SMTL ID : 2pcl.1 (1 other biounit)

Crystal structure of ABC transporter with complex (aq_297) from aquifex aeolicus VF5

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-dimer

Ligands

2 x MG: MAGNESIUM ION(Non-covalent)

MG.1: 5 residues within 4Å: Chain A: E.166, P.167, T.168, T.197, L.202 2 PLIP interactions: 1 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:T.197, H2O.9 MG.13: 5 residues within 4Å: Chain B: E.166, P.167, T.168, T.197, L.202 2 PLIP interactions: 1 interactions with chain B, 1 Ligand-Water interactions Metal complexes: B:T.197, H2O.22

12 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 7 residues within 4Å: Chain A: A.38, S.39, G.40, S.41, G.42, K.43, S.44 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:A.38, A:G.40, A:S.41, A:G.42, A:K.43, A:S.44 Water bridges: A:K.43, A:K.43, A:S.44, A:S.44, A:T.45 Salt bridges: A:K.43 SO4.3: 3 residues within 4Å: Chain A: S.142, E.145, N.175 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:S.142, A:S.142, A:N.175 Water bridges: A:R.148, A:R.148, A:D.172 SO4.4: 4 residues within 4Å: Chain A: S.142, G.143 Chain B: Q.89, F.90 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:G.143, B:Q.89 Water bridges: A:G.144, A:N.170, B:N.170 SO4.5: 2 residues within 4Å: Chain A: R.6, S.26 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.26, A:S.26 Water bridges: A:R.6 Salt bridges: A:R.6 SO4.6: 7 residues within 4Å: Chain A: F.90, H.91, Y.92 Chain B: F.90, H.91, Y.92 Ligands: SO4.18 10 PLIP interactions: 4 interactions with chain A, 6 interactions with chain B Hydrogen bonds: A:H.91, A:Y.92, B:H.91, B:Y.92 Water bridges: A:L.93, B:H.91, B:L.93, B:L.93 Salt bridges: A:H.91, B:H.91 SO4.7: 4 residues within 4Å: Chain A: R.200, E.204, I.221, R.223 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.204 Salt bridges: A:R.200, A:R.223 SO4.14: 7 residues within 4Å: Chain B: A.38, S.39, G.40, S.41, G.42, K.43, S.44 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:A.38, B:G.40, B:S.41, B:G.42, B:K.43, B:S.44 Water bridges: B:K.43, B:K.43, B:S.44, B:S.44, B:T.45 Salt bridges: B:K.43 SO4.15: 3 residues within 4Å: Chain B: S.142, E.145, N.175 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:S.142, B:S.142, B:N.175 Water bridges: B:R.148, B:R.148, B:D.172 SO4.16: 4 residues within 4Å: Chain A: Q.89, F.90 Chain B: S.142, G.143 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:G.143, A:Q.89 Water bridges: B:G.144, B:N.170, A:N.170 SO4.17: 2 residues within 4Å: Chain B: R.6, S.26 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:S.26, B:S.26 Water bridges: B:R.6 Salt bridges: B:R.6 SO4.18: 7 residues within 4Å: Chain A: F.90, H.91, Y.92 Chain B: F.90, H.91, Y.92 Ligands: SO4.6 10 PLIP interactions: 5 interactions with chain A, 5 interactions with chain B Hydrogen bonds: A:H.91, A:Y.92, B:H.91, B:Y.92 Water bridges: A:L.93, A:L.93, B:H.91, B:L.93 Salt bridges: A:H.91, B:H.91 SO4.19: 4 residues within 4Å: Chain B: R.200, E.204, I.221, R.223 2 PLIP interactions: 2 interactions with chain B Salt bridges: B:R.200, B:R.223

10 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.8: 4 residues within 4Å: Chain A: E.73, K.74, S.77, K.109 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:E.73, A:S.77, A:K.109 Water bridges: A:S.77, A:R.80, A:N.81 EDO.9: 6 residues within 4Å: Chain A: E.67, V.68, D.69, E.75, L.76, L.79 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.67, A:D.69, A:E.75 Water bridges: A:L.79 EDO.10: 5 residues within 4Å: Chain A: L.53, F.86, F.88 Chain B: P.95, E.96 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:P.95 Water bridges: A:R.80, A:R.80 EDO.11: 5 residues within 4Å: Chain A: E.127, L.128, G.129, R.178, I.182 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.178 EDO.12: 3 residues within 4Å: Chain A: K.12, D.54, A.55 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.12, A:A.55 EDO.20: 4 residues within 4Å: Chain B: E.73, K.74, S.77, K.109 7 PLIP interactions: 7 interactions with chain B Hydrogen bonds: B:E.73, B:E.73, B:S.77, B:K.109 Water bridges: B:S.77, B:R.80, B:N.81 EDO.21: 6 residues within 4Å: Chain B: E.67, V.68, D.69, E.75, L.76, L.79 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:E.67, B:D.69, B:E.75 Water bridges: B:E.75, B:L.79 EDO.22: 5 residues within 4Å: Chain A: P.95, E.96 Chain B: L.53, F.86, F.88 3 PLIP interactions: 2 interactions with chain B, 1 interactions with chain A Water bridges: B:R.80, B:R.80 Hydrogen bonds: A:P.95 EDO.23: 5 residues within 4Å: Chain B: E.127, L.128, G.129, R.178, I.182 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.178 EDO.24: 3 residues within 4Å: Chain B: K.12, D.54, A.55 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.12, B:A.55

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Jeyakanthan, J. et al., Crystal structure of ABC transporter with complex (aq_297) from aquifex aeolicus VF5. To be Published

Release Date

2007-10-02

Peptides

Lipoprotein-releasing system ATP-binding protein lolD: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Lipoprotein-releasing system ATP-binding protein lolD

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