 |
PDBsum entry 4hqb
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
 |
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
DNA binding protein/DNA
|
PDB id
|
|
|
|
4hqb
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
 |
Contents |
 |
|
|
|
|
|
|
|
|
|
|
|
143 a.a.
|
|
|
|
|
|
|
|
|
|
|
131 a.a.
|
|
|
|
|
|
|
|
|
|
|
118 a.a.
|
|
|
|
|
|
|
|
|
|
|
109 a.a.
|
|
|
|
|
|
|
|
|
|
|
128 a.a.
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
PDB id:
|
|
|
|
| Name: |
|
DNA binding protein/DNA
|
|
|
Title:
|
|
Crystal structure of ddrb from deinococcus radiodurans bound to ssdna
|
|
Structure:
|
|
Single-stranded DNA-binding protein ddrb. Chain: a, b, c, d, e. Synonym: DNA damage response protein b. Engineered: yes. 5'-d( Tp Tp Tp T)-3'. Chain: m. Engineered: yes. 5'-d(p Tp Tp Tp Tp T)-3'. Chain: n.
|
|
Source:
|
|
Deinococcus radiodurans. Organism_taxid: 1299. Gene: ddrb, ddrb (dr0070), dr_0070. Expressed in: escherichia coli. Expression_system_taxid: 469008. Synthetic: yes. Synthetic: yes
|
|
Resolution:
|
|
|
2.30Å
|
R-factor:
|
0.193
|
R-free:
|
0.246
|
|
|
Authors:
|
|
S.N.Sugiman-Marangos,M.S.Junop
|
|
Key ref:
|
|
S.N.Sugiman-Marangos
et al.
(2013).
Crystal structure of the DdrB/ssDNA complex from Deinococcus radiodurans reveals a DNA binding surface involving higher-order oligomeric states.
Nucleic Acids Res,
41,
9934-9944.
PubMed id:
DOI:
|
|
|
Date:
|
|
|
25-Oct-12
|
Release date:
|
04-Sep-13
|
|
|
|
|
|
|
PROCHECK
|
|
|
|
|
|
Headers
|
|
|
|
References
|
|
|
|
|
|
|
|
Q9RY80
(DDRB_DEIRA) -
Single-stranded DNA-binding protein DdrB from Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / CCUG 27074 / LMG 4051 / NBRC 15346 / NCIMB 9279 / VKM B-1422 / R1)
|
|
|
|
Seq:
Struc:
|
|
|
|
188 a.a.
143 a.a.
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
Q9RY80
(DDRB_DEIRA) -
Single-stranded DNA-binding protein DdrB from Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / CCUG 27074 / LMG 4051 / NBRC 15346 / NCIMB 9279 / VKM B-1422 / R1)
|
|
|
|
Seq:
Struc:
|
|
|
|
188 a.a.
131 a.a.
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
Q9RY80
(DDRB_DEIRA) -
Single-stranded DNA-binding protein DdrB from Deinococcus radiodurans (strain ATCC 13939 / DSM 20539 / JCM 16871 / CCUG 27074 / LMG 4051 / NBRC 15346 / NCIMB 9279 / VKM B-1422 / R1)
|
|
|
|
Seq:
Struc:
|
|
|
|
188 a.a.
118 a.a.
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
 |
|
|
|
|
|
|
| |
|
DOI no:
|
Nucleic Acids Res
41:9934-9944
(2013)
|
|
PubMed id:
|
|
|
|
|
|
| |
|
Crystal structure of the DdrB/ssDNA complex from Deinococcus radiodurans reveals a DNA binding surface involving higher-order oligomeric states.
|
|
S.N.Sugiman-Marangos,
J.K.Peel,
Y.M.Weiss,
R.Ghirlando,
M.S.Junop.
|
|
|
|
|
| |
ABSTRACT
|
|
|
|
| |
|
|
The ability of Deinococcus radiodurans to recover from extensive DNA damage is
due in part to its ability to efficiently repair its genome, even following
severe fragmentation by hundreds of double-strand breaks. The single-strand
annealing pathway plays an important role early during the recovery process,
making use of a protein, DdrB, shown to greatly stimulate ssDNA annealing. Here,
we report the structure of DdrB bound to ssDNA to 2.3 Å. Pentameric DdrB was
found to assemble into higher-order structures that coat ssDNA. To gain further
mechanistic insight into the protein's function, a number of point mutants were
generated altering both DNA binding and higher order oligomerization. This work
not only identifies higher-order DdrB associations but also suggests the
presence of an extended DNA binding surface running along the 'top' surface of a
DdrB pentamer and continuing down between two individual subunits of the ring
structure. Together this work sheds new insight into possible mechanisms for
DdrB function in which higher-order assemblies of DdrB pentamers assist in the
pairing of complementary ssDNA using an extended DNA binding surface.
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
|
 |
 |
 |
| | |
Links
