SMTL ID : 8t6u.1

Cryo-EM structure of human Anion Exchanger 1 bound to Dipyridamole

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY 3.13 Å

Oligo State

homo-dimer

Ligands

2 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 5 residues within 4Å: Chain A: R.64, N.65, N.274, S.276, A.277 No protein-ligand interaction detected (PLIP) NAG-NAG.2: 6 residues within 4Å: Chain B: R.64, N.65, N.274, S.276, A.277, R.288 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.64

8 x CLR: CHOLESTEROL(Non-covalent)

CLR.3: 9 residues within 4Å: Chain A: I.42, F.46, V.236, F.240, P.243, I.244, I.246, L.247, V.250 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:I.42, A:F.46, A:V.236, A:F.240, A:F.240, A:I.244, A:I.246, A:L.247, A:V.250 CLR.4: 5 residues within 4Å: Chain A: I.74, I.81, F.270, K.271, W.280 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:I.74, A:I.74, A:I.81, A:F.270, A:F.270 Hydrogen bonds: A:K.271, A:K.271 CLR.7: 5 residues within 4Å: Chain A: L.444, H.466, G.470, I.473, I.474 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.444, A:I.473, A:I.474 CLR.8: 4 residues within 4Å: Chain A: F.11, L.14, V.15, L.339 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:F.11, A:F.11, A:L.14, A:L.339 CLR.10: 8 residues within 4Å: Chain B: I.42, F.240, P.243, I.244, I.246, L.247, I.411, I.415 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:I.42, B:F.240, B:F.240, B:I.244, B:I.246, B:L.247, B:L.247, B:I.411, B:I.415 CLR.11: 5 residues within 4Å: Chain B: I.74, I.81, F.270, W.280, L.404 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:I.74, B:I.74, B:I.81, B:F.270, B:L.404 Hydrogen bonds: B:K.271, B:K.271 CLR.13: 6 residues within 4Å: Chain B: W.463, H.466, G.470, I.473, I.474, A.477 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:H.466, B:I.474 CLR.14: 3 residues within 4Å: Chain B: F.11, V.15, V.134 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:F.11, B:F.11, B:F.11, B:V.15, B:V.134

2 x PC1: 1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE(Non-covalent)

PC1.5: 12 residues within 4Å: Chain A: F.169, L.172, F.176, L.207, F.214, M.218, L.425 Chain B: V.208, F.215, V.252, I.256 Ligands: PC1.9 10 PLIP interactions: 4 interactions with chain B, 6 interactions with chain A Hydrophobic interactions: B:V.208, B:F.215, B:F.215, B:V.252, A:F.169, A:F.176, A:F.214, A:F.214, A:M.218, A:L.425 PC1.9: 13 residues within 4Å: Chain A: V.208, F.215, F.255, I.256 Chain B: F.169, L.172, F.176, L.207, F.214, F.215, M.218, L.425 Ligands: PC1.5 13 PLIP interactions: 9 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:F.169, B:L.172, B:F.176, B:L.207, B:L.207, B:F.214, B:F.215, B:M.218, B:L.425, A:V.208, A:F.215, A:F.215 Hydrogen bonds: A:F.255

2 x H9F: 2-[[2-[bis(2-hydroxyethyl)amino]-4,8-di(piperidin-1-yl)pyrimido[5,4-d]pyrimidin-6-yl]-(2-hydroxyethyl)amino]ethanol(Non-covalent)

H9F.6: 19 residues within 4Å: Chain A: P.51, T.54, F.55, L.58, S.97, G.98, P.99, L.101, V.102, I.160, I.163, F.164, E.167, T.168, K.171, E.313, K.483, S.488, L.491 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:L.58, A:L.101, A:I.160 Hydrogen bonds: A:G.98, A:F.164, A:K.171, A:S.488, A:S.488 H9F.12: 17 residues within 4Å: Chain B: P.51, T.54, F.55, S.97, G.98, P.99, V.102, I.160, I.163, F.164, E.167, T.168, K.171, F.424, K.483, S.488, L.491 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:I.160 Hydrogen bonds: B:P.51, B:F.55, B:T.168, B:S.488

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Capper, M.J. et al., Substrate binding and inhibition of the anion exchanger 1 transporter. Nat.Struct.Mol.Biol. (2023)

Release Date

2023-09-13

Peptides

Band 3 anion transport protein: 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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Band 3 anion transport protein

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