SMTL ID : 6d3u.2 (1 other biounit)

Complex structure of Ulvan lyase from Nonlaben Ulvanivorans- NLR48

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.21 Å

Oligo State

monomer

Ligands

1 x 83Y- BDP- 83Y- GCD: 4-deoxy-alpha-L-threo-hex-4-enopyranuronic acid-(1-4)-3-O-sulfo-alpha-L-rhamnopyranose-(1-4)-beta-D-glucopyranuronic acid-(1-4)-3-O-sulfo-alpha-L-rhamnopyranose

83Y-BDP-83Y-GCD.1: 13 residues within 4Å: Chain A: Q.115, Y.157, A.175, L.178, E.203, S.211, G.212, S.213, R.216, Y.281, R.282, K.284 Ligands: PO4.3 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.213, A:S.213, A:K.284, A:K.284, A:K.284

1 x CA: CALCIUM ION(Non-covalent)

CA.2: 6 residues within 4Å: Chain A: G.59, N.61, D.79, S.81, A.84, N.85 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:G.59, A:D.79, A:D.79, A:S.81, A:A.84

2 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.3: 7 residues within 4Å: Chain A: R.117, Q.160, D.173, P.174, A.175, Y.281 Ligands: 83Y-BDP-83Y-GCD.1 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:Q.160, A:Y.281 Water bridges: A:S.171, A:S.171, A:S.171, A:S.171 Salt bridges: A:R.117 PO4.4: 4 residues within 4Å: Chain A: S.121, R.124, D.173, R.277 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:S.121, A:D.173 Salt bridges: A:R.124, A:R.277

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

EDO.5: 3 residues within 4Å: Chain A: S.123, R.124, Q.126 6 PLIP interactions: 6 interactions with chain A Water bridges: A:D.76, A:S.123, A:S.123, A:S.123, A:R.124, A:K.299

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ulaganathan, T. et al., Structural and functional characterization of PL28 family ulvan lyase NLR48 fromNonlabens ulvanivorans. J. Biol. Chem. (2018)

Release Date

2018-06-06

Peptides

Ulvan lyase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Ulvan lyase

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