SMTL ID : 6gs4.1

Crystal structure of peptide transporter DtpA-nanobody in complex with valganciclovir

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.64 Å

Oligo State

hetero-1-1-mer

Ligands

1 x F9E: [(2~{S})-2-[(2-azanyl-6-oxidanylidene-3~{H}-purin-9-yl)methoxy]-3-oxidanyl-propyl] (2~{S})-2-azanyl-3-methyl-butanoate(Non-covalent)

F9E.1: 13 residues within 4Å: Chain A: Y.38, K.130, Y.156, N.160, S.163, M.167, F.289, N.325, P.326, E.396, I.399, S.400, L.402 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:K.130, A:K.130, A:Y.156, A:N.160, A:S.163, A:S.400 Salt bridges: A:E.396

1 x LMT: DODECYL-BETA-D-MALTOSIDE(Non-covalent)

LMT.2: 7 residues within 4Å: Chain A: L.365, P.368, L.369, A.371, K.372, G.458, L.462 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:P.368, A:L.462 Salt bridges: A:K.372

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ural-Blimke, Y. et al., Structure of Prototypic Peptide Transporter DtpA from E. coli in Complex with Valganciclovir Provides Insights into Drug Binding of Human PepT1. J. Am. Chem. Soc. (2019)

Release Date

2019-01-30

Peptides

Dipeptide and tripeptide permease A: A
nanobody: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
H

Membrane

We predict this structure to be a membrane protein.
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Dipeptide and tripeptide permease A

nanobody

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