1JVC - Header Asymmetric Unit

HEADER DNA 29-AUG-01 1JVC

TITLE DIMERIC DNA QUADRUPLEX CONTAINING MAJOR GROOVE-ALIGNED TITLE 2 A.T.A.T AND G.C.G.C TETRADS STABILIZED BY INTER-SUBUNIT TITLE 3 WATSON-CRICK A:T AND G:C PAIRS

COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-D(*GP*AP*GP*CP*AP*GP*GP*T)-3'; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES

SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES

KEYWDS ATAT AND GCGC TETRADS, DIMERIC DNA QUADRUPLEX, HYDROGEN KEYWDS 2 BOND ALIGNMENTS, INTER-SUBUNIT WATSON-CRICK PAIRS

EXPDTA SOLUTION NMR

NUMMDL 10

AUTHOR N.ZHANG,A.GORIN,A.MAJUMDAR,A.KETTANI,N.CHERNICHENKO, AUTHOR 2 E.SKRIPKIN,D.J.PATEL

REVDAT 3 24-FEB-09 1JVC 1 VERSN REVDAT 2 01-APR-03 1JVC 1 JRNL REVDAT 1 24-OCT-01 1JVC 0

JRNL AUTH N.ZHANG,A.GORIN,A.MAJUMDAR,A.KETTANI, JRNL AUTH 2 N.CHERNICHENKO,E.SKRIPKIN,D.J.PATEL JRNL TITL DIMERIC DNA QUADRUPLEX CONTAINING MAJOR JRNL TITL 2 GROOVE-ALIGNED A-T-A-T AND G-C-G-C TETRADS JRNL TITL 3 STABILIZED BY INTER-SUBUNIT WATSON-CRICK A-T AND JRNL TITL 4 G-C PAIRS. JRNL REF J.MOL.BIOL. V. 312 1073 2001 JRNL REFN ISSN 0022-2836 JRNL PMID 11580251 JRNL DOI 10.1006/JMBI.2001.5002

REMARK 1

REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.

REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.81 REMARK 3 AUTHORS : A. BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: DESCRIBED IN THE PRIMARY CITATION

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

REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 06-SEP-01. REMARK 100 THE RCSB ID CODE IS RCSB014225.

REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 273 REMARK 210 PH : 6.6 REMARK 210 IONIC STRENGTH : 1M NACL, 2MM PHOSPHATE REMARK 210 PRESSURE : 1 ATM REMARK 210 SAMPLE CONTENTS : 1M NACL, 2MM PHOSPHATE REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY, COSY, TOCSY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : UNITY REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : MOLECULAR DYNAMICS WITH REMARK 210 SIMULATED ANNEALING METHOD IN REMARK 210 TORSIONAL SPACE REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 60 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 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: 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 9 DG A 1 C8 DG A 1 N9 -0.044 REMARK 500 9 DG B 1 C8 DG B 1 N9 -0.043 REMARK 500 10 DG A 1 C8 DG A 1 N9 -0.047 REMARK 500 10 DG B 1 C8 DG B 1 N9 -0.047 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 C4' - C3' - C2' ANGL. DEV. = -6.2 DEGREES REMARK 500 1 DG A 1 O4' - C1' - N9 ANGL. DEV. = 2.0 DEGREES REMARK 500 1 DA A 2 O4' - C4' - C3' ANGL. DEV. = -2.7 DEGREES REMARK 500 1 DA A 2 C1' - O4' - C4' ANGL. DEV. = -6.3 DEGREES REMARK 500 1 DA A 2 O4' - C1' - N9 ANGL. DEV. = -9.0 DEGREES REMARK 500 1 DG A 3 O4' - C4' - C3' ANGL. DEV. = -3.3 DEGREES REMARK 500 1 DG A 3 C1' - O4' - C4' ANGL. DEV. = -7.3 DEGREES REMARK 500 1 DC A 4 O4' - C4' - C3' ANGL. DEV. = -6.3 DEGREES REMARK 500 1 DC A 4 C5' - C4' - O4' ANGL. DEV. = 8.2 DEGREES REMARK 500 1 DC A 4 C4' - C3' - O3' ANGL. DEV. = 12.1 DEGREES REMARK 500 1 DC A 4 O4' - C1' - C2' ANGL. DEV. = -5.1 DEGREES REMARK 500 1 DC A 4 O4' - C1' - N1 ANGL. DEV. = 6.6 DEGREES REMARK 500 1 DC A 4 N1 - C2 - O2 ANGL. DEV. = 4.6 DEGREES REMARK 500 1 DA A 5 C1' - O4' - C4' ANGL. DEV. = -7.2 DEGREES REMARK 500 1 DA A 5 O4' - C1' - N9 ANGL. DEV. = 11.1 DEGREES REMARK 500 1 DG A 6 O4' - C1' - C2' ANGL. DEV. = -12.2 DEGREES REMARK 500 1 DG A 6 C5 - C6 - O6 ANGL. DEV. = -4.0 DEGREES REMARK 500 1 DG A 7 C4' - C3' - C2' ANGL. DEV. = -4.3 DEGREES REMARK 500 1 DG A 7 O4' - C1' - C2' ANGL. DEV. = -12.5 DEGREES REMARK 500 1 DG A 7 O4' - C1' - N9 ANGL. DEV. = 7.6 DEGREES REMARK 500 1 DT A 8 C6 - C5 - C7 ANGL. DEV. = -5.4 DEGREES REMARK 500 1 DG B 1 C4' - C3' - C2' ANGL. DEV. = -6.3 DEGREES REMARK 500 1 DG B 1 O4' - C1' - N9 ANGL. DEV. = 2.0 DEGREES REMARK 500 1 DA B 2 O4' - C4' - C3' ANGL. DEV. = -2.6 DEGREES REMARK 500 1 DA B 2 C1' - O4' - C4' ANGL. DEV. = -6.3 DEGREES REMARK 500 1 DA B 2 O4' - C1' - N9 ANGL. DEV. = -9.0 DEGREES REMARK 500 1 DG B 3 O4' - C4' - C3' ANGL. DEV. = -3.3 DEGREES REMARK 500 1 DG B 3 C1' - O4' - C4' ANGL. DEV. = -7.3 DEGREES REMARK 500 1 DC B 4 O4' - C4' - C3' ANGL. DEV. = -6.3 DEGREES REMARK 500 1 DC B 4 C5' - C4' - O4' ANGL. DEV. = 8.1 DEGREES REMARK 500 1 DC B 4 C4' - C3' - O3' ANGL. DEV. = 12.1 DEGREES REMARK 500 1 DC B 4 O4' - C1' - C2' ANGL. DEV. = -5.1 DEGREES REMARK 500 1 DC B 4 O4' - C1' - N1 ANGL. DEV. = 6.6 DEGREES REMARK 500 1 DC B 4 N1 - C2 - O2 ANGL. DEV. = 4.5 DEGREES REMARK 500 1 DA B 5 C1' - O4' - C4' ANGL. DEV. = -7.1 DEGREES REMARK 500 1 DA B 5 O4' - C1' - N9 ANGL. DEV. = 11.1 DEGREES REMARK 500 1 DG B 6 O4' - C1' - C2' ANGL. DEV. = -12.1 DEGREES REMARK 500 1 DG B 6 C5 - C6 - O6 ANGL. DEV. = -4.0 DEGREES REMARK 500 1 DG B 7 C4' - C3' - C2' ANGL. DEV. = -4.3 DEGREES REMARK 500 1 DG B 7 O4' - C1' - C2' ANGL. DEV. = -12.5 DEGREES REMARK 500 1 DG B 7 O4' - C1' - N9 ANGL. DEV. = 7.6 DEGREES REMARK 500 1 DT B 8 C6 - C5 - C7 ANGL. DEV. = -5.4 DEGREES REMARK 500 2 DG A 1 C4' - C3' - C2' ANGL. DEV. = -6.1 DEGREES REMARK 500 2 DA A 2 O4' - C4' - C3' ANGL. DEV. = -2.7 DEGREES REMARK 500 2 DA A 2 C1' - O4' - C4' ANGL. DEV. = -6.1 DEGREES REMARK 500 2 DA A 2 O4' - C1' - N9 ANGL. DEV. = -8.9 DEGREES REMARK 500 2 DG A 3 O4' - C4' - C3' ANGL. DEV. = -3.2 DEGREES REMARK 500 2 DG A 3 C1' - O4' - C4' ANGL. DEV. = -7.2 DEGREES REMARK 500 2 DC A 4 O4' - C4' - C3' ANGL. DEV. = -5.9 DEGREES REMARK 500 2 DC A 4 C5' - C4' - O4' ANGL. DEV. = 7.7 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 485 ANGLE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL

DBREF 1JVC A 1 8 PDB 1JVC 1JVC 1 8 DBREF 1JVC B 1 8 PDB 1JVC 1JVC 1 8

SEQRES 1 A 8 DG DA DG DC DA DG DG DT SEQRES 1 B 8 DG DA DG DC DA DG DG DT

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