SMTL ID : 7psn.1

S. cerevisiae Atm1 in MSP1E3D1 nanodiscs with bound AMP-PNP and Mg2+

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-dimer

Ligands

2 x ANP: PHOSPHOAMINOPHOSPHONIC ACID-ADENYLATE ESTER(Non-covalent)

ANP.1: 21 residues within 4Å: Chain A: Y.354, H.355, R.358, I.360, G.381, G.383, K.384, S.385, T.386, Q.426, E.507, H.540 Chain B: L.463, M.481, I.482, S.483, G.484, G.485, E.486, A.511 Ligands: MG.2 17 PLIP interactions: 13 interactions with chain A, 4 interactions with chain B Hydrogen bonds: A:R.358, A:R.358, A:G.381, A:S.382, A:G.383, A:K.384, A:K.384, A:S.385, A:T.386, A:Q.426, A:Q.426, A:E.507, B:S.483, B:G.484, B:G.485, B:E.486 pi-Stacking: A:Y.354 ANP.5: 21 residues within 4Å: Chain A: L.463, M.481, I.482, S.483, G.484, G.485, E.486, A.511 Chain B: Y.354, H.355, R.358, I.360, G.381, G.383, K.384, S.385, T.386, Q.426, E.507, H.540 Ligands: MG.6 17 PLIP interactions: 4 interactions with chain A, 13 interactions with chain B Hydrogen bonds: A:S.483, A:G.484, A:G.485, A:E.486, B:R.358, B:R.358, B:G.381, B:S.382, B:G.383, B:K.384, B:K.384, B:S.385, B:T.386, B:Q.426, B:Q.426, B:E.507 pi-Stacking: B:Y.354

2 x MG: MAGNESIUM ION(Non-covalent)

MG.2: 4 residues within 4Å: Chain A: S.385, Q.426, D.506 Ligands: ANP.1 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:S.385 MG.6: 4 residues within 4Å: Chain B: S.385, Q.426, D.506 Ligands: ANP.5 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:S.385

4 x LOP: (1R)-2-{[(R)-(2-AMINOETHOXY)(HYDROXY)PHOSPHORYL]OXY}-1-[(DODECANOYLOXY)METHYL]ETHYL (9Z)-OCTADEC-9-ENOATE(Non-covalent)

LOP.3: 9 residues within 4Å: Chain A: I.32, Q.36, F.39, F.150, S.153, V.154, I.158, Y.161, Q.162 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:I.32, A:F.150, A:F.150, A:V.154, A:I.158, A:Y.161 Hydrogen bonds: A:Y.161, A:Q.162 LOP.4: 5 residues within 4Å: Chain A: T.160, Y.161, G.164, A.165, F.172 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:T.160 Hydrogen bonds: A:Y.161 LOP.7: 9 residues within 4Å: Chain B: I.32, Q.36, F.39, F.150, S.153, V.154, I.158, Y.161, Q.162 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:I.32, B:F.150, B:F.150, B:V.154, B:I.158, B:Y.161 Hydrogen bonds: B:Y.161, B:Q.162 LOP.8: 5 residues within 4Å: Chain B: T.160, Y.161, G.164, A.165, F.172 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:T.160 Hydrogen bonds: B:Y.161

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ellinghaus, T.L. et al., Conformational changes in the yeast mitochondrial ABC transporter Atm1 during the transport cycle. Sci Adv (2021)

Release Date

2021-12-29

Peptides

Iron-sulfur clusters transporter ATM1, mitochondrial: 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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Iron-sulfur clusters transporter ATM1, mitochondrial

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