SMTL ID : 6qv1.2 (1 other biounit)

Structure of ATPgS-bound outward-facing TM287/288 in complex with nanobody Nb_TM1

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.48 Å

Oligo State

hetero-1-1-1-mer

Ligands

2 x AGS: PHOSPHOTHIOPHOSPHORIC ACID-ADENYLATE ESTER(Non-covalent)

AGS.1: 22 residues within 4Å: Chain A: Y.351, F.352, V.358, E.377, T.378, G.379, S.380, G.381, K.382, S.383, T.384, Q.424, Q.536 Chain B: E.490, D.491, L.492, S.493, Q.494, G.495, Q.496, N.521 Ligands: MG.2 21 PLIP interactions: 7 interactions with chain B, 14 interactions with chain A Hydrogen bonds: B:E.490, B:S.493, B:S.493, B:Q.494, B:G.495, B:Q.496, B:Q.496, A:G.379, A:S.380, A:G.381, A:K.382, A:S.383, A:S.383, A:T.384, A:T.384, A:Q.424, A:Q.424, A:Q.424 Salt bridges: A:K.382 pi-Stacking: A:Y.351, A:Y.351 AGS.3: 22 residues within 4Å: Chain A: F.461, R.478, N.479, F.480, S.481, G.482, G.483, Q.484, S.509 Chain B: Y.364, V.370, T.390, G.391, S.392, G.393, K.394, T.395, T.396, Y.405, Q.436, H.548 Ligands: MG.4 20 PLIP interactions: 6 interactions with chain A, 14 interactions with chain B Hydrogen bonds: A:S.481, A:G.482, A:G.483, A:Q.484, A:Q.484, A:Q.484, B:G.391, B:S.392, B:G.393, B:K.394, B:T.395, B:T.395, B:T.396, B:T.396, B:Y.405, B:Q.436, B:Q.436 Salt bridges: B:K.394 pi-Stacking: B:Y.364, B:Y.364

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain A: S.383, Q.424, D.504 Ligands: AGS.1 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:S.383 MG.4: 3 residues within 4Å: Chain B: T.395, Q.436 Ligands: AGS.3 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:T.395

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Hutter, C.A.J. et al., The extracellular gate shapes the energy profile of an ABC exporter. Nat Commun (2019)

Release Date

2019-05-29

Peptides

ABC transporter, ATP-binding protein: A
Uncharacterized ABC transporter ATP-binding protein TM_0288: B
Nb_TM1: C

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

C
F

Membrane

We predict this structure to be a membrane protein.
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ABC transporter, ATP-binding protein

Uncharacterized ABC transporter ATP-binding protein TM_0288

Nb_TM1

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