10 20 30 40 50 60 70 80 1KKW - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER DNA 10-DEC-01 1KKW
TITLE NMR SOLUTION STRUCTURE OF D(CCATGCGTGG)2, G-T MISMATCH TITLE 2 STRUCTURE
COMPND MOL_ID: 1; COMPND 2 MOLECULE: 5'-D(*CP*CP*AP*TP*GP*CP*GP*TP*GP*G)-3'; COMPND 3 CHAIN: A, B; COMPND 4 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: SYNTHESIZED FROM PHOSPHORAMADITES ON SOLID SOURCE 4 SUPPORT
KEYWDS G-T MISMATCH, DYNAMICS, SPIN RELAXATION, ORDER PARAMETER, KEYWDS 2 HELICAL PARAMETER, SEQUENCE DEPENDENT STRUCTURE, SEQUENCE KEYWDS 3 DEPENDENT DYNAMICS, DNA
EXPDTA SOLUTION NMR
NUMMDL 20
AUTHOR R.J.ISAACS,H.P.SPIELMANN
REVDAT 2 24-FEB-09 1KKW 1 VERSN REVDAT 1 19-JUN-02 1KKW 0
JRNL AUTH R.J.ISAACS,W.S.RAYENS,H.P.SPIELMANN JRNL TITL STRUCTURAL DIFFERENCES IN THE NOE-DERIVED JRNL TITL 2 STRUCTURE OF G-T MISMATCHED DNA RELATIVE TO NORMAL JRNL TITL 3 DNA ARE CORRELATED WITH DIFFERENCES IN (13)C JRNL TITL 4 RELAXATION-BASED INTERNAL DYNAMICS. JRNL REF J.MOL.BIOL. V. 319 191 2002 JRNL REFN ISSN 0022-2836 JRNL PMID 12051946 JRNL DOI 10.1016/S0022-2836(02)00265-6
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : DISCOVER 2.98 REMARK 3 AUTHORS : ACCELRYS REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL
REMARK 4 REMARK 4 1KKW COMPLIES WITH FORMAT V. 3.15, 01-DEC-08
REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY RCSB ON 12-DEC-01. REMARK 100 THE RCSB ID CODE IS RCSB015063.
REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.0 REMARK 210 IONIC STRENGTH : 200 MM NACL, 20 MM NAPO4, 10 REMARK 210 MM NAN3, 0.1 MM EDTA REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 4 MM DOUBLE STRAND DNA REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY REMARK 210 SPECTROMETER FIELD STRENGTH : 500 MHZ REMARK 210 SPECTROMETER MODEL : INOVA REMARK 210 SPECTROMETER MANUFACTURER : VARIAN REMARK 210 REMARK 210 STRUCTURE DETERMINATION. REMARK 210 SOFTWARE USED : VNMR 6B, FELIX 98.0, REMARK 210 MARDIGRAS 1, DISCOVER 2.98 REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 20 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 20 REMARK 210 CONFORMERS, SELECTION CRITERIA : ALL CALCULATED STRUCTURES REMARK 210 SUBMITTED, BACK CALCULATED REMARK 210 DATA AGREE WITH EXPERIMENTAL REMARK 210 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 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 DC A 1 O4' - C1' - N1 ANGL. DEV. = 4.4 DEGREES REMARK 500 1 DT A 4 O4' - C1' - N1 ANGL. DEV. = 2.3 DEGREES REMARK 500 1 DT A 4 C6 - C5 - C7 ANGL. DEV. = -3.9 DEGREES REMARK 500 1 DC A 6 O4' - C4' - C3' ANGL. DEV. = 3.9 DEGREES REMARK 500 1 DT A 8 O4' - C1' - N1 ANGL. DEV. = 2.1 DEGREES REMARK 500 1 DG A 9 O4' - C1' - N9 ANGL. DEV. = 2.4 DEGREES REMARK 500 1 DG A 10 O4' - C1' - N9 ANGL. DEV. = 5.0 DEGREES REMARK 500 1 DC B 1 O4' - C1' - N1 ANGL. DEV. = 4.2 DEGREES REMARK 500 1 DT B 4 O4' - C1' - N1 ANGL. DEV. = 1.9 DEGREES REMARK 500 1 DT B 4 C6 - C5 - C7 ANGL. DEV. = -3.9 DEGREES REMARK 500 1 DC B 6 O4' - C4' - C3' ANGL. DEV. = 3.9 DEGREES REMARK 500 1 DT B 8 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 1 DG B 9 O4' - C1' - N9 ANGL. DEV. = 2.3 DEGREES REMARK 500 1 DG B 10 O4' - C1' - N9 ANGL. DEV. = 5.0 DEGREES REMARK 500 2 DC A 1 O4' - C1' - N1 ANGL. DEV. = 4.3 DEGREES REMARK 500 2 DT A 4 O4' - C1' - N1 ANGL. DEV. = 2.3 DEGREES REMARK 500 2 DT A 4 C6 - C5 - C7 ANGL. DEV. = -3.9 DEGREES REMARK 500 2 DC A 6 O4' - C4' - C3' ANGL. DEV. = 3.8 DEGREES REMARK 500 2 DT A 8 O4' - C1' - N1 ANGL. DEV. = 2.1 DEGREES REMARK 500 2 DG A 9 O4' - C1' - N9 ANGL. DEV. = 2.3 DEGREES REMARK 500 2 DG A 10 O4' - C1' - N9 ANGL. DEV. = 4.8 DEGREES REMARK 500 2 DC B 1 O4' - C1' - N1 ANGL. DEV. = 4.4 DEGREES REMARK 500 2 DT B 4 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 2 DT B 4 C6 - C5 - C7 ANGL. DEV. = -3.9 DEGREES REMARK 500 2 DC B 6 O4' - C4' - C3' ANGL. DEV. = 3.9 DEGREES REMARK 500 2 DT B 8 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 2 DG B 9 O4' - C1' - N9 ANGL. DEV. = 2.3 DEGREES REMARK 500 2 DG B 10 O4' - C1' - N9 ANGL. DEV. = 5.0 DEGREES REMARK 500 3 DC A 1 O4' - C1' - N1 ANGL. DEV. = 4.4 DEGREES REMARK 500 3 DT A 4 O4' - C1' - N1 ANGL. DEV. = 2.3 DEGREES REMARK 500 3 DT A 4 C6 - C5 - C7 ANGL. DEV. = -3.8 DEGREES REMARK 500 3 DC A 6 O4' - C4' - C3' ANGL. DEV. = 3.9 DEGREES REMARK 500 3 DT A 8 O4' - C1' - N1 ANGL. DEV. = 2.1 DEGREES REMARK 500 3 DG A 9 O4' - C1' - N9 ANGL. DEV. = 2.4 DEGREES REMARK 500 3 DG A 10 O4' - C1' - N9 ANGL. DEV. = 5.0 DEGREES REMARK 500 3 DC B 1 O4' - C1' - N1 ANGL. DEV. = 4.2 DEGREES REMARK 500 3 DT B 4 O4' - C1' - N1 ANGL. DEV. = 1.8 DEGREES REMARK 500 3 DT B 4 C6 - C5 - C7 ANGL. DEV. = -3.8 DEGREES REMARK 500 3 DC B 6 O4' - C4' - C3' ANGL. DEV. = 3.8 DEGREES REMARK 500 3 DT B 8 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 3 DG B 9 O4' - C1' - N9 ANGL. DEV. = 2.3 DEGREES REMARK 500 3 DG B 10 O4' - C1' - N9 ANGL. DEV. = 4.9 DEGREES REMARK 500 4 DC A 1 O4' - C1' - N1 ANGL. DEV. = 4.1 DEGREES REMARK 500 4 DT A 4 C6 - C5 - C7 ANGL. DEV. = -3.9 DEGREES REMARK 500 4 DC A 6 O4' - C4' - C3' ANGL. DEV. = 3.9 DEGREES REMARK 500 4 DT A 8 O4' - C1' - N1 ANGL. DEV. = 2.0 DEGREES REMARK 500 4 DG A 9 O4' - C1' - N9 ANGL. DEV. = 2.4 DEGREES REMARK 500 4 DG A 10 O4' - C1' - N9 ANGL. DEV. = 4.9 DEGREES REMARK 500 4 DC B 1 O4' - C1' - N1 ANGL. DEV. = 4.4 DEGREES REMARK 500 4 DT B 4 O4' - C1' - N1 ANGL. DEV. = 1.9 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 276 ANGLE DEVIATIONS. REMARK 500 REMARK 500 REMARK: NULL REMARK 500 REMARK 500 GEOMETRY AND STEREOCHEMISTRY REMARK 500 SUBTOPIC: PLANAR GROUPS REMARK 500 REMARK 500 PLANAR GROUPS IN THE FOLLOWING RESIDUES HAVE A TOTAL REMARK 500 RMS DISTANCE OF ALL ATOMS FROM THE BEST-FIT PLANE REMARK 500 BY MORE THAN AN EXPECTED VALUE OF 6*RMSD, WITH AN REMARK 500 RMSD 0.02 ANGSTROMS, OR AT LEAST ONE ATOM HAS REMARK 500 AN RMSD GREATER THAN THIS VALUE REMARK 500 (M=MODEL NUMBER; RES=RESIDUE NAME; C=CHAIN IDENTIFIER; REMARK 500 SSEQ=SEQUENCE NUMBER; I=INSERTION CODE). REMARK 500 REMARK 500 M RES CSSEQI RMS TYPE REMARK 500 1 DC A 2 0.07 SIDE_CHAIN REMARK 500 1 DA A 3 0.06 SIDE_CHAIN REMARK 500 1 DG A 9 0.07 SIDE_CHAIN REMARK 500 1 DC B 2 0.07 SIDE_CHAIN REMARK 500 1 DA B 3 0.05 SIDE_CHAIN REMARK 500 1 DG B 9 0.07 SIDE_CHAIN REMARK 500 2 DC A 2 0.07 SIDE_CHAIN REMARK 500 2 DA A 3 0.06 SIDE_CHAIN REMARK 500 2 DG A 9 0.07 SIDE_CHAIN REMARK 500 2 DC B 2 0.07 SIDE_CHAIN REMARK 500 2 DA B 3 0.05 SIDE_CHAIN REMARK 500 2 DG B 9 0.07 SIDE_CHAIN REMARK 500 3 DC A 2 0.07 SIDE_CHAIN REMARK 500 3 DA A 3 0.06 SIDE_CHAIN REMARK 500 3 DG A 9 0.07 SIDE_CHAIN REMARK 500 3 DC B 2 0.07 SIDE_CHAIN REMARK 500 3 DA B 3 0.05 SIDE_CHAIN REMARK 500 3 DG B 9 0.07 SIDE_CHAIN REMARK 500 4 DA A 3 0.06 SIDE_CHAIN REMARK 500 4 DG A 9 0.07 SIDE_CHAIN REMARK 500 4 DC B 2 0.07 SIDE_CHAIN REMARK 500 4 DA B 3 0.06 SIDE_CHAIN REMARK 500 4 DG B 9 0.07 SIDE_CHAIN REMARK 500 4 DG B 10 0.05 SIDE_CHAIN REMARK 500 5 DC A 2 0.07 SIDE_CHAIN REMARK 500 5 DA A 3 0.06 SIDE_CHAIN REMARK 500 5 DG A 9 0.07 SIDE_CHAIN REMARK 500 5 DC B 2 0.06 SIDE_CHAIN REMARK 500 5 DA B 3 0.05 SIDE_CHAIN REMARK 500 5 DG B 9 0.07 SIDE_CHAIN REMARK 500 6 DC A 2 0.07 SIDE_CHAIN REMARK 500 6 DA A 3 0.06 SIDE_CHAIN REMARK 500 6 DG A 9 0.07 SIDE_CHAIN REMARK 500 6 DC B 2 0.07 SIDE_CHAIN REMARK 500 6 DA B 3 0.05 SIDE_CHAIN REMARK 500 6 DG B 9 0.07 SIDE_CHAIN REMARK 500 7 DC A 2 0.07 SIDE_CHAIN REMARK 500 7 DA A 3 0.06 SIDE_CHAIN REMARK 500 7 DG A 9 0.09 SIDE_CHAIN REMARK 500 7 DC B 2 0.06 SIDE_CHAIN REMARK 500 7 DA B 3 0.06 SIDE_CHAIN REMARK 500 7 DG B 9 0.07 SIDE_CHAIN REMARK 500 8 DC A 2 0.07 SIDE_CHAIN REMARK 500 8 DA A 3 0.06 SIDE_CHAIN REMARK 500 8 DG A 9 0.07 SIDE_CHAIN REMARK 500 8 DC B 2 0.07 SIDE_CHAIN REMARK 500 8 DA B 3 0.05 SIDE_CHAIN REMARK 500 8 DG B 9 0.07 SIDE_CHAIN REMARK 500 9 DC A 2 0.07 SIDE_CHAIN REMARK 500 9 DA A 3 0.06 SIDE_CHAIN REMARK 500 9 DG A 9 0.06 SIDE_CHAIN REMARK 500 9 DA B 3 0.05 SIDE_CHAIN REMARK 500 9 DG B 9 0.07 SIDE_CHAIN REMARK 500 10 DC A 2 0.07 SIDE_CHAIN REMARK 500 10 DA A 3 0.06 SIDE_CHAIN REMARK 500 10 DG A 9 0.06 SIDE_CHAIN REMARK 500 10 DC B 1 0.06 SIDE_CHAIN REMARK 500 10 DG B 9 0.07 SIDE_CHAIN REMARK 500 11 DC A 2 0.07 SIDE_CHAIN REMARK 500 11 DA A 3 0.06 SIDE_CHAIN REMARK 500 11 DG A 9 0.06 SIDE_CHAIN REMARK 500 11 DA B 3 0.05 SIDE_CHAIN REMARK 500 11 DG B 9 0.07 SIDE_CHAIN REMARK 500 12 DC A 2 0.07 SIDE_CHAIN REMARK 500 12 DA A 3 0.06 SIDE_CHAIN REMARK 500 12 DG A 9 0.09 SIDE_CHAIN REMARK 500 12 DC B 2 0.06 SIDE_CHAIN REMARK 500 12 DA B 3 0.05 SIDE_CHAIN REMARK 500 12 DG B 9 0.07 SIDE_CHAIN REMARK 500 13 DC A 2 0.07 SIDE_CHAIN REMARK 500 13 DA A 3 0.06 SIDE_CHAIN REMARK 500 13 DG A 9 0.09 SIDE_CHAIN REMARK 500 13 DG B 9 0.07 SIDE_CHAIN REMARK 500 14 DC A 2 0.07 SIDE_CHAIN REMARK 500 14 DA A 3 0.06 SIDE_CHAIN REMARK 500 14 DG A 9 0.07 SIDE_CHAIN REMARK 500 14 DC B 2 0.07 SIDE_CHAIN REMARK 500 14 DA B 3 0.06 SIDE_CHAIN REMARK 500 14 DG B 9 0.07 SIDE_CHAIN REMARK 500 15 DC A 2 0.07 SIDE_CHAIN REMARK 500 15 DA A 3 0.06 SIDE_CHAIN REMARK 500 15 DG A 9 0.07 SIDE_CHAIN REMARK 500 15 DG A 10 0.06 SIDE_CHAIN REMARK 500 15 DG B 9 0.07 SIDE_CHAIN REMARK 500 16 DC A 2 0.07 SIDE_CHAIN REMARK 500 16 DA A 3 0.06 SIDE_CHAIN REMARK 500 16 DG A 9 0.07 SIDE_CHAIN REMARK 500 16 DC B 2 0.07 SIDE_CHAIN REMARK 500 16 DA B 3 0.05 SIDE_CHAIN REMARK 500 16 DG B 9 0.07 SIDE_CHAIN REMARK 500 17 DC A 2 0.07 SIDE_CHAIN REMARK 500 17 DA A 3 0.06 SIDE_CHAIN REMARK 500 17 DG A 9 0.07 SIDE_CHAIN REMARK 500 17 DC B 2 0.07 SIDE_CHAIN REMARK 500 17 DA B 3 0.05 SIDE_CHAIN REMARK 500 17 DG B 9 0.07 SIDE_CHAIN REMARK 500 18 DC A 2 0.07 SIDE_CHAIN REMARK 500 18 DA A 3 0.06 SIDE_CHAIN REMARK 500 18 DG A 9 0.07 SIDE_CHAIN REMARK 500 18 DC B 2 0.07 SIDE_CHAIN REMARK 500 18 DA B 3 0.05 SIDE_CHAIN REMARK 500 18 DG B 9 0.07 SIDE_CHAIN REMARK 500 19 DC A 2 0.07 SIDE_CHAIN REMARK 500 19 DA A 3 0.06 SIDE_CHAIN REMARK 500 19 DG A 9 0.07 SIDE_CHAIN REMARK 500 19 DC B 2 0.07 SIDE_CHAIN REMARK 500 19 DA B 3 0.05 SIDE_CHAIN REMARK 500 19 DG B 9 0.07 SIDE_CHAIN REMARK 500 20 DC A 2 0.07 SIDE_CHAIN REMARK 500 20 DA A 3 0.06 SIDE_CHAIN REMARK 500 20 DG A 9 0.07 SIDE_CHAIN REMARK 500 20 DC B 2 0.06 SIDE_CHAIN REMARK 500 20 DA B 3 0.05 SIDE_CHAIN REMARK 500 20 DG B 9 0.07 SIDE_CHAIN REMARK 500 REMARK 500 REMARK: NULL
REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 1KKV RELATED DB: PDB REMARK 900 NMR SOLUTION STRUCTURE OF D(CCACGCGTGG)2, PARENT TO G-T REMARK 900 MISMATCH STRUCTURE
DBREF 1KKW A 1 10 PDB 1KKW 1KKW 1 10 DBREF 1KKW B 1 10 PDB 1KKW 1KKW 1 10
SEQRES 1 A 10 DC DC DA DT DG DC DG DT DG DG SEQRES 1 B 10 DC DC DA DT DG DC DG DT 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