SMTL ID : 4a8e.1

The structure of a dimeric Xer recombinase from archaea

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.99 Å

Oligo State

homo-dimer

Ligands

14 x SO4: SULFATE ION(Non-functional Binders)

SO4.1: 4 residues within 4Å: Chain A: P.98, K.99, T.100 Chain B: R.27 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Salt bridges: B:R.27 Hydrogen bonds: A:T.100, A:T.100 SO4.2: 3 residues within 4Å: Chain A: S.26, R.27 Chain B: K.99 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:R.27 Salt bridges: A:R.27, B:K.99 SO4.3: 4 residues within 4Å: Chain A: T.106, E.107, H.235, E.238 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.107, A:E.107, A:E.238 Salt bridges: A:H.235 SO4.4: 4 residues within 4Å: Chain A: K.25, S.26, T.29 Chain B: M.97 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.26, A:T.29 Salt bridges: A:K.25 SO4.5: 2 residues within 4Å: Chain A: L.120, R.179 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.179 SO4.6: 5 residues within 4Å: Chain A: K.96, R.135, H.226, R.229, H.252 5 PLIP interactions: 5 interactions with chain A Salt bridges: A:K.96, A:R.135, A:H.226, A:R.229, A:H.252 SO4.7: 4 residues within 4Å: Chain A: R.135, V.136, S.137 Chain B: E.23 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:E.23, A:V.136, A:S.137 SO4.10: 4 residues within 4Å: Chain A: R.27 Chain B: P.98, K.99, T.100 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Salt bridges: A:R.27 Hydrogen bonds: B:T.100, B:T.100 SO4.11: 3 residues within 4Å: Chain A: K.99 Chain B: S.26, R.27 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain B Salt bridges: A:K.99, B:R.27 Hydrogen bonds: B:R.27 SO4.12: 4 residues within 4Å: Chain B: T.106, E.107, H.235, E.238 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:E.107, B:E.107, B:E.238 Salt bridges: B:H.235 SO4.13: 4 residues within 4Å: Chain A: M.97 Chain B: K.25, S.26, T.29 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.26, B:T.29 Salt bridges: B:K.25 SO4.14: 2 residues within 4Å: Chain B: L.120, R.179 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:R.179 SO4.15: 5 residues within 4Å: Chain B: K.96, R.135, H.226, R.229, H.252 5 PLIP interactions: 5 interactions with chain B Salt bridges: B:K.96, B:R.135, B:H.226, B:R.229, B:H.252 SO4.16: 4 residues within 4Å: Chain A: E.23 Chain B: R.135, V.136, S.137 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:V.136, B:S.137, A:E.23

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.8: 2 residues within 4Å: Chain A: T.266, K.270 Ligand excluded by PLIP CL.17: 2 residues within 4Å: Chain B: T.266, K.270 Ligand excluded by PLIP

2 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.9: 9 residues within 4Å: Chain A: L.139, C.140, L.142, Y.190, L.191, F.192, V.193, K.202, L.203 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:L.142, A:F.192, A:L.203 EDO.18: 9 residues within 4Å: Chain B: L.139, C.140, L.142, Y.190, L.191, F.192, V.193, K.202, L.203 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:L.142, B:F.192, B:L.203

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Serre, M.C. et al., The Carboxy-Terminal Alpha N Helix of the Archaeal Xera Tyrosine Recombinase is a Molecular Switch to Control Site-Specific Recombination. Plos One (2013)

Release Date

2012-12-05

Peptides

PROBABLE TYROSINE RECOMBINASE XERC-LIKE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

PROBABLE TYROSINE RECOMBINASE XERC-LIKE