SMTL ID : 3tif.2 (1 other biounit)

Dimeric structure of a post-hydrolysis state of the ATP-binding cassette MJ0796 bound to ADP and Pi

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.80 Å

Oligo State

homo-tetramer

Ligands

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

ADP.1: 18 residues within 4Å: Chain A: Y.11, I.18, A.20, P.39, S.40, G.41, S.42, G.43, K.44, S.45, T.46 Chain B: F.138, H.141, Q.145, S.147, Q.150 Ligands: PI.2, NA.5 16 PLIP interactions: 4 interactions with chain B, 12 interactions with chain A Hydrogen bonds: B:N.144, B:S.147, B:Q.150, B:Q.150, A:G.41, A:G.41, A:S.42, A:G.43, A:K.44, A:S.45, A:T.46 Water bridges: A:S.45, A:S.45 Salt bridges: A:K.44 pi-Stacking: A:Y.11, A:Y.11 ADP.6: 20 residues within 4Å: Chain A: F.138, N.144, Q.145, L.146, S.147, Q.150 Chain B: Y.11, M.13, A.20, P.39, S.40, G.41, S.42, G.43, K.44, S.45, T.46 Ligands: IPA.4, PI.7, NA.9 20 PLIP interactions: 7 interactions with chain A, 13 interactions with chain B Hydrogen bonds: A:N.144, A:S.147, A:S.147, A:Q.150, A:Q.150, B:G.41, B:S.42, B:G.43, B:K.44, B:S.45, B:T.46 Water bridges: A:R.137, A:Q.145, B:S.45, B:S.45, B:S.45, B:Q.90 Salt bridges: B:K.44 pi-Stacking: B:Y.11, B:Y.11 ADP.10: 18 residues within 4Å: Chain C: Y.11, I.18, A.20, P.39, S.40, G.41, S.42, G.43, K.44, S.45, T.46 Chain D: F.138, H.141, Q.145, S.147, Q.150 Ligands: PI.11, NA.14 19 PLIP interactions: 14 interactions with chain C, 5 interactions with chain D Hydrogen bonds: C:G.41, C:G.41, C:S.42, C:G.43, C:K.44, C:S.45, C:T.46, C:T.46, D:H.141, D:N.144, D:S.147, D:Q.150, D:Q.150 Water bridges: C:Y.11, C:S.45, C:S.45 Salt bridges: C:K.44 pi-Stacking: C:Y.11, C:Y.11 ADP.15: 20 residues within 4Å: Chain C: F.138, N.144, Q.145, L.146, S.147, Q.150 Chain D: Y.11, M.13, A.20, P.39, S.40, G.41, S.42, G.43, K.44, S.45, T.46 Ligands: IPA.13, PI.16, NA.18 22 PLIP interactions: 15 interactions with chain D, 7 interactions with chain C Hydrogen bonds: D:G.41, D:S.42, D:G.43, D:K.44, D:S.45, D:T.46, D:T.46, C:N.144, C:S.147, C:S.147, C:Q.150, C:Q.150 Water bridges: D:Y.11, D:S.45, D:S.45, D:S.45, D:Q.90, C:R.137, C:Q.145 Salt bridges: D:K.44 pi-Stacking: D:Y.11, D:Y.11

4 x PI: HYDROGENPHOSPHATE ION(Non-covalent)

PI.2: 13 residues within 4Å: Chain A: S.40, G.41, K.44, Q.90, Q.171, H.204 Chain B: S.147, G.148, G.149, Q.150, A.175 Ligands: ADP.1, NA.5 13 PLIP interactions: 7 interactions with chain B, 6 interactions with chain A Hydrogen bonds: B:S.147, B:S.147, B:S.147, B:G.148, B:G.149, B:Q.150, B:A.175, A:G.41, A:Q.90, A:Q.171 Water bridges: A:S.45 Salt bridges: A:K.44, A:H.204 PI.7: 12 residues within 4Å: Chain A: S.147, G.148, G.149, A.175 Chain B: S.40, G.41, K.44, Q.90, Q.171, H.204 Ligands: ADP.6, NA.9 11 PLIP interactions: 4 interactions with chain A, 7 interactions with chain B Hydrogen bonds: A:G.148, A:G.149, A:Q.150, A:A.175, B:G.41, B:Q.90, B:Q.90, B:Q.171 Water bridges: B:S.45 Salt bridges: B:K.44, B:H.204 PI.11: 13 residues within 4Å: Chain C: S.40, G.41, K.44, Q.90, Q.171, H.204 Chain D: S.147, G.148, G.149, Q.150, A.175 Ligands: ADP.10, NA.14 13 PLIP interactions: 6 interactions with chain C, 7 interactions with chain D Hydrogen bonds: C:G.41, C:Q.90, C:Q.171, D:S.147, D:S.147, D:S.147, D:G.148, D:G.149, D:Q.150, D:A.175 Water bridges: C:S.45 Salt bridges: C:K.44, C:H.204 PI.16: 12 residues within 4Å: Chain C: S.147, G.148, G.149, A.175 Chain D: S.40, G.41, K.44, Q.90, Q.171, H.204 Ligands: ADP.15, NA.18 11 PLIP interactions: 4 interactions with chain C, 7 interactions with chain D Hydrogen bonds: C:G.148, C:G.149, C:Q.150, C:A.175, D:G.41, D:Q.90, D:Q.90, D:Q.171 Water bridges: D:S.45 Salt bridges: D:K.44, D:H.204

6 x IPA: ISOPROPYL ALCOHOL(Non-functional Binders)

IPA.3: 5 residues within 4Å: Chain A: S.178, G.181, E.182, D.205, N.207 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:E.182 Water bridges: A:T.173 IPA.4: 4 residues within 4Å: Chain A: N.144, L.146 Chain B: Y.11 Ligands: ADP.6 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Water bridges: B:T.46, A:G.148 IPA.8: 4 residues within 4Å: Chain B: S.178, G.181, E.182, D.205 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:E.182 IPA.12: 5 residues within 4Å: Chain C: S.178, G.181, E.182, D.205, N.207 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:E.182 Water bridges: C:D.205 IPA.13: 4 residues within 4Å: Chain C: N.144, L.146 Chain D: Y.11 Ligands: ADP.15 2 PLIP interactions: 1 interactions with chain D, 1 interactions with chain C Water bridges: D:T.46, C:G.148 IPA.17: 4 residues within 4Å: Chain D: S.178, G.181, E.182, D.205 1 PLIP interactions: 1 interactions with chain D Hydrophobic interactions: D:E.182

4 x NA: SODIUM ION(Non-functional Binders)

NA.5: 6 residues within 4Å: Chain A: S.45, Q.90, D.170, Q.171 Ligands: ADP.1, PI.2 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:S.45, A:D.170 Water bridges: B:G.148 NA.9: 5 residues within 4Å: Chain B: S.45, Q.90, Q.171 Ligands: ADP.6, PI.7 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.45, B:Q.90, B:Q.171 NA.14: 6 residues within 4Å: Chain C: S.45, Q.90, D.170, Q.171 Ligands: ADP.10, PI.11 3 PLIP interactions: 2 interactions with chain C, 1 interactions with chain D Hydrogen bonds: C:S.45, C:Q.90 Water bridges: D:G.148 NA.18: 5 residues within 4Å: Chain D: S.45, Q.90, Q.171 Ligands: ADP.15, PI.16 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:Q.90, D:Q.90, D:Q.171

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zoghbi, M.E. et al., Kinetics of the association/dissociation cycle of an ATP-binding cassette nucleotide-binding domain. J.Biol.Chem. (2012)

Release Date

2012-03-21

Peptides

Uncharacterized ABC transporter ATP-binding protein MJ0796: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

Uncharacterized ABC transporter ATP-binding protein MJ0796

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