SMTL ID : 5h68.1

Crystal structure of an engaged dimer of the Geobacillus stearothermophilus SMC head domain

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.98 Å

Oligo State

homo-dimer

Ligands

2 x AGS: PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER(Non-covalent)

AGS.1: 27 residues within 4Å: Chain A: K.15, S.16, N.36, G.37, S.38, G.39, K.40, S.41, N.42, R.60, D.66, V.67, I.68, F.69, A.70, Q.146, Q.271, H.302 Chain B: K.234, Q.237, L.241, L.242, S.243, G.244, G.245, E.246 Ligands: MG.2 25 PLIP interactions: 19 interactions with chain A, 6 interactions with chain B Hydrogen bonds: A:N.36, A:G.37, A:S.38, A:G.39, A:K.40, A:S.41, A:S.41, A:N.42, A:N.42, A:I.68, A:A.70, A:Q.146, B:K.234, B:Q.237, B:S.243, B:G.244, B:G.245, B:E.246 Water bridges: A:K.15, A:S.41, A:R.60, A:Q.271, A:H.302 Salt bridges: A:K.40, A:R.60 AGS.3: 26 residues within 4Å: Chain A: K.234, Q.237, L.241, L.242, S.243, G.244, G.245, E.246 Chain B: K.15, S.16, N.36, G.37, S.38, G.39, K.40, S.41, N.42, R.60, D.66, I.68, F.69, A.70, Q.146, Q.271, H.302 Ligands: MG.4 25 PLIP interactions: 16 interactions with chain B, 9 interactions with chain A Hydrogen bonds: B:N.36, B:G.37, B:S.38, B:G.39, B:K.40, B:S.41, B:S.41, B:N.42, B:N.42, B:I.68, B:A.70, A:K.234, A:Q.237, A:L.241, A:S.243, A:G.244, A:G.245, A:E.246, A:E.246 Water bridges: B:K.15, B:R.60, B:Q.271, A:A.275 Salt bridges: B:K.40, B:R.60

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain A: S.41, Q.146 Ligands: AGS.1 3 PLIP interactions: 1 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:S.41, H2O.1, H2O.2 MG.4: 3 residues within 4Å: Chain B: S.41, Q.146 Ligands: AGS.3 3 PLIP interactions: 1 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:S.41, H2O.7, H2O.7

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kamada, K. et al., Overall Shapes of the SMC-ScpAB Complex Are Determined by Balance between Constraint and Relaxation of Its Structural Parts. Structure (2017)

Release Date

2017-03-15

Peptides

Chromosome partition protein Smc: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Chromosome partition protein Smc