 8 C3' DT B 8 C2' 0.088 REMARK 500 DT B 8 C4 DT B 8 C5 0.054 REMARK 500 DT B 8 C5 DT B 8 C6 0.045 REMARK 500 DT B 9 O4' DT B 9 C4' -0.065 REMARK 500 DT B 9 O3' DT B 9 C3' -0.039 REMARK 500 DT B 9 C6 DT B 9 N1 -0.050 REMARK 500 DA B 10 C5 DA B 10 C6 -0.059 REMARK 500 DA B 10 C8 DA B 10 N9 -0.053 REMARK 500 DG B 11 C4' DG B 11 C3' 0.069 REMARK 500 DG B 11 N1 DG B 11 C2 -0.084 REMARK 500 DG B 11 C2 DG B 11 N3 0.051 REMARK 500 DG B 11 N3 DG B 11 C4 -0.042 REMARK 500 DG B 11 C6 DG B 11 N1 0.057 REMARK 500 DG B 11 N7 DG B 11 C8 0.059 REMARK 500 DG B 12 P DG B 12 O5' -0.087 REMARK 500 DG B 12 C6 DG B 12 N1 0.054 REMARK 500 DG B 12 N7 DG B 12 C8 0.066 REMARK 500 DG B 12 C8 DG B 12 N9 -0.051 REMARK 500 DG B 12 C2 DG B 12 N2 0.070 REMARK 500 DG B 12 O3' DG B 13 P -0.105 REMARK 500 DG B 13 N1 DG B 13 C2 -0.054 REMARK 500 DG B 13 C4 DG B 13 C5 0.053 REMARK 500 REMARK 500 THIS ENTRY HAS 106 BOND DEVIATIONS. 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 DT A 1 O4' - C4' - C3' ANGL. DEV. = -2.8 DEGREES REMARK 500 DT A 1 O4' - C1' - C2' ANGL. DEV. = -6.1 DEGREES REMARK 500 DT A 2 O4' - C1' - N1 ANGL. DEV. = -6.8 DEGREES REMARK 500 DT A 2 N1 - C2 - N3 ANGL. DEV. = 4.7 DEGREES REMARK 500 DT A 2 C2 - N3 - C4 ANGL. DEV. = -3.6 DEGREES REMARK 500 DT A 2 C5 - C6 - N1 ANGL. DEV. = -3.7 DEGREES REMARK 500 DA A 3 OP1 - P - OP2 ANGL. DEV. = -11.9 DEGREES REMARK 500 DA A 3 O4' - C1' - N9 ANGL. DEV. = 5.9 DEGREES REMARK 500 DA A 3 N1 - C2 - N3 ANGL. DEV. = -6.4 DEGREES REMARK 500 DA A 3 C2 - N3 - C4 ANGL. DEV. = 8.7 DEGREES REMARK 500 DA A 3 N3 - C4 - C5 ANGL. DEV. = -6.9 DEGREES REMARK 500 DA A 3 C5 - C6 - N1 ANGL. DEV. = 4.2 DEGREES REMARK 500 DA A 3 C4 - C5 - N7 ANGL. DEV. = -3.2 DEGREES REMARK 500 DA A 3 N9 - C4 - C5 ANGL. DEV. = 3.2 DEGREES REMARK 500 DA A 3 C5 - C6 - N6 ANGL. DEV. = -5.5 DEGREES REMARK 500 DG A 4 OP1 - P - OP2 ANGL. DEV. = -13.0 DEGREES REMARK 500 DG A 4 O4' - C4' - C3' ANGL. DEV. = -4.8 DEGREES REMARK 500 DG A 4 C3' - C2' - C1' ANGL. DEV. = -8.9 DEGREES REMARK 500 DG A 4 O4' - C1' - C2' ANGL. DEV. = -5.0 DEGREES REMARK 500 DG A 4 O4' - C1' - N9 ANGL. DEV. = -9.0 DEGREES REMARK 500 DG A 4 N1 - C2 - N3 ANGL. DEV. = 3.7 DEGREES REMARK 500 DG A 4 N7 - C8 - N9 ANGL. DEV. = -4.4 DEGREES REMARK 500 DG A 4 C8 - N9 - C4 ANGL. DEV. = 4.8 DEGREES REMARK 500 DG A 4 N3 - C4 - N9 ANGL. DEV. = 3.9 DEGREES REMARK 500 DG A 4 N3 - C2 - N2 ANGL. DEV. = -9.8 DEGREES REMARK 500 DG A 5 C3' - C2' - C1' ANGL. DEV. = -4.9 DEGREES REMARK 500 DG A 5 O4' - C1' - N9 ANGL. DEV. = 7.8 DEGREES REMARK 500 DG A 5 C2 - N3 - C4 ANGL. DEV. = 5.3 DEGREES REMARK 500 DG A 5 N3 - C4 - C5 ANGL. DEV. = -4.5 DEGREES REMARK 500 DG A 5 N7 - C8 - N9 ANGL. DEV. = 4.3 DEGREES REMARK 500 DG A 5 N3 - C4 - N9 ANGL. DEV. = 4.1 DEGREES REMARK 500 DG A 5 N1 - C2 - N2 ANGL. DEV. = 6.7 DEGREES REMARK 500 DG A 5 N3 - C2 - N2 ANGL. DEV. = -4.5 DEGREES REMARK 500 DG A 6 OP1 - P - OP2 ANGL. DEV. = -12.5 DEGREES REMARK 500 DG A 6 C2 - N3 - C4 ANGL. DEV. = 3.8 DEGREES REMARK 500 DG A 6 N3 - C4 - C5 ANGL. DEV. = -4.8 DEGREES REMARK 500 DG A 6 C4 - C5 - N7 ANGL. DEV. = -4.9 DEGREES REMARK 500 DG A 6 N9 - C4 - C5 ANGL. DEV. = 5.5 DEGREES REMARK 500 DG A 6 C6 - C5 - N7 ANGL. DEV. = 6.5 DEGREES REMARK 500 DG A 6 N3 - C2 - N2 ANGL. DEV. = -8.0 DEGREES REMARK 500 DT A 7 OP1 - P - OP2 ANGL. DEV. = -12.6 DEGREES REMARK 500 DT A 7 O4' - C1' - C2' ANGL. DEV. = 5.4 DEGREES REMARK 500 DT A 7 O4' - C1' - N1 ANGL. DEV. = 4.1 DEGREES REMARK 500 DT A 7 N1 - C2 - N3 ANGL. DEV. = 5.1 DEGREES REMARK 500 DT A 7 C5 - C6 - N1 ANGL. DEV. = -4.1 DEGREES REMARK 500 DT B 8 O4' - C4' - C3' ANGL. DEV. = 4.4 DEGREES REMARK 500 DT B 8 C4' - C3' - C2' ANGL. DEV. = -5.6 DEGREES REMARK 500 DT B 8 O4' - C1' - N1 ANGL. DEV. = 6.3 DEGREES REMARK 500 DT B 8 C4 - C5 - C6 ANGL. DEV. = -5.5 DEGREES REMARK 500 DT B 8 C4 - C5 - C7 ANGL. DEV. = 10.5 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 183 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 DA A 3 0.08 SIDE CHAIN REMARK 500 DG A 4 0.07 SIDE CHAIN REMARK 500 DG A 6 0.08 SIDE CHAIN REMARK 500 DA B 10 0.07 SIDE CHAIN REMARK 500 DG B 12 0.08 SIDE CHAIN REMARK 500 DG B 13 0.07 SIDE CHAIN REMARK 500 DT B 14 0.07 SIDE CHAIN REMARK 500 DA C 17 0.10 SIDE CHAIN REMARK 500 DG C 19 0.13 SIDE CHAIN REMARK 500 DG C 20 0.10 SIDE CHAIN REMARK 500 DT C 21 0.07 SIDE CHAIN REMARK 500 DT D 22 0.07 SIDE CHAIN REMARK 500 DG D 26 0.08 SIDE CHAIN REMARK 500 REMARK 500 REMARK: NULL REMARK 800 REMARK 800 SITE REMARK 800 SITE_IDENTIFIER: AC1 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE QUE C 101 REMARK 800 REMARK 800 SITE_IDENTIFIER: AC2 REMARK 800 EVIDENCE_CODE: SOFTWARE REMARK 800 SITE_DESCRIPTION: BINDING SITE FOR RESIDUE QUE D 101 REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 25107 RELATED DB: BMRB REMARK 900 RELATED ID: 2MS5 RELATED DB: PDB DBREF 2MS6 A 1 7 PDB 2MS6 2MS6 1 7 DBREF 2MS6 B 8 14 PDB 2MS6 2MS6 8 14 DBREF 2MS6 C 15 21 PDB 2MS6 2MS6 15 21 DBREF 2MS6 D 22 28 PDB 2MS6 2MS6 22 28 SEQRES 1 A 7 DT DT DA DG DG DG DT SEQRES 1 B 7 DT DT DA DG DG DG DT SEQRES 1 C 7 DT DT DA DG DG DG DT SEQRES 1 D 7 DT DT DA DG DG DG DT HET QUE C 101 32 HET QUE D 101 32 HETNAM QUE 3,5,7,3',4'-PENTAHYDROXYFLAVONE HETSYN QUE QUERCETIN FORMUL 5 QUE 2(C15 H10 O7) SITE 1 AC1 6 DT A 2 DT B 9 DT C 15 DT C 16 SITE 2 AC1 6 DT D 22 DT D 23 SITE 1 AC2 8 DG A 6 DT A 7 DG B 13 DT B 14 SITE 2 AC2 8 DG C 20 DT C 21 DG D 27 DT D 28 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