10 20 30 40 50 60 70 80 132D - Header ----|----|----|----|----|----|----|----|----|----|----|----|----|----|----|----| Asymmetric UnitHEADER DNA 24-JUN-93 132D
TITLE SOLUTION STRUCTURE OF THE TN AN DNA DUPLEX GCCGTTAACGGC TITLE 2 CONTAINING THE HPA I RESTRICTION SITE
COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (5'-D(P*GP*CP*CP*GP*TP*TP*AP*AP*CP*GP*GP*C)- COMPND 3 3'); COMPND 4 CHAIN: A, B; COMPND 5 ENGINEERED: YES
SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: CHEMICALLY SYNTHESIZED
KEYWDS DOUBLE HELIX, HPA 1 RESTRICTION SITE, DNA
EXPDTA SOLUTION NMR
AUTHOR S.-G.KIM,B.R.REID
REVDAT 3 24-FEB-09 132D 1 VERSN REVDAT 2 01-APR-03 132D 1 JRNL REVDAT 1 31-JAN-94 132D 0
JRNL AUTH S.G.KIM,B.R.REID JRNL TITL SOLUTION STRUCTURE OF THE TNAN DNA DUPLEX JRNL TITL 2 GCCGTTAACGCG CONTAINING THE HPAI RESTRICTION SITE. JRNL REF BIOCHEMISTRY V. 31 12103 1992 JRNL REFN ISSN 0006-2960 JRNL PMID 1457407 JRNL DOI 10.1021/BI00163A020
REMARK 1
REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.
REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : DSPACE REMARK 3 AUTHORS : HARE RESEARCH, INC. REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NOE DISTANCE CONSTRAINTS. THE R REMARK 3 VALUE IS 0.18 FOR 80 INTERPROTON DISTANCES.
REMARK 4 REMARK 4 132D 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 : NULL REMARK 210 IONIC STRENGTH : NULL REMARK 210 PRESSURE : NULL REMARK 210 SAMPLE CONTENTS : NULL REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D NOESY 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 : DISTANCE GEOMETRY REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 1 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 1 REMARK 210 CONFORMERS, SELECTION CRITERIA : NULL REMARK 210 REMARK 210 BEST REPRESENTATIVE CONFORMER IN THIS ENSEMBLE : NULL REMARK 210 REMARK 210 REMARK: 2-D NMR SPECTRA WERE USED
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 400 REMARK 400 COMPOUND REMARK 400 THE DNA DODECAMER CONTAINS THE HPA I RESTRICTION SEQUENCE REMARK 400 D(GCCGTT:AACGGC)=2=.
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 DG A 1 P DG A 1 OP2 0.117 REMARK 500 DG A 1 P DG A 1 OP3 -0.127 REMARK 500 DG A 1 C2' DG A 1 C1' -0.083 REMARK 500 DC A 2 O3' DC A 3 P -0.082 REMARK 500 DG A 4 O3' DG A 4 C3' -0.036 REMARK 500 DT A 5 O4' DT A 5 C1' 0.087 REMARK 500 DT A 5 C5 DT A 5 C6 0.050 REMARK 500 DG A 4 O3' DT A 5 P -0.132 REMARK 500 DT A 6 O4' DT A 6 C1' 0.066 REMARK 500 DT A 6 C5 DT A 6 C6 0.048 REMARK 500 DT A 5 O3' DT A 6 P -0.094 REMARK 500 DT A 6 O3' DA A 7 P -0.115 REMARK 500 DC A 12 O4' DC A 12 C1' 0.137 REMARK 500 DG B 13 P DG B 13 OP2 0.116 REMARK 500 DG B 13 P DG B 13 OP3 -0.126 REMARK 500 DG B 13 C2' DG B 13 C1' -0.081 REMARK 500 DC B 14 O3' DC B 15 P -0.081 REMARK 500 DG B 16 O3' DG B 16 C3' -0.037 REMARK 500 DT B 17 O4' DT B 17 C1' 0.085 REMARK 500 DT B 17 C5 DT B 17 C6 0.050 REMARK 500 DG B 16 O3' DT B 17 P -0.130 REMARK 500 DT B 18 O4' DT B 18 C1' 0.068 REMARK 500 DT B 18 C5 DT B 18 C6 0.047 REMARK 500 DT B 17 O3' DT B 18 P -0.094 REMARK 500 DT B 18 O3' DA B 19 P -0.113 REMARK 500 DC B 24 O4' DC B 24 C1' 0.137 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 OP1 - P - OP2 ANGL. DEV. = -10.4 DEGREES REMARK 500 DG A 1 O4' - C1' - N9 ANGL. DEV. = -6.5 DEGREES REMARK 500 DC A 2 O4' - C1' - N1 ANGL. DEV. = -11.1 DEGREES REMARK 500 DG A 1 C3' - O3' - P ANGL. DEV. = 8.0 DEGREES REMARK 500 DC A 3 O4' - C1' - N1 ANGL. DEV. = -10.2 DEGREES REMARK 500 DC A 2 C3' - O3' - P ANGL. DEV. = 16.9 DEGREES REMARK 500 DG A 4 C5' - C4' - O4' ANGL. DEV. = 13.8 DEGREES REMARK 500 DG A 4 O4' - C1' - N9 ANGL. DEV. = -4.4 DEGREES REMARK 500 DC A 3 C3' - O3' - P ANGL. DEV. = 14.2 DEGREES REMARK 500 DT A 5 O4' - C1' - C2' ANGL. DEV. = -5.8 DEGREES REMARK 500 DT A 5 O4' - C1' - N1 ANGL. DEV. = -6.8 DEGREES REMARK 500 DT A 5 N1 - C2 - N3 ANGL. DEV. = 3.7 DEGREES REMARK 500 DT A 5 C2 - N3 - C4 ANGL. DEV. = -4.4 DEGREES REMARK 500 DT A 5 C5 - C6 - N1 ANGL. DEV. = -3.8 DEGREES REMARK 500 DG A 4 C3' - O3' - P ANGL. DEV. = 17.0 DEGREES REMARK 500 DT A 6 C5' - C4' - O4' ANGL. DEV. = 9.7 DEGREES REMARK 500 DT A 6 O4' - C1' - N1 ANGL. DEV. = -10.4 DEGREES REMARK 500 DT A 6 C2 - N3 - C4 ANGL. DEV. = -4.3 DEGREES REMARK 500 DT A 6 C5 - C6 - N1 ANGL. DEV. = -3.9 DEGREES REMARK 500 DT A 5 C3' - O3' - P ANGL. DEV. = 12.3 DEGREES REMARK 500 DA A 7 C5' - C4' - O4' ANGL. DEV. = 11.0 DEGREES REMARK 500 DA A 7 O4' - C1' - C2' ANGL. DEV. = -5.7 DEGREES REMARK 500 DA A 7 O4' - C1' - N9 ANGL. DEV. = -5.9 DEGREES REMARK 500 DT A 6 C3' - O3' - P ANGL. DEV. = 13.8 DEGREES REMARK 500 DA A 7 C3' - O3' - P ANGL. DEV. = 11.7 DEGREES REMARK 500 DC A 9 O4' - C1' - N1 ANGL. DEV. = -4.6 DEGREES REMARK 500 DC A 9 C3' - O3' - P ANGL. DEV. = 17.7 DEGREES REMARK 500 DG A 11 O4' - C1' - N9 ANGL. DEV. = -4.3 DEGREES REMARK 500 DG A 10 C3' - O3' - P ANGL. DEV. = 11.2 DEGREES REMARK 500 DC A 12 C1' - O4' - C4' ANGL. DEV. = -8.4 DEGREES REMARK 500 DC A 12 O4' - C1' - C2' ANGL. DEV. = -5.2 DEGREES REMARK 500 DC A 12 O4' - C1' - N1 ANGL. DEV. = -9.0 DEGREES REMARK 500 DG A 11 C3' - O3' - P ANGL. DEV. = 7.3 DEGREES REMARK 500 DG B 13 OP1 - P - OP2 ANGL. DEV. = -10.5 DEGREES REMARK 500 DG B 13 O4' - C1' - N9 ANGL. DEV. = -6.6 DEGREES REMARK 500 DC B 14 O4' - C1' - N1 ANGL. DEV. = -11.3 DEGREES REMARK 500 DG B 13 C3' - O3' - P ANGL. DEV. = 7.8 DEGREES REMARK 500 DC B 15 O4' - C1' - N1 ANGL. DEV. = -10.4 DEGREES REMARK 500 DC B 14 C3' - O3' - P ANGL. DEV. = 16.8 DEGREES REMARK 500 DG B 16 C5' - C4' - O4' ANGL. DEV. = 13.5 DEGREES REMARK 500 DG B 16 O4' - C1' - N9 ANGL. DEV. = -4.5 DEGREES REMARK 500 DC B 15 C3' - O3' - P ANGL. DEV. = 14.0 DEGREES REMARK 500 DT B 17 O4' - C1' - C2' ANGL. DEV. = -5.6 DEGREES REMARK 500 DT B 17 O4' - C1' - N1 ANGL. DEV. = -6.9 DEGREES REMARK 500 DT B 17 N1 - C2 - N3 ANGL. DEV. = 3.7 DEGREES REMARK 500 DT B 17 C2 - N3 - C4 ANGL. DEV. = -4.4 DEGREES REMARK 500 DT B 17 C5 - C6 - N1 ANGL. DEV. = -3.8 DEGREES REMARK 500 DG B 16 C3' - O3' - P ANGL. DEV. = 16.9 DEGREES REMARK 500 DT B 18 C5' - C4' - O4' ANGL. DEV. = 9.4 DEGREES REMARK 500 DT B 18 O4' - C1' - N1 ANGL. DEV. = -10.5 DEGREES REMARK 500 REMARK 500 THIS ENTRY HAS 65 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 DC A 3 0.06 SIDE_CHAIN REMARK 500 DT A 5 0.08 SIDE_CHAIN REMARK 500 DT A 6 0.08 SIDE_CHAIN REMARK 500 DA A 7 0.07 SIDE_CHAIN REMARK 500 DC A 9 0.06 SIDE_CHAIN REMARK 500 DC A 12 0.06 SIDE_CHAIN REMARK 500 DT B 17 0.08 SIDE_CHAIN REMARK 500 DT B 18 0.08 SIDE_CHAIN REMARK 500 DA B 19 0.07 SIDE_CHAIN REMARK 500 DC B 21 0.07 SIDE_CHAIN REMARK 500 DC B 24 0.06 SIDE_CHAIN REMARK 500 REMARK 500 REMARK: NULL
DBREF 132D A 1 12 PDB 132D 132D 1 12 DBREF 132D B 13 24 PDB 132D 132D 13 24
SEQRES 1 A 12 DG DC DC DG DT DT DA DA DC DG DG DC SEQRES 1 B 12 DG DC DC DG DT DT DA DA DC DG DG DC
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