1YBR - Header Asymmetric Unit

HEADER DNA 21-DEC-04 1YBR

TITLE SOLUTION STRUCTURE OF THE 5'E TOPOLOGY OF THE I-MOTIF TITLE 2 TETRAMER OF D(CCCCAA)

COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-D(*CP*CP*CP*CP*AP*A)-3'; COMPND 3 CHAIN: A, B, C, D; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: I-MOTIF WITH A DISTINCT TOPOLOGY

SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES

KEYWDS DNA; I-MOTIF; HEMIPROTONATED CYTIDINE; TETRAHYMENA; TELOMER

EXPDTA SOLUTION NMR

AUTHOR N.ESMAILI,J.-L.LEROY

REVDAT 3 24-FEB-09 1YBR 1 VERSN REVDAT 2 15-FEB-05 1YBR 1 JRNL REVDAT 1 11-JAN-05 1YBR 0

JRNL AUTH N.ESMAILI,J.-L.LEROY JRNL TITL I-MOTIF SOLUTION STRUCTURE AND DYNAMICS OF THE JRNL TITL 2 D(AACCCC) AND D(CCCCAA) TETRAHYMENA TELOMERIC JRNL TITL 3 REPEATS JRNL REF NUCLEIC ACIDS RES. V. 33 213 2005 JRNL REFN ISSN 0305-1048 JRNL PMID 15647504 JRNL DOI 10.1093/NAR/GKI160

REMARK 1

REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.

REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.851 REMARK 3 AUTHORS : BRUNGER, A.T. REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: 352 NOE-DERIVED DISTANCES RESTRAINTS REMARK 3 AND 12 H-BONDING RESTRAINTS DERIVED FROM PROTON EXCHANGE REMARK 3 MEASUREMENTS

REMARK 4 REMARK 4 1YBR COMPLIES WITH FORMAT V. 3.15, 01-DEC-08

REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 27-DEC-04. REMARK 100 THE RCSB ID CODE IS RCSB031353.

REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 0 REMARK 210 PH : 4.5 REMARK 210 IONIC STRENGTH : NO ADDED SALT REMARK 210 PRESSURE : NORMAL REMARK 210 SAMPLE CONTENTS : PH 4.5 REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY, 2D TOCSY, HMBC REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ REMARK 210 SPECTROMETER MODEL : GX REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : X-PLOR 3.851 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 10 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 1 REMARK 210 CONFORMERS, SELECTION CRITERIA : BACK CALCULATED DATA AGREE REMARK 210 WITH EXPERIMENTAL NOESY REMARK 210 SPECTRUM REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : 1 REMARK 210 REMARK 210 REMARK: STANDARD 2D METHODS

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 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 DC A 1 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 DC A 2 O4' - C1' - N1 ANGL. DEV. = 2.6 DEGREES REMARK 500 DC A 3 O4' - C1' - N1 ANGL. DEV. = 2.7 DEGREES REMARK 500 DC A 4 O4' - C1' - N1 ANGL. DEV. = 1.9 DEGREES REMARK 500 DA A 5 O4' - C1' - N9 ANGL. DEV. = 2.7 DEGREES REMARK 500 DA A 5 N7 - C8 - N9 ANGL. DEV. = 3.8 DEGREES REMARK 500 DA A 6 O4' - C1' - N9 ANGL. DEV. = 2.6 DEGREES REMARK 500 DA A 6 N7 - C8 - N9 ANGL. DEV. = 3.6 DEGREES REMARK 500 DC B 1 O4' - C1' - N1 ANGL. DEV. = 2.1 DEGREES REMARK 500 DC B 2 O4' - C1' - N1 ANGL. DEV. = 2.6 DEGREES REMARK 500 DC B 3 O4' - C1' - N1 ANGL. DEV. = 2.6 DEGREES REMARK 500 DC B 4 O4' - C1' - N1 ANGL. DEV. = 1.9 DEGREES REMARK 500 DA B 5 O4' - C1' - N9 ANGL. DEV. = 2.7 DEGREES REMARK 500 DA B 5 N7 - C8 - N9 ANGL. DEV. = 3.8 DEGREES REMARK 500 DA B 6 O4' - C1' - N9 ANGL. DEV. = 2.7 DEGREES REMARK 500 DA B 6 N7 - C8 - N9 ANGL. DEV. = 3.5 DEGREES REMARK 500 DC C 1 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 DC C 2 O4' - C1' - N1 ANGL. DEV. = 2.7 DEGREES REMARK 500 DC C 3 O4' - C1' - N1 ANGL. DEV. = 2.6 DEGREES REMARK 500 DC C 4 O4' - C1' - N1 ANGL. DEV. = 1.9 DEGREES REMARK 500 DA C 5 O4' - C1' - N9 ANGL. DEV. = 2.7 DEGREES REMARK 500 DA C 5 N7 - C8 - N9 ANGL. DEV. = 3.8 DEGREES REMARK 500 DA C 6 O4' - C1' - N9 ANGL. DEV. = 2.7 DEGREES REMARK 500 DA C 6 N7 - C8 - N9 ANGL. DEV. = 3.5 DEGREES REMARK 500 DC D 1 O4' - C1' - N1 ANGL. DEV. = 2.1 DEGREES REMARK 500 DC D 2 O4' - C1' - N1 ANGL. DEV. = 2.6 DEGREES REMARK 500 DC D 3 O4' - C1' - N1 ANGL. DEV. = 2.6 DEGREES REMARK 500 DC D 4 O4' - C1' - N1 ANGL. DEV. = 1.9 DEGREES REMARK 500 DA D 5 O4' - C1' - N9 ANGL. DEV. = 2.7 DEGREES REMARK 500 DA D 5 N7 - C8 - N9 ANGL. DEV. = 3.8 DEGREES REMARK 500 DA D 6 O4' - C1' - N9 ANGL. DEV. = 2.7 DEGREES REMARK 500 DA D 6 N7 - C8 - N9 ANGL. DEV. = 3.5 DEGREES REMARK 500 REMARK 500 REMARK: NULL

REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 294D RELATED DB: PDB REMARK 900 THE X-RAY STRUCTURE OF THE SAME I-MOTIF TETRAMER REMARK 900 RELATED ID: 1YBL RELATED DB: PDB REMARK 900 I-MOTIF, DIFFERENT SEQUENCE REMARK 900 RELATED ID: 1YBN RELATED DB: PDB REMARK 900 I-MOTIF, DISTINCT TOPOLOGY, SAME SEQUENCE

DBREF 1YBR A 1 6 PDB 1YBR 1YBR 1 6 DBREF 1YBR B 1 6 PDB 1YBR 1YBR 1 6 DBREF 1YBR C 1 6 PDB 1YBR 1YBR 1 6 DBREF 1YBR D 1 6 PDB 1YBR 1YBR 1 6

SEQRES 1 A 6 DC DC DC DC DA DA SEQRES 1 B 6 DC DC DC DC DA DA SEQRES 1 C 6 DC DC DC DC DA DA SEQRES 1 D 6 DC DC DC DC DA DA

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