HEADER DNA 04-OCT-02 1MYQ TITLE AN INTRAMOLECULAR QUADRUPLEX OF (GGA)(4) TRIPLET REPEAT DNA WITH A TITLE 2 G:G:G:G TETRAD AND A G(:A):G(:A):G(:A):G HEPTAD, AND ITS DIMERIC TITLE 3 INTERACTION COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-D(*GP*GP*AP*GP*GP*AP*GP*GP*AP*GP*GP*A)-3'; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES; COMPND 5 OTHER_DETAILS: K+ CATION STABILIZED SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES KEYWDS INTRAMOLECULAR PARALLEL QUADRUPLEX STRUCTURE, DIMERIC STRUCTURE, DNA EXPDTA SOLUTION NMR AUTHOR A.MATSUGAMI,K.OUHASHI,M.KANAGAWA,H.LIU,S.KANAGAWA,S.UESUGI,M.KATAHIRA REVDAT 4 22-MAY-24 1MYQ 1 REMARK REVDAT 3 23-FEB-22 1MYQ 1 REMARK REVDAT 2 24-FEB-09 1MYQ 1 VERSN REVDAT 1 23-OCT-02 1MYQ 0 JRNL AUTH A.MATSUGAMI,K.OUHASHI,M.KANAGAWA,H.LIU,S.KANAGAWA,S.UESUGI, JRNL AUTH 2 M.KATAHIRA JRNL TITL AN INTRAMOLECULAR QUADRUPLEX OF (GGA)(4) TRIPLET REPEAT DNA JRNL TITL 2 WITH A G:G:G:G TETRAD AND A G(:A):G(:A):G(:A):G HEPTAD, AND JRNL TITL 3 ITS DIMERIC INTERACTION. JRNL REF J.MOL.BIOL. V. 313 255 2001 JRNL REFN ISSN 0022-2836 JRNL PMID 11800555 JRNL DOI 10.1006/JMBI.2001.5047 REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE. REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR 3.851, X-PLOR 3.851 REMARK 3 AUTHORS : BRUNGER (X-PLOR), BRUNGER (X-PLOR) REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL REMARK 4 REMARK 4 1MYQ COMPLIES WITH FORMAT V. 3.30, 13-JUL-11 REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 04-OCT-02. REMARK 100 THE DEPOSITION ID IS D_1000017307. REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 274; 298 REMARK 210 PH : 6.5; 6.5 REMARK 210 IONIC STRENGTH : 100 MM KCL; 100 MM KCL REMARK 210 PRESSURE : AMBIENT; AMBIENT REMARK 210 SAMPLE CONTENTS : 2 MM DNA; 10 MM SODIUM PHOSPHATE REMARK 210 BUFFER (PH 6.5); 100 MM KCL;; 2 REMARK 210 MM DNA; 10 MM SODIUM PHOSPHATE REMARK 210 BUFFER (PH 6.5); REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY; 2D TOCSY; DQF-COSY REMARK 210 SPECTROMETER FIELD STRENGTH : 600 MHZ REMARK 210 SPECTROMETER MODEL : DRX REMARK 210 SPECTROMETER MANUFACTURER : BRUKER REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : NULL REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : NULL 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: DIMERIC REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B 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 O6 DG A 8 H61 DA A 12 1.47 REMARK 500 H1 DG B 19 O6 DG B 22 1.47 REMARK 500 H1 DG B 16 O6 DG B 19 1.50 REMARK 500 H1 DG A 4 O6 DG A 7 1.52 REMARK 500 N7 DG A 2 H21 DG A 11 1.54 REMARK 500 H22 DG A 1 N7 DA A 3 1.59 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 DG A 1 O4' - C1' - N9 ANGL. DEV. = 3.5 DEGREES REMARK 500 DG A 1 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 DG A 1 C8 - N9 - C4 ANGL. DEV. = -2.6 DEGREES REMARK 500 DG A 2 O4' - C1' - N9 ANGL. DEV. = 3.6 DEGREES REMARK 500 DG A 2 N7 - C8 - N9 ANGL. DEV. = 4.6 DEGREES REMARK 500 DG A 2 C8 - N9 - C4 ANGL. DEV. = -2.7 DEGREES REMARK 500 DA A 3 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 DA A 3 C8 - N9 - C4 ANGL. DEV. = -2.7 DEGREES REMARK 500 DG A 4 N7 - C8 - N9 ANGL. DEV. = 4.7 DEGREES REMARK 500 DG A 4 C8 - N9 - C4 ANGL. DEV. = -2.6 DEGREES REMARK 500 DG A 5 O4' - C1' - N9 ANGL. DEV. = 2.5 DEGREES REMARK 500 DG A 5 N7 - C8 - N9 ANGL. DEV. = 4.4 DEGREES REMARK 500 DG A 5 C8 - N9 - C4 ANGL. DEV. = -2.5 DEGREES REMARK 500 DA A 6 O4' - C1' - N9 ANGL. DEV. = 2.2 DEGREES REMARK 500 DA A 6 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 DG A 7 O4' - C1' - N9 ANGL. DEV. = 3.1 DEGREES REMARK 500 DG A 7 N7 - C8 - N9 ANGL. DEV. = 4.2 DEGREES REMARK 500 DG A 8 O4' - C1' - N9 ANGL. DEV. = 3.9 DEGREES REMARK 500 DG A 8 N7 - C8 - N9 ANGL. DEV. = 4.4 DEGREES REMARK 500 DG A 8 C8 - N9 - C4 ANGL. DEV. = -2.6 DEGREES REMARK 500 DA A 9 N7 - C8 - N9 ANGL. DEV. = 3.6 DEGREES REMARK 500 DA A 9 C8 - N9 - C4 ANGL. DEV. = -2.8 DEGREES REMARK 500 DG A 10 O4' - C1' - N9 ANGL. DEV. = 2.9 DEGREES REMARK 500 DG A 10 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 DG A 10 C8 - N9 - C4 ANGL. DEV. = -2.6 DEGREES REMARK 500 DG A 11 O4' - C1' - N9 ANGL. DEV. = 2.4 DEGREES REMARK 500 DG A 11 N7 - C8 - N9 ANGL. DEV. = 4.5 DEGREES REMARK 500 DG A 11 C8 - N9 - C4 ANGL. DEV. = -2.7 DEGREES REMARK 500 DA A 12 O4' - C1' - N9 ANGL. DEV. = 2.3 DEGREES REMARK 500 DA A 12 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 DG B 13 O4' - C1' - N9 ANGL. DEV. = 3.4 DEGREES REMARK 500 DG B 13 N7 - C8 - N9 ANGL. DEV. = 4.6 DEGREES REMARK 500 DG B 13 C8 - N9 - C4 ANGL. DEV. = -2.5 DEGREES REMARK 500 DG B 14 O4' - C1' - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 DG B 14 N7 - C8 - N9 ANGL. DEV. = 4.6 DEGREES REMARK 500 DG B 14 C8 - N9 - C4 ANGL. DEV. = -2.8 DEGREES REMARK 500 DA B 15 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 DA B 15 C8 - N9 - C4 ANGL. DEV. = -2.5 DEGREES REMARK 500 DG B 16 N7 - C8 - N9 ANGL. DEV. = 4.8 DEGREES REMARK 500 DG B 16 C8 - N9 - C4 ANGL. DEV. = -2.7 DEGREES REMARK 500 DG B 17 O4' - C1' - N9 ANGL. DEV. = 2.5 DEGREES REMARK 500 DG B 17 N7 - C8 - N9 ANGL. DEV. = 4.4 DEGREES REMARK 500 DG B 17 C8 - N9 - C4 ANGL. DEV. = -2.5 DEGREES REMARK 500 DA B 18 O4' - C1' - N9 ANGL. DEV. = 2.2 DEGREES REMARK 500 DA B 18 N7 - C8 - N9 ANGL. DEV. = 3.7 DEGREES REMARK 500 DA B 18 C8 - N9 - C4 ANGL. DEV. = -2.4 DEGREES REMARK 500 DG B 19 O4' - C1' - N9 ANGL. DEV. = 3.1 DEGREES REMARK 500 DG B 19 N7 - C8 - N9 ANGL. DEV. = 4.3 DEGREES REMARK 500 DG B 20 O4' - C1' - N9 ANGL. DEV. = 4.0 DEGREES REMARK 500 DG B 20 N7 - C8 - N9 ANGL. DEV. = 4.4 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 61 ANGLE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL DBREF 1MYQ A 1 12 PDB 1MYQ 1MYQ 1 12 DBREF 1MYQ B 13 24 PDB 1MYQ 1MYQ 13 24 SEQRES 1 A 12 DG DG DA DG DG DA DG DG DA DG DG DA SEQRES 1 B 12 DG DG DA DG DG DA DG DG DA DG DG 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