230D - Header Asymmetric Unit

HEADER DNA 24-AUG-95 230D

TITLE SOLUTION STRUCTURES OF UNIMOLECULAR QUADRUPLEXES FORMED BY TITLE 2 OLIGONUCLEOTIDES CONTAINING OXYTRICHA TELOMERE REPEATS

COMPND MOL_ID: 1; COMPND 2 MOLECULE: QUADRUPLEXES DNA; COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES

SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: CHEMICALLY SYNTHESIZED

KEYWDS DNA, NMR, QUADRUPLEX, OXYTRICHA TELOMERE REPEAT

EXPDTA SOLUTION NMR

NUMMDL 7

AUTHOR F.W.SMITH,P.SCHULTZE,J.FEIGON

REVDAT 2 24-FEB-09 230D 1 VERSN REVDAT 1 15-OCT-95 230D 0

JRNL AUTH F.W.SMITH,P.SCHULTZE,J.FEIGON JRNL TITL SOLUTION STRUCTURES OF UNIMOLECULAR QUADRUPLEXES JRNL TITL 2 FORMED BY OLIGONUCLEOTIDES CONTAINING OXYTRICHA JRNL TITL 3 TELOMERE REPEATS. JRNL REF STRUCTURE V. 3 997 1995 JRNL REFN ISSN 0969-2126 JRNL PMID 8590010 JRNL DOI 10.1016/S0969-2126(01)00236-2

REMARK 1 REMARK 1 REFERENCE 1 REMARK 1 AUTH F.W.SMITH,J.FEIGON REMARK 1 TITL QUADRUPLEX STRUCTURE OF OXYTRICHA TELOMERIC DNA REMARK 1 TITL 2 OLIGONUCLEOTIDES REMARK 1 REF NATURE V. 356 164 1992 REMARK 1 REFN ISSN 0028-0836

REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.

REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.1 REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: REFINEMENT PROCEDURE STEP (1) REMARK 3 SUBSTRUCTURE EMBEDDING ON 80 STRUCTURES STEP (2) TEMPLATE REMARK 3 FITTING AND REGULARIZATION BY SIMULATED ANNEALING (80 REMARK 3 STRUCTURES) STEP (3) SIMULATED ANNEALING AND ENERGY REMARK 3 MINIMIZATION (80 STRUCTURES) STEP (4) RELAXATION MATRIX REMARK 3 REFINEMENT ON THE BEST 7 OF 80 STRUCTURES

REMARK 4 REMARK 4 230D COMPLIES WITH FORMAT V. 3.15, 01-DEC-08

REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY BNL.

REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : NULL REMARK 210 PH : 6.0 REMARK 210 IONIC STRENGTH : 0.1M REMARK 210 PRESSURE : NULL REMARK 210 SAMPLE CONTENTS : 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 : SIMULATED ANNEALING, MATRIX REMARK 210 RELAXATION REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 80 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 7 REMARK 210 CONFORMERS, SELECTION CRITERIA : STRUCTURES WITH THE LOWEST REMARK 210 ENERGY 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 1 DT A 14 C5' DT A 14 C4' 0.060 REMARK 500 1 DT A 15 C5 DT A 15 C7 0.045 REMARK 500 2 DT A 14 C5' DT A 14 C4' 0.078 REMARK 500 2 DT A 15 C5 DT A 15 C7 0.037 REMARK 500 2 DT A 16 C5 DT A 16 C7 0.045 REMARK 500 3 DT A 5 C5 DT A 5 C7 0.044 REMARK 500 3 DT A 15 C5 DT A 15 C7 0.051 REMARK 500 3 DG A 17 C5' DG A 17 C4' 0.048 REMARK 500 4 DT A 5 C5 DT A 5 C7 0.037 REMARK 500 4 DT A 14 C5' DT A 14 C4' 0.064 REMARK 500 4 DT A 15 C5 DT A 15 C7 0.044 REMARK 500 5 DT A 14 C5' DT A 14 C4' 0.070 REMARK 500 5 DT A 15 C5 DT A 15 C7 0.042 REMARK 500 5 DT A 24 C5 DT A 24 C7 0.040 REMARK 500 6 DT A 14 C5' DT A 14 C4' 0.072 REMARK 500 6 DT A 15 C5 DT A 15 C7 0.045 REMARK 500 7 DT A 5 C5 DT A 5 C7 0.038 REMARK 500 7 DT A 14 C5' DT A 14 C4' 0.077 REMARK 500 7 DT A 16 C5 DT A 16 C7 0.038 REMARK 500 7 DT A 24 C5 DT A 24 C7 0.056 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 DG A 1 N7 - C8 - N9 ANGL. DEV. = 3.5 DEGREES REMARK 500 1 DG A 1 C8 - N9 - C4 ANGL. DEV. = -2.9 DEGREES REMARK 500 1 DG A 2 O4' - C1' - N9 ANGL. DEV. = 5.6 DEGREES REMARK 500 1 DG A 2 N7 - C8 - N9 ANGL. DEV. = 4.1 DEGREES REMARK 500 1 DG A 2 C8 - N9 - C4 ANGL. DEV. = -2.9 DEGREES REMARK 500 1 DG A 3 O4' - C1' - N9 ANGL. DEV. = 10.2 DEGREES REMARK 500 1 DG A 2 C3' - O3' - P ANGL. DEV. = 9.0 DEGREES REMARK 500 1 DG A 4 O4' - C1' - C2' ANGL. DEV. = -5.6 DEGREES REMARK 500 1 DG A 4 O4' - C1' - N9 ANGL. DEV. = 2.7 DEGREES REMARK 500 1 DG A 4 N7 - C8 - N9 ANGL. DEV. = 3.4 DEGREES REMARK 500 1 DG A 3 C3' - O3' - P ANGL. DEV. = 12.4 DEGREES REMARK 500 1 DT A 5 O4' - C1' - N1 ANGL. DEV. = 6.5 DEGREES REMARK 500 1 DG A 4 C3' - O3' - P ANGL. DEV. = 7.4 DEGREES REMARK 500 1 DT A 5 C3' - O3' - P ANGL. DEV. = 7.5 DEGREES REMARK 500 1 DT A 7 O4' - C1' - C2' ANGL. DEV. = -5.2 DEGREES REMARK 500 1 DT A 7 O4' - C1' - N1 ANGL. DEV. = 2.5 DEGREES REMARK 500 1 DT A 7 C4 - C5 - C6 ANGL. DEV. = 3.7 DEGREES REMARK 500 1 DG A 9 C1' - O4' - C4' ANGL. DEV. = -7.2 DEGREES REMARK 500 1 DG A 9 O4' - C1' - C2' ANGL. DEV. = -6.8 DEGREES REMARK 500 1 DG A 9 N9 - C1' - C2' ANGL. DEV. = 11.2 DEGREES REMARK 500 1 DG A 9 O4' - C1' - N9 ANGL. DEV. = 3.0 DEGREES REMARK 500 1 DG A 9 N7 - C8 - N9 ANGL. DEV. = 4.6 DEGREES REMARK 500 1 DG A 9 C8 - N9 - C4 ANGL. DEV. = -3.0 DEGREES REMARK 500 1 DG A 10 C5 - N7 - C8 ANGL. DEV. = -3.1 DEGREES REMARK 500 1 DG A 10 N7 - C8 - N9 ANGL. DEV. = 4.0 DEGREES REMARK 500 1 DG A 9 C3' - O3' - P ANGL. DEV. = 11.3 DEGREES REMARK 500 1 DG A 11 C1' - O4' - C4' ANGL. DEV. = -6.5 DEGREES REMARK 500 1 DG A 11 O4' - C1' - C2' ANGL. DEV. = -4.9 DEGREES REMARK 500 1 DG A 11 O4' - C1' - N9 ANGL. DEV. = 10.2 DEGREES REMARK 500 1 DG A 11 N7 - C8 - N9 ANGL. DEV. = 3.5 DEGREES REMARK 500 1 DG A 10 C3' - O3' - P ANGL. DEV. = 8.0 DEGREES REMARK 500 1 DG A 12 O4' - C1' - C2' ANGL. DEV. = -5.4 DEGREES REMARK 500 1 DG A 12 O4' - C1' - N9 ANGL. DEV. = 6.7 DEGREES REMARK 500 1 DG A 12 N7 - C8 - N9 ANGL. DEV. = 3.3 DEGREES REMARK 500 1 DT A 13 O4' - C1' - N1 ANGL. DEV. = 5.8 DEGREES REMARK 500 1 DT A 13 C6 - C5 - C7 ANGL. DEV. = -4.8 DEGREES REMARK 500 1 DT A 14 O4' - C1' - C2' ANGL. DEV. = -5.2 DEGREES REMARK 500 1 DT A 14 O4' - C1' - N1 ANGL. DEV. = 2.9 DEGREES REMARK 500 1 DT A 15 O4' - C1' - C2' ANGL. DEV. = -5.0 DEGREES REMARK 500 1 DT A 15 O4' - C1' - N1 ANGL. DEV. = 1.9 DEGREES REMARK 500 1 DT A 16 O4' - C1' - N1 ANGL. DEV. = 10.0 DEGREES REMARK 500 1 DG A 17 O4' - C1' - N9 ANGL. DEV. = 12.9 DEGREES REMARK 500 1 DG A 18 O4' - C1' - N9 ANGL. DEV. = 8.7 DEGREES REMARK 500 1 DG A 18 N7 - C8 - N9 ANGL. DEV. = 3.6 DEGREES REMARK 500 1 DG A 18 C8 - N9 - C4 ANGL. DEV. = -2.8 DEGREES REMARK 500 1 DG A 17 C3' - O3' - P ANGL. DEV. = 10.4 DEGREES REMARK 500 1 DG A 19 O4' - C1' - C2' ANGL. DEV. = -6.1 DEGREES REMARK 500 1 DG A 19 O4' - C1' - N9 ANGL. DEV. = 8.3 DEGREES REMARK 500 1 DG A 19 N7 - C8 - N9 ANGL. DEV. = 3.8 DEGREES REMARK 500 1 DG A 19 C8 - N9 - C4 ANGL. DEV. = -3.3 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 463 ANGLE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL

DBREF 230D A 1 28 PDB 230D 230D 1 28

SEQRES 1 A 28 DG DG DG DG DT DU DT DU DG DG DG DG DT SEQRES 2 A 28 DT DT DT DG DG DG DG DU DU DT DT DG DG SEQRES 3 A 28 DG DI

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