SMTL ID : 8ja4.1

Structure of the alginate epimerase/lyase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.04 Å

Oligo State

monomer

Ligands

6 x CA: CALCIUM ION(Non-covalent)

CA.1: 6 residues within 4Å: Chain A: S.91, K.92, E.95, T.97, G.124, D.133 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:S.91, A:K.92, A:E.95, A:T.97, A:D.133 CA.2: 7 residues within 4Å: Chain A: S.339, G.341, D.343, G.356, G.357, A.358, D.361 6 PLIP interactions: 6 interactions with chain A Metal complexes: A:S.339, A:G.341, A:D.343, A:G.356, A:A.358, A:D.361 CA.3: 5 residues within 4Å: Chain A: G.357, G.359, D.361, D.379, D.392 5 PLIP interactions: 4 interactions with chain A, 1 Ligand-Water interactions Metal complexes: A:G.357, A:G.359, A:D.361, A:D.379, H2O.3 CA.4: 7 residues within 4Å: Chain A: A.348, G.350, D.352, G.365, G.366, G.367, D.370 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:A.348, A:G.350, A:D.352, A:G.365, A:G.367 CA.5: 5 residues within 4Å: Chain A: G.366, G.367, G.368, D.370, D.402 6 PLIP interactions: 4 interactions with chain A, 2 Ligand-Water interactions Metal complexes: A:G.366, A:G.368, A:D.370, A:D.402, H2O.1, H2O.6 CA.6: 2 residues within 4Å: Chain A: Q.111, T.114 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:Q.111, A:T.114, H2O.6, H2O.6, H2O.6

3 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.7: 3 residues within 4Å: Chain A: K.172, G.194, R.195 No protein-ligand interaction detected (PLIP) PEG.8: 4 residues within 4Å: Chain A: R.278, D.306, Y.307, D.308 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.306, A:D.308 Water bridges: A:R.278, A:Y.307 PEG.9: 9 residues within 4Å: Chain A: Y.149, H.154, V.176, D.178, R.195, N.199, V.201, Q.225 Ligands: PGE.10 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:D.178, A:R.195, A:N.199, A:Q.225 Water bridges: A:R.195

2 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.10: 8 residues within 4Å: Chain A: R.195, H.196, N.220, Q.225, A.249, E.250, L.253 Ligands: PEG.9 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.195, A:R.195, A:N.220, A:Q.225, A:R.276 PGE.11: 2 residues within 4Å: Chain A: D.271, G.296 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fujiwara, T. et al., Structural basis for the minimal bifunctional alginate epimerase AlgE3 from Azotobacter chroococcum. Febs Lett. (2024)

Release Date

2024-05-08

Peptides

mannuronan 5-epimerase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

mannuronan 5-epimerase

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