HEADER DNA 02-OCT-09 2KOW TITLE STRUCTURE OF A TWO-G-TETRAD BASKET-TYPE INTRAMOLECULAR G-QUADRUPLEX TITLE 2 FORMED BY GIARDIA TELOMERIC REPEAT D(TAGGG)4 IN K+ SOLUTION (WITH TITLE 3 G18-TO-INO SUBSTITUTION) COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (5'- COMPND 3 D(*TP*AP*GP*GP*GP*TP*AP*GP*GP*GP*TP*AP*GP*GP*GP*TP*AP*IP*GP*G)-3'); COMPND 4 CHAIN: A; COMPND 5 ENGINEERED: YES SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: NUCLEOTIDE SYNTHESIS KEYWDS TELOMERE, G-QUADRUPLEX, G.(A-G) TRIAD, TAGGG REPEAT, DNA, GIARDIA EXPDTA SOLUTION NMR NUMMDL 10 AUTHOR L.HU,K.W.LIM,S.BOUAZIZ,A.T.PHAN REVDAT 4 29-MAY-24 2KOW 1 REMARK REVDAT 3 16-MAR-22 2KOW 1 REMARK REVDAT 2 01-DEC-09 2KOW 1 JRNL REVDAT 1 17-NOV-09 2KOW 0 JRNL AUTH L.HU,K.W.LIM,S.BOUAZIZ,A.T.PHAN JRNL TITL GIARDIA TELOMERIC SEQUENCE D(TAGGG)(4) FORMS TWO JRNL TITL 2 INTRAMOLECULAR G-QUADRUPLEXES IN K(+) SOLUTION: EFFECT OF JRNL TITL 3 LOOP LENGTH AND SEQUENCE ON THE FOLDING TOPOLOGY. JRNL REF J.AM.CHEM.SOC. V. 131 16824 2009 JRNL REFN ISSN 0002-7863 JRNL PMID 19874015 JRNL DOI 10.1021/JA905611C REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : FELIX 2007, X-PLOR NIH 2.21 REMARK 3 AUTHORS : FELIX NMR, INC. (FELIX), SCHWIETERS, KUSZEWSKI, REMARK 3 TJANDRA, CLORE (X-PLOR NIH) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 2KOW COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 08-OCT-09. REMARK 100 THE DEPOSITION ID IS D_1000101389. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7 REMARK 210 IONIC STRENGTH : 90MM K+ REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.5-2.0MM DNA (5' REMARK 210 -D(*TP*AP*GP*GP*GP*TP*AP*GP*GP*GP*TP*AP*GP*GP*GP*TP*AP*IP*GP*G)- REMARK 210 3')-1, 90% H2O/10% D2O; 0.5-2.0MM DNA (5'-D(*TP*AP*GP*GP*GP*TP* REMARK 210 AP*GP*GP*GP*TP*AP*GP*GP*GP*TP*AP*IP*GP*G)-3')-2, 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-1H NOESY; 2D 1H-1H JR REMARK 210 NOESY; 2D 1H-1H COSY; 2D 1H-1H REMARK 210 TOCSY; 2D 1H-13C HSQC; 2D 1H-13C REMARK 210 JR HMBC; 15N-FILTERED; D-LABELED REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ; 700 MHZ REMARK 210 SPECTROMETER MODEL : AVANCE REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : FELIX 2007, TOPSPIN, X-PLOR NIH REMARK 210 2.21 REMARK 210 METHOD USED : DGSA-DISTANCE GEOMETRY SIMULATED REMARK 210 ANNEALING, MOLECULAR DYNAMICS, REMARK 210 MATRIX RELAXATION REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 REMARK 210 CONFORMERS, SELECTION CRITERIA : BACK CALCULATED DATA AGREE WITH REMARK 210 EXPERIMENTAL NOESY SPECTRUM 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: CLOSE CONTACTS REMARK 500 REMARK 500 THE FOLLOWING ATOMS ARE IN CLOSE CONTACT. REMARK 500 REMARK 500 ATM1 RES C SSEQI ATM2 RES C SSEQI DISTANCE REMARK 500 OP2 DG A 3 H1 DG A 13 1.43 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 DT A 1 C6 - C5 - C7 ANGL. DEV. = -3.7 DEGREES REMARK 500 2 DT A 1 C6 - C5 - C7 ANGL. DEV. = -3.7 DEGREES REMARK 500 3 DT A 1 C6 - C5 - C7 ANGL. DEV. = -3.7 DEGREES REMARK 500 4 DT A 1 C6 - C5 - C7 ANGL. DEV. = -3.6 DEGREES REMARK 500 5 DT A 1 C6 - C5 - C7 ANGL. DEV. = -3.7 DEGREES REMARK 500 5 DT A 6 C6 - C5 - C7 ANGL. DEV. = -3.6 DEGREES REMARK 500 6 DT A 1 C6 - C5 - C7 ANGL. DEV. = -3.7 DEGREES REMARK 500 7 DT A 1 C6 - C5 - C7 ANGL. DEV. = -3.7 DEGREES REMARK 500 8 DT A 1 C6 - C5 - C7 ANGL. DEV. = -3.7 DEGREES REMARK 500 9 DT A 1 C6 - C5 - C7 ANGL. DEV. = -3.6 DEGREES REMARK 500 10 DT A 1 C6 - C5 - C7 ANGL. DEV. = -3.7 DEGREES REMARK 500 REMARK 500 REMARK: NULL REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2KF7 RELATED DB: PDB REMARK 900 STRUCTURE OF A TWO-G-TETRAD BASKET-TYPE INTRAMOLECULAR G-QUADRUPLEX REMARK 900 FORMED BY HUMAN TELOMERIC REPEATS IN K+ SOLUTION (7BRG) REMARK 900 RELATED ID: 2KF8 RELATED DB: PDB REMARK 900 STRUCTURE OF A TWO-G-TETRAD BASKET-TYPE INTRAMOLECULAR G-QUADRUPLEX REMARK 900 FORMED BY HUMAN TELOMERIC REPEATS IN K+ SOLUTION REMARK 900 RELATED ID: 2KM3 RELATED DB: PDB REMARK 900 STRUCTURE OF AN INTRAMOLECULAR G-QUADRUPLEX CONTAINING A G.C.G.C REMARK 900 TETRAD FORMED BY HUMAN TELOMERIC VARIANT CTAGGG REPEATS DBREF 2KOW A 1 20 PDB 2KOW 2KOW 1 20 SEQRES 1 A 20 DT DA DG DG DG DT DA DG DG DG DT DA DG SEQRES 2 A 20 DG DG DT DA DI 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 MODEL 1