SMTL ID : 8k7c.1

Outward-facing structure of human ABCB6 W546A mutant (ADP/VO4-bound)

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

homo-dimer

Ligands

2 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.1: 15 residues within 4Å: Chain A: Y.360, S.386, G.387, G.389, K.390, S.391, T.392, Y.401, Q.432 Chain B: F.473, K.487, L.488, G.490 Ligands: VO4.2, MG.3 15 PLIP interactions: 12 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:G.387, A:G.387, A:G.389, A:K.390, A:S.391, A:S.391, A:T.392, A:Y.401, A:Y.401, A:Q.432, A:Q.432, B:L.488, B:G.490, B:G.491 Salt bridges: A:K.390 ADP.4: 15 residues within 4Å: Chain A: F.473, K.487, L.488, G.490, G.491, E.492 Chain B: Y.360, S.386, G.387, G.389, K.390, S.391, T.392 Ligands: VO4.5, MG.6 9 PLIP interactions: 2 interactions with chain A, 7 interactions with chain B Hydrogen bonds: A:G.490, A:G.491, B:G.387, B:G.387, B:S.391, B:S.391, B:T.392 pi-Stacking: B:Y.360, B:Y.360

2 x VO4: VANADATE ION(Non-covalent)

VO4.2: 10 residues within 4Å: Chain A: K.390, S.391, Q.432, E.513, H.544 Chain B: G.490, G.491, A.517 Ligands: ADP.1, MG.3 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.390, A:Q.432, A:Q.432, A:H.544 VO4.5: 11 residues within 4Å: Chain A: G.490, G.491, A.517 Chain B: S.386, K.390, S.391, Q.432, E.513, H.544 Ligands: ADP.4, MG.6 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:Q.432, A:A.517

2 x MG: MAGNESIUM ION(Non-covalent)

MG.3: 4 residues within 4Å: Chain A: S.391, Q.432 Ligands: ADP.1, VO4.2 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:S.391 MG.6: 5 residues within 4Å: Chain A: G.490 Chain B: S.391, Q.432 Ligands: ADP.4, VO4.5 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:S.391

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lee, S.S. et al., W546 stacking disruption traps the human porphyrin transporter ABCB6 in an outward-facing transient state. Commun Biol (2023)

Release Date

2023-10-04

Peptides

ATP-binding cassette sub-family B member 6: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Membrane

We predict this structure to be a membrane protein.
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ATP-binding cassette sub-family B member 6