SMTL ID : 8txf.1

AvrB bound with RIN4 C-NOI motif

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.29 Å

Oligo State

hetero-1-1-mer

Ligands

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

EDO.1: 11 residues within 4Å: Chain A: W.52, P.53, S.135, V.136, R.139, G.295, N.296, V.297, I.300, E.301, L.304 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:S.135, A:S.135, A:V.297, A:V.297, A:E.301 Water bridges: A:R.139 EDO.2: 11 residues within 4Å: Chain A: T.127, Y.133, I.217, H.219, M.264, A.271, D.299, I.300, M.303 Chain B: T.19 Ligands: EDO.6 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:Y.133, B:T.19 Water bridges: A:A.261 EDO.3: 13 residues within 4Å: Chain A: G.48, A.49, A.50, M.71, H.257, A.271, A.272, E.275, V.297, S.298, D.299 Ligands: EDO.5, EDO.6 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:A.49, A:A.271, A:D.299 Water bridges: A:E.275, A:S.298, A:S.298 EDO.4: 9 residues within 4Å: Chain A: G.48, A.49, A.50, K.58, S.59, N.64, Y.67, C.68 Ligands: EDO.5 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:A.50 EDO.5: 8 residues within 4Å: Chain A: G.48, A.50, Y.67, A.271, A.272 Ligands: EDO.3, EDO.4, EDO.6 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:A.272 EDO.6: 10 residues within 4Å: Chain A: A.50, W.52, Y.133, A.271, V.297, D.299, I.300 Ligands: EDO.2, EDO.3, EDO.5 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.133, A:Y.133 Water bridges: A:A.271 EDO.7: 5 residues within 4Å: Chain A: P.34, R.76, S.77, D.80 Ligands: EDO.10 4 PLIP interactions: 4 interactions with chain A Water bridges: A:P.34, A:R.76, A:R.76, A:S.77 EDO.8: 7 residues within 4Å: Chain A: F.90, E.91, W.94, E.118, K.229, L.232, P.265 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:E.118, A:K.229 EDO.9: 5 residues within 4Å: Chain A: N.173, V.174, I.175, Y.224, I.227 3 PLIP interactions: 3 interactions with chain A Water bridges: A:N.173, A:V.174, A:Y.224 EDO.10: 2 residues within 4Å: Chain A: R.84 Ligands: EDO.7 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.84, A:R.84 EDO.11: 5 residues within 4Å: Chain A: R.139, N.296, E.301, K.313, L.317 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.139, A:N.296, A:N.296, A:K.313 Water bridges: A:E.301 EDO.12: 4 residues within 4Å: Chain A: S.89, E.91, E.92, G.95 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.91 EDO.13: 6 residues within 4Å: Chain A: I.250, L.289, P.290, R.315, L.318, S.320 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.315, A:S.320

1 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.14: 8 residues within 4Å: Chain A: D.145, H.147, Y.164, R.165, Q.166, T.167, Y.169, G.306 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:R.165, A:T.167, A:T.167, A:T.167, A:T.167 Water bridges: A:D.145, A:H.147

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Peng, W. et al., Pseudomonas effector AvrB is a glycosyltransferase that rhamnosylates plant guardee protein RIN4. Sci Adv (2024)

Release Date

2024-02-28

Peptides

Avirulence protein B: A
RIN4: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Avirulence protein B

RIN4

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