SMTL ID : 8dze.1

Cryo-EM structure of bundle-forming pilus extension ATPase from E. coli in the presence of AMP-PNP (class-1)

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-hexamer

Ligands

6 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.403, C.406, C.445, C.446 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.403, A:C.406, A:C.445, A:C.446 ZN.3: 4 residues within 4Å: Chain B: C.403, C.406, C.445, C.446 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.403, B:C.406, B:C.445, B:C.446 ZN.5: 4 residues within 4Å: Chain C: C.403, C.406, C.445, C.446 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:C.403, C:C.406, C:C.445, C:C.446 ZN.7: 4 residues within 4Å: Chain D: C.403, C.406, C.445, C.446 4 PLIP interactions: 4 interactions with chain D Metal complexes: D:C.403, D:C.406, D:C.445, D:C.446 ZN.9: 4 residues within 4Å: Chain E: C.403, C.406, C.445, C.446 4 PLIP interactions: 4 interactions with chain E Metal complexes: E:C.403, E:C.406, E:C.445, E:C.446 ZN.11: 4 residues within 4Å: Chain F: C.403, C.406, C.445, C.446 4 PLIP interactions: 4 interactions with chain F Metal complexes: F:C.403, F:C.406, F:C.445, F:C.446

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

ANP.2: 11 residues within 4Å: Chain A: R.217, F.235, T.262, G.265, K.266, S.267, T.268, H.363, L.398, R.453, I.455 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:T.262, A:G.265, A:K.266, A:K.266, A:S.267, A:S.267, A:T.268, A:T.268, A:R.453 ANP.4: 11 residues within 4Å: Chain B: R.217, F.235, T.262, G.265, K.266, S.267, T.268, H.363, L.398, R.453, I.455 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:T.262, B:G.265, B:K.266, B:K.266, B:S.267, B:S.267, B:T.268, B:T.268, B:R.453 ANP.6: 11 residues within 4Å: Chain C: R.217, F.235, T.262, G.265, K.266, S.267, T.268, H.363, L.398, R.453, I.455 10 PLIP interactions: 10 interactions with chain C Hydrogen bonds: C:T.262, C:S.264, C:G.265, C:K.266, C:K.266, C:S.267, C:S.267, C:T.268, C:T.268, C:R.453 ANP.8: 11 residues within 4Å: Chain D: R.217, F.235, T.262, G.265, K.266, S.267, T.268, H.363, L.398, R.453, I.455 9 PLIP interactions: 9 interactions with chain D Hydrogen bonds: D:T.262, D:G.265, D:K.266, D:K.266, D:S.267, D:S.267, D:T.268, D:T.268, D:R.453 ANP.10: 11 residues within 4Å: Chain E: R.217, F.235, T.262, G.265, K.266, S.267, T.268, H.363, L.398, R.453, I.455 9 PLIP interactions: 9 interactions with chain E Hydrogen bonds: E:T.262, E:G.265, E:K.266, E:K.266, E:S.267, E:S.267, E:T.268, E:T.268, E:R.453 ANP.12: 11 residues within 4Å: Chain F: R.217, F.235, T.262, G.265, K.266, S.267, T.268, H.363, L.398, R.453, I.455 9 PLIP interactions: 9 interactions with chain F Hydrogen bonds: F:T.262, F:G.265, F:K.266, F:K.266, F:S.267, F:S.267, F:T.268, F:T.268, F:R.453

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nayak, A.R. et al., Cryo-EM Structure of the Type IV Pilus Extension ATPase from Enteropathogenic Escherichia coli. Mbio (2022)

Release Date

2022-10-26

Peptides

BfpD: ABCDEF

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

BfpD

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