SMTL ID : 9ge7.1

Structure of E. coli YbbAP with bound ATP analogue

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-2-mer

Ligands

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

ANP.1: 21 residues within 4Å: Chain A: R.369, D.371 Chain B: V.30, I.39, E.58, S.59, G.60, S.61, G.62, K.63, S.64, T.65, Q.109 Chain C: R.153, H.156, Q.160, S.162, G.163, G.164, E.165 Ligands: MG.2 21 PLIP interactions: 7 interactions with chain C, 3 interactions with chain A, 11 interactions with chain B Hydrogen bonds: C:R.153, C:Q.160, C:S.162, C:S.162, C:G.163, C:G.164, C:E.165, A:R.369, A:D.371, B:G.60, B:S.61, B:G.62, B:K.63, B:K.63, B:S.64, B:S.64, B:T.65, B:T.65, B:Q.109, B:H.219 Salt bridges: A:R.369 ANP.3: 19 residues within 4Å: Chain B: R.153, H.156, Q.160, S.162, G.163, G.164, E.165 Chain C: V.30, I.39, S.59, G.60, S.61, G.62, K.63, S.64, T.65, Q.109, H.219 Ligands: MG.4 17 PLIP interactions: 11 interactions with chain C, 6 interactions with chain B Hydrogen bonds: C:G.60, C:S.61, C:G.62, C:K.63, C:K.63, C:K.63, C:S.64, C:S.64, C:T.65, C:Q.109, C:H.219, B:R.153, B:S.162, B:S.162, B:G.163, B:G.164, B:E.165

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 3 residues within 4Å: Chain B: S.64, Q.109 Ligands: ANP.1 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:S.64 MG.4: 3 residues within 4Å: Chain C: S.64, Q.109 Ligands: ANP.3 1 PLIP interactions: 1 interactions with chain C Metal complexes: C:S.64

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

McAndrew, M.B. et al., Structure of YbbAP-TesA: a Type VII ABC transporter lipid-hydrolase complex. Biorxiv (2025)

Release Date

2025-05-28

Peptides

Uncharacterized ABC transporter permease YbbP: A
Uncharacterized ABC transporter ATP-binding protein YbbA: BC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Membrane

We predict this structure to be a membrane protein.
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Uncharacterized ABC transporter permease YbbP

Uncharacterized ABC transporter ATP-binding protein YbbA

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