2RPD - Header Asymmetric Unit

HEADER DNA 15-MAY-08 2RPD

TITLE MHR1P-BOUND SSDNA

COMPND MOL_ID: 1; COMPND 2 MOLECULE: DNA (5'-D(*DTP*DAP*DCP*DG)-3'); COMPND 3 CHAIN: A; COMPND 4 ENGINEERED: YES

SOURCE MOL_ID: 1; SOURCE 2 SYNTHETIC: YES; SOURCE 3 OTHER_DETAILS: NUCLEOTIDE SYNTHESIS

KEYWDS SSDNA, MHR1, RECA

EXPDTA SOLUTION NMR

NUMMDL 10

AUTHOR T.MASUDA,Y.ITO,T.SHIBATA,T.MIKAWA

REVDAT 2 05-JAN-10 2RPD 1 JRNL REVDAT 1 26-MAY-09 2RPD 0

JRNL AUTH T.MASUDA,Y.ITO,T.TERADA,T.SHIBATA,T.MIKAWA JRNL TITL A NON-CANONICAL DNA STRUCTURE ENABLES HOMOLOGOUS JRNL TITL 2 RECOMBINATION IN VARIOUS GENETIC SYSTEMS JRNL REF J.BIOL.CHEM. V. 284 30230 2009 JRNL REFN ISSN 0021-9258 JRNL PMID 19729448 JRNL DOI 10.1074/JBC.M109.043810

REMARK 1

REMARK 2 REMARK 2 RESOLUTION. NOT APPLICABLE.

REMARK 3 REMARK 3 REFINEMENT. REMARK 3 PROGRAM : X-PLOR_NIH REMARK 3 AUTHORS : BRUNGER REMARK 3 REMARK 3 OTHER REFINEMENT REMARKS: NULL

REMARK 4 REMARK 4 2RPD COMPLIES WITH FORMAT V. 3.20, 01-DEC-08

REMARK 100 REMARK 100 THIS ENTRY HAS BEEN PROCESSED BY PDBJ ON 20-MAY-08. REMARK 100 THE RCSB ID CODE IS RCSB150123.

REMARK 210 REMARK 210 EXPERIMENTAL DETAILS REMARK 210 EXPERIMENT TYPE : NMR REMARK 210 TEMPERATURE (KELVIN) : 298 REMARK 210 PH : 7.1 REMARK 210 IONIC STRENGTH : 50 REMARK 210 PRESSURE : AMBIENT REMARK 210 SAMPLE CONTENTS : 0.5MM DNA, 100% D2O REMARK 210 REMARK 210 NMR EXPERIMENTS CONDUCTED : 2D 1H-1H NOESY 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 : X-PLOR_NIH REMARK 210 METHOD USED : SIMULATED ANNEALING REMARK 210 REMARK 210 CONFORMERS, NUMBER CALCULATED : 100 REMARK 210 CONFORMERS, NUMBER SUBMITTED : 10 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 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 1 DT A 1 C6 DT A 1 N1 -0.054 REMARK 500 1 DG A 4 C8 DG A 4 N9 -0.064 REMARK 500 2 DT A 1 C6 DT A 1 N1 -0.055 REMARK 500 2 DG A 4 C8 DG A 4 N9 -0.065 REMARK 500 3 DT A 1 C6 DT A 1 N1 -0.054 REMARK 500 3 DG A 4 C8 DG A 4 N9 -0.063 REMARK 500 4 DT A 1 C6 DT A 1 N1 -0.055 REMARK 500 4 DG A 4 C8 DG A 4 N9 -0.063 REMARK 500 5 DT A 1 C6 DT A 1 N1 -0.055 REMARK 500 5 DG A 4 C8 DG A 4 N9 -0.065 REMARK 500 6 DT A 1 C6 DT A 1 N1 -0.055 REMARK 500 6 DG A 4 C8 DG A 4 N9 -0.065 REMARK 500 7 DT A 1 C6 DT A 1 N1 -0.055 REMARK 500 7 DG A 4 C8 DG A 4 N9 -0.065 REMARK 500 8 DT A 1 C6 DT A 1 N1 -0.053 REMARK 500 8 DG A 4 C8 DG A 4 N9 -0.064 REMARK 500 9 DT A 1 C6 DT A 1 N1 -0.054 REMARK 500 9 DG A 4 C8 DG A 4 N9 -0.063 REMARK 500 10 DT A 1 C6 DT A 1 N1 -0.054 REMARK 500 10 DG A 4 C8 DG A 4 N9 -0.064 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 DA A 2 O4' - C1' - N9 ANGL. DEV. = 2.4 DEGREES REMARK 500 2 DA A 2 O4' - C1' - N9 ANGL. DEV. = 2.3 DEGREES REMARK 500 3 DA A 2 O4' - C1' - N9 ANGL. DEV. = 2.5 DEGREES REMARK 500 4 DA A 2 O4' - C1' - N9 ANGL. DEV. = 2.4 DEGREES REMARK 500 5 DA A 2 O4' - C1' - N9 ANGL. DEV. = 2.3 DEGREES REMARK 500 6 DA A 2 O4' - C1' - N9 ANGL. DEV. = 2.5 DEGREES REMARK 500 7 DA A 2 O4' - C1' - N9 ANGL. DEV. = 2.4 DEGREES REMARK 500 8 DA A 2 O4' - C1' - N9 ANGL. DEV. = 2.5 DEGREES REMARK 500 9 DA A 2 O4' - C1' - N9 ANGL. DEV. = 2.5 DEGREES REMARK 500 10 DA A 2 O4' - C1' - N9 ANGL. DEV. = 2.4 DEGREES REMARK 500 REMARK 500 REMARK: NULL

REMARK 900 REMARK 900 RELATED ENTRIES REMARK 900 RELATED ID: 2RPE RELATED DB: PDB REMARK 900 RELATED ID: 2RPF RELATED DB: PDB REMARK 900 RELATED ID: 2RPH RELATED DB: PDB

DBREF 2RPD A 1 4 PDB 2RPD 2RPD 1 4

SEQRES 1 A 4 DT DA DC 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