SMTL ID : 8q2o.1

Structure of alginate transporter AlgE from P. aeruginosa PAO1 by using Se-MAG for the the lipid cubic phase crystallization

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

monomer

Ligands

1 x FLC: CITRATE ANION(Non-covalent)

FLC.1: 9 residues within 4Å: Chain A: H.10, S.11, S.12, K.36, R.63, T.90, D.91, T.92, R.141 21 PLIP interactions: 21 interactions with chain A Hydrogen bonds: A:S.11, A:S.11, A:S.12, A:D.91, A:T.92, A:R.351 Water bridges: A:H.10, A:S.11, A:S.11, A:K.36, A:K.36, A:K.36, A:K.36, A:K.36, A:R.63, A:R.141 Salt bridges: A:H.10, A:H.10, A:K.36, A:R.63, A:R.141

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

NA.2: 4 residues within 4Å: Chain A: A.125, T.128, Y.130, E.133 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.128, A:T.128 NA.3: 6 residues within 4Å: Chain A: N.254, N.262, R.306, N.308, K.314, G.347 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.262, A:R.306, A:N.308, A:K.314 NA.25: 6 residues within 4Å: Chain A: H.5, H.6, P.16, W.65, R.478 Ligands: SO4.24 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.5, A:R.478, A:R.478 NA.26: 5 residues within 4Å: Chain A: H.6, K.29, W.65, F.67 Ligands: SO4.24 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.29, A:K.29 NA.27: 4 residues within 4Å: Chain A: D.44, D.46, A.50, G.52 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.46, A:A.50

2 x PE5: 3,6,9,12,15,18,21,24-OCTAOXAHEXACOSAN-1-OL(Non-covalent)

PE5.4: 9 residues within 4Å: Chain A: R.274, N.276, L.277, T.278, Q.292, S.293, G.294, D.328, G.329 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.276 PE5.5: 7 residues within 4Å: Chain A: Q.148, W.149, W.243, T.268, F.333, Q.335, T.336 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.268, A:Q.335, A:T.336 Water bridges: A:T.268, A:G.300

16 x IRY: [(2~{S})-2,3-bis(oxidanyl)propyl] 8-hexylselanyloctanoate

IRY.6: 13 residues within 4Å: Chain A: P.64, G.79, Q.80, A.81, L.115, A.116, A.117, R.180, T.181, D.182, D.184 Ligands: IRY.7, C8E.23 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:P.64, A:A.81, A:L.115, A:T.181 Hydrogen bonds: A:L.183, A:D.184 IRY.7: 8 residues within 4Å: Chain A: F.77, A.117, S.177, Y.179 Ligands: IRY.6, IRY.8, IRY.9, IRY.20 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:A.117 IRY.8: 13 residues within 4Å: Chain A: F.137, G.138, E.155, A.156, V.172, A.173, Q.174, F.176, S.177, Y.179, D.184, L.186 Ligands: IRY.7 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:E.155, A:Q.174, A:F.176, A:Y.179 Water bridges: A:S.177, A:E.178, A:L.183, A:L.183 IRY.9: 13 residues within 4Å: Chain A: N.30, A.66, F.67, G.68, W.70, A.75, Y.76, F.77, F.120, W.121, F.137 Ligands: IRY.7, IRY.20 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:A.75, A:F.77, A:F.120 Hydrogen bonds: A:N.30 IRY.10: 10 residues within 4Å: Chain A: I.309, D.310, W.313, K.314, A.315, G.373, S.374, A.383, L.421 Ligands: IRY.11 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:I.309, A:I.309, A:W.313, A:W.313, A:W.313, A:A.315, A:A.383, A:L.421 IRY.11: 11 residues within 4Å: Chain A: W.307, I.309, A.315, G.316, V.317, L.371, F.372, G.373, L.385, Y.387 Ligands: IRY.10 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:W.307, A:W.307, A:A.315, A:V.317, A:L.371 IRY.12: 8 residues within 4Å: Chain A: I.210, I.246, A.248, A.265, S.266, A.267, R.321 Ligands: IRY.13 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:I.210, A:I.246, A:A.248, A:A.265, A:A.267 Water bridges: A:R.321 Salt bridges: A:R.321 IRY.13: 8 residues within 4Å: Chain A: I.246, W.269, N.297, A.298, F.299, E.330, E.331 Ligands: IRY.12 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:I.246, A:F.299, A:F.299, A:F.299, A:F.299 Hydrogen bonds: A:N.297, A:E.330 IRY.14: 8 residues within 4Å: Chain A: L.165, L.166, T.202, I.210, V.212, L.244, I.246, W.269 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.165, A:I.210, A:V.212, A:I.246 IRY.15: 7 residues within 4Å: Chain A: W.159, A.170, F.197, I.214, H.216, T.242 Ligands: IRY.18 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:W.159, A:A.170, A:I.214 Water bridges: A:H.216, A:T.242 Salt bridges: A:H.216 IRY.16: 10 residues within 4Å: Chain A: G.39, E.40, N.56, D.57, T.85, F.449, A.471, V.473 Ligands: IRY.19, IRY.22 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:F.449 Hydrogen bonds: A:N.56 Water bridges: A:D.57, A:D.57 IRY.17: 6 residues within 4Å: Chain A: W.375, L.377, Y.381, V.423, I.447, F.449 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:W.375, A:I.447 IRY.18: 10 residues within 4Å: Chain A: W.159, H.169, G.198, D.199, I.200, V.212, R.213, I.214, L.244 Ligands: IRY.15 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:W.159 IRY.19: 6 residues within 4Å: Chain A: I.37, G.39, N.56, I.58 Ligands: IRY.16, IRY.22 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:I.37, A:I.58 IRY.20: 3 residues within 4Å: Chain A: W.70 Ligands: IRY.7, IRY.9 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:W.70, A:W.70, A:W.70, A:W.70 IRY.22: 12 residues within 4Å: Chain A: S.41, N.43, L.419, L.421, F.449, G.451, G.452, L.453, H.469, A.471 Ligands: IRY.16, IRY.19 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.421, A:F.449, A:L.453, A:A.471 Hydrogen bonds: A:S.41, A:N.43 Salt bridges: A:H.469

2 x C8E: (HYDROXYETHYLOXY)TRI(ETHYLOXY)OCTANE(Non-functional Binders)

C8E.21: 3 residues within 4Å: Chain A: I.58, A.83, A.84 No protein-ligand interaction detected (PLIP) C8E.23: 8 residues within 4Å: Chain A: I.60, L.62, A.81, V.82, Y.114, L.115, T.181 Ligands: IRY.6 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:I.60, A:L.62, A:A.81, A:L.115 Water bridges: A:D.111

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

SO4.24: 9 residues within 4Å: Chain A: H.5, H.6, S.19, H.20, M.21, P.28, K.29 Ligands: NA.25, NA.26 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:H.20, A:M.21, A:A.27, A:K.29 Water bridges: A:S.19 Salt bridges: A:H.5

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Boland, C. et al., Se-MAG Is a Convenient Additive for Experimental Phasing and Structure Determination of Membrane Proteins Crystallised by the Lipid Cubic Phase (In Meso) Method. Crystals (2023)

Release Date

2024-05-15

Peptides

Alginate production protein AlgE: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Membrane

We predict this structure to be a membrane protein.
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Alginate production protein AlgE

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