SMTL ID : 3i73.1

Structural characterization for the nucleotide binding ability of subunit A with ADP of the A1AO ATP synthase

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

monomer

Ligands

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

ADP.1: 15 residues within 4Å: Chain A: K.240, T.241, V.242, T.243, L.417, D.418, A.419, A.422, F.427, P.428, A.429, Q.505, D.506, A.507, F.508 9 PLIP interactions: 9 interactions with chain A Hydrogen bonds: A:S.238, A:V.242, A:T.243, A:D.418, A:A.429, A:D.506, A:A.507, A:F.508 Water bridges: A:Q.505

3 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.2: 6 residues within 4Å: Chain A: V.242, Q.246, K.249, L.278, A.507, F.508 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.278, A:F.508 Hydrogen bonds: A:Q.246, A:K.249 MPD.3: 6 residues within 4Å: Chain A: D.420, L.421, R.424, N.431, W.432, L.433 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:L.421, A:W.432, A:W.432, A:L.433 Hydrogen bonds: A:D.420, A:N.431, A:N.431 Water bridges: A:N.431 MPD.4: 5 residues within 4Å: Chain A: E.454, M.458, K.461, L.528, D.532 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.461, A:K.461

1 x TRS: 2-AMINO-2-HYDROXYMETHYL-PROPANE-1,3-DIOL(Non-functional Binders)

TRS.5: 4 residues within 4Å: Chain A: L.550, P.551, Q.578, E.581 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.578

1 x ACY: ACETIC ACID(Non-functional Binders)

ACY.6: 2 residues within 4Å: Chain A: F.399, L.417 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:F.399 Water bridges: A:D.418, A:A.419

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kumar, A. et al., Nucleotide binding states of subunit A of the A-ATP synthase and the implication of P-loop switch in evolution. J.Mol.Biol. (2010)

Release Date

2010-01-12

Peptides

A-TYPE ATP SYNTHASE CATALYTIC SUBUNIT A: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

A-TYPE ATP SYNTHASE CATALYTIC SUBUNIT A

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