SMTL ID : 4w9m.1 (1 other biounit)

AMPPNP bound Rad50 in complex with dsDNA

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

hetero-2-2-mer

Ligands

2 x ANP: PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER(Non-covalent)

ANP.1: 25 residues within 4Å: Chain C: L.12, G.13, P.31, N.32, G.33, A.34, G.35, K.36, S.37, S.38, R.53, Y.54, D.59, V.61, N.62, R.63, Q.142 Chain E: R.254, R.275, G.279, S.281, G.282, G.283, E.284 Ligands: MG.2 27 PLIP interactions: 18 interactions with chain C, 9 interactions with chain E Hydrogen bonds: C:P.31, C:N.32, C:G.33, C:G.33, C:A.34, C:G.35, C:K.36, C:K.36, C:S.37, C:S.38, C:Y.54, C:V.61, C:R.63, C:Q.142, E:R.254, E:R.275, E:R.275, E:S.281, E:G.282, E:G.283, E:E.284 Water bridges: C:N.64, C:E.311, C:H.343 Salt bridges: C:R.53 pi-Cation interactions: E:R.275, E:R.275 ANP.3: 27 residues within 4Å: Chain C: R.254, R.275, G.279, L.280, S.281, G.282, G.283, E.284 Chain E: L.12, G.13, P.31, N.32, G.33, A.34, G.35, K.36, S.37, S.38, R.53, Y.54, D.59, V.61, N.62, R.63, Q.142, E.311 Ligands: MG.4 25 PLIP interactions: 17 interactions with chain E, 8 interactions with chain C Hydrogen bonds: E:P.31, E:N.32, E:G.33, E:G.33, E:A.34, E:G.35, E:G.35, E:K.36, E:K.36, E:S.37, E:S.38, E:V.61, E:R.63, E:E.311, C:R.254, C:R.275, C:S.281, C:G.282, C:G.283, C:E.284 Water bridges: E:S.37, E:S.37 Salt bridges: E:R.53 pi-Cation interactions: C:R.275, C:R.275

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain C: S.37, Q.142, D.310 Ligands: ANP.1 3 PLIP interactions: 1 interactions with chain C, 2 Ligand-Water interactions Metal complexes: C:S.37, H2O.1, H2O.1 MG.4: 4 residues within 4Å: Chain E: S.37, Q.142, D.310 Ligands: ANP.3 2 PLIP interactions: 1 interactions with chain E, 1 Ligand-Water interactions Metal complexes: E:S.37, H2O.4

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rojowska, A. et al., Structure of the Rad50 DNA double-strand break repair protein in complex with DNA. Embo J. (2014)

Release Date

2015-01-14

Peptides

Probable DNA double-strand break repair Rad50 ATPase,Probable DNA double-strand break repair Rad50 ATPase: CE
Exonuclease, putative: DF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

C
C

E
E

D
D

F
F

Probable DNA double-strand break repair Rad50 ATPase,Probable DNA double-strand break repair Rad50 ATPase

Exonuclease, putative

Related Entries With Identical Sequence