SMTL ID : 8ajy.1 (1 other biounit)

Ruminococcus flavefaciens Cohesin-Dockerin structure: dockerin from ScaH adaptor scaffoldin in complex with the cohesin from ScaE anchoring scaffoldin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.71 Å

Oligo State

hetero-1-1-mer

Ligands

3 x CA: CALCIUM ION(Non-covalent)

CA.1: 6 residues within 4Å: Chain A: D.137, V.138, K.172, Y.190, A.191, D.192 6 PLIP interactions: 5 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:D.137, A:V.138, A:K.172, A:Y.190, A:D.192, H2O.6 CA.9: 5 residues within 4Å: Chain B: D.31, D.33, N.35, I.37, D.42 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.31, B:D.33, B:I.37, B:D.42, H2O.8 CA.10: 5 residues within 4Å: Chain B: D.70, N.72, D.74, M.76, D.81 5 PLIP interactions: 4 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:D.70, B:D.74, B:M.76, B:D.81, H2O.8

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 3 residues within 4Å: Chain A: D.88, D.108, F.111 1 PLIP interactions: 1 interactions with chain A Water bridges: A:D.108

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

SO4.3: 5 residues within 4Å: Chain A: K.29, K.172, S.178, T.179, D.180 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:S.178, A:T.179, A:D.180 Water bridges: A:K.29 Salt bridges: A:K.29, A:K.172 SO4.4: 5 residues within 4Å: Chain A: Y.182, K.185, K.198, A.199, G.200 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Y.182, A:A.199, A:G.200 Water bridges: A:E.201 Salt bridges: A:K.185 SO4.5: 4 residues within 4Å: Chain A: D.155, K.160 Chain B: N.35, R.41 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:N.35 Water bridges: B:R.41, B:R.41, B:R.41 Salt bridges: B:R.41, A:K.160 SO4.6: 4 residues within 4Å: Chain A: A.20, T.21, K.55, Q.158 3 PLIP interactions: 3 interactions with chain A Water bridges: A:T.21, A:S.156 Salt bridges: A:K.55 SO4.7: 3 residues within 4Å: Chain A: T.74, K.75, K.81 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.75 Salt bridges: A:K.75, A:K.81 SO4.8: 3 residues within 4Å: Chain A: T.76, A.78, K.93 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.76 Salt bridges: A:K.93 SO4.11: 2 residues within 4Å: Chain B: P.109, L.110 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:L.110 SO4.12: 3 residues within 4Å: Chain B: N.72, A.80, H.84 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.72 Salt bridges: B:H.84

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Duarte, M. et al., Structure-function studies can improve binding affinity of cohesin-dockerin interactions for multi-protein assemblies. Int.J.Biol.Macromol. (2023)

Release Date

2022-11-02

Peptides

Cell-wall anchoring protein: A
Dockerin from ScaH: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Cell-wall anchoring protein

Dockerin from ScaH

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