SMTL ID : 4ayx.1

STRUCTURE OF THE HUMAN MITOCHONDRIAL ABC TRANSPORTER, ABCB10 (ROD FORM B)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.90 Å

Oligo State

homo-dimer

Ligands

2 x GLY: GLYCINE(Non-covalent)

GLY.1: 4 residues within 4Å: Chain A: R.20, Y.84, R.92 Chain B: R.239 5 PLIP interactions: 4 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:Y.84, A:Y.84, B:R.239 Salt bridges: A:R.20, A:R.92 GLY.8: 4 residues within 4Å: Chain A: R.239 Chain B: R.20, Y.84, R.92 4 PLIP interactions: 1 interactions with chain A, 3 interactions with chain B Hydrogen bonds: A:R.239, B:Y.84 Salt bridges: B:R.20, B:R.92

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain A: S.384, Q.425, D.508 Ligands: ACP.3 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:S.384 MG.9: 4 residues within 4Å: Chain B: S.384, Q.425, D.508 Ligands: ACP.10 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:S.384

2 x ACP: PHOSPHOMETHYLPHOSPHONIC ACID ADENYLATE ESTER(Non-covalent)

ACP.3: 14 residues within 4Å: Chain A: D.114, Y.351, A.353, R.354, I.359, S.379, G.380, S.381, G.382, K.383, S.384, T.385, Q.425 Ligands: MG.2 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:D.114, A:S.379, A:G.380, A:S.381, A:G.382, A:K.383, A:K.383, A:S.384, A:T.385, A:Q.425 pi-Stacking: A:Y.351, A:Y.351 ACP.10: 14 residues within 4Å: Chain B: D.114, Y.351, A.353, R.354, I.359, S.379, G.380, S.381, G.382, K.383, S.384, T.385, Q.425 Ligands: MG.9 15 PLIP interactions: 15 interactions with chain B Hydrogen bonds: B:D.114, B:S.379, B:G.380, B:S.381, B:G.382, B:K.383, B:K.383, B:S.384, B:T.385, B:T.385, B:Y.394, B:Q.425 Water bridges: B:Y.351 pi-Stacking: B:Y.351, B:Y.351

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

LMT.4: 12 residues within 4Å: Chain A: D.47, Y.50, T.51, L.264, G.268, M.271, G.272, T.277, V.278 Chain B: I.49, L.64, L.68 7 PLIP interactions: 5 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:M.271, B:L.64, B:L.68 Hydrogen bonds: A:D.47, A:D.47, A:G.272, A:V.278 LMT.6: 12 residues within 4Å: Chain A: N.163, F.167, S.255, L.258, I.259, S.262, Y.265, K.266, L.270, S.273, H.275 Ligands: CDL.5 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:F.167, A:L.258, A:I.259, A:Y.265, A:K.266 Hydrogen bonds: A:S.273 Salt bridges: A:K.266, A:K.266 LMT.11: 12 residues within 4Å: Chain A: I.49, L.64, L.68 Chain B: D.47, Y.50, T.51, L.264, G.268, M.271, G.272, T.277, V.278 6 PLIP interactions: 4 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:M.271, A:L.64, A:L.68 Hydrogen bonds: B:D.47, B:G.272, B:V.278 LMT.13: 12 residues within 4Å: Chain B: N.163, F.167, S.255, L.258, I.259, S.262, Y.265, K.266, L.270, S.273, H.275 Ligands: CDL.12 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:F.167, B:L.258, B:I.259, B:Y.265, B:K.266 Hydrogen bonds: B:S.273 Salt bridges: B:K.266, B:K.266

4 x CDL: CARDIOLIPIN(Non-covalent)

CDL.5: 13 residues within 4Å: Chain A: N.163, T.166, F.167, S.170, V.171, V.175, I.178, A.179, Y.182, A.251, S.255, K.266 Ligands: LMT.6 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:F.167, A:V.171, A:I.178, A:I.178, A:A.179, A:Y.182, A:A.251 Hydrogen bonds: A:N.163, A:T.166 Salt bridges: A:K.266 CDL.7: 7 residues within 4Å: Chain A: M.30, S.31, I.34, V.71, G.75, N.79 Chain B: N.257 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:I.34, A:N.79 CDL.12: 13 residues within 4Å: Chain B: N.163, T.166, F.167, S.170, V.171, V.175, I.178, A.179, Y.182, A.251, S.255, K.266 Ligands: LMT.13 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:F.167, B:V.171, B:I.178, B:I.178, B:A.179, B:Y.182, B:A.251 Hydrogen bonds: B:N.163 Salt bridges: B:K.266 CDL.14: 7 residues within 4Å: Chain A: N.257 Chain B: M.30, S.31, I.34, V.71, G.75, N.79 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:I.34, B:N.79

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Shintre, C.A. et al., Structures of Abcb10, a Human ATP-Binding Cassette Transporter in Apo- and Nucleotide-Bound States. Proc.Natl.Acad.Sci.USA (2013)

Release Date

2012-07-11

Peptides

ATP-BINDING CASSETTE SUB-FAMILY B MEMBER 10: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Membrane

We predict this structure to be a membrane protein.
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ATP-BINDING CASSETTE SUB-FAMILY B MEMBER 10

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