SMTL ID : 8yr4.1

Cryo-EM structure of the human ABCB6 in complex with Cd(II):Phytochelatin 2

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-dimer

Ligands

4 x CYS- GLU: Phytochelatin 2(Non-covalent)

CYS-GLU.1: 7 residues within 4Å: Chain B: R.230, L.289, T.344 Ligands: CYS-GLY.2, CYS-GLY.2, FGA.5, CD.6 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.230, B:T.344 CYS-GLU.2: 6 residues within 4Å: Chain B: R.234, R.347, M.348 Ligands: CYS-GLU.1, CYS-GLU.1, CD.6 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.347, B:R.347 Salt bridges: B:R.234 CYS-GLU.3: 5 residues within 4Å: Chain A: R.230, T.344 Ligands: CYS-GLY.4, CD.6, FGA.7 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.230, A:R.230 CYS-GLU.4: 6 residues within 4Å: Chain A: R.234, R.347, M.348 Ligands: CYS-GLU.3, CYS-GLU.3, CD.6 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.234

2 x FGA: GAMMA-D-GLUTAMIC ACID(Non-covalent)

FGA.5: 6 residues within 4Å: Chain B: N.293, Q.296, N.340, T.344 Ligands: CYS-GLU.1, CYS-GLU.1 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.340, B:N.340 FGA.7: 7 residues within 4Å: Chain A: L.289, N.293, N.340, W.341, T.344 Ligands: CYS-GLU.3, CYS-GLU.3 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.293

1 x CD: CADMIUM ION(Non-functional Binders)

CD.6: 4 residues within 4Å: Ligands: CYS-GLU.1, CYS-GLY.2, CYS-GLU.3, CYS-GLY.4 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Choi, S.H. et al., Cryo-EM structure of cadmium-bound human ABCB6. Commun Biol (2024)

Release Date

2024-06-19

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

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