SMTL ID : 5eb4.2 (1 other biounit)

The crystal structure of almond HNL, PaHNL5 V317A, expressed in Aspergillus niger

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

monomer

Ligands

2 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 5 residues within 4Å: Chain A: L.307, N.353, R.422, N.431, Y.432 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.431, A:Y.432 Water bridges: A:R.422 NAG-NAG.2: 5 residues within 4Å: Chain A: T.4, S.5, A.6, N.191, T.193 No protein-ligand interaction detected (PLIP)

5 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.3: 1 residues within 4Å: Chain A: N.151 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.151 NAG.4: 3 residues within 4Å: Chain A: L.374, N.375, N.385 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.375, A:N.385 NAG.5: 3 residues within 4Å: Chain A: L.367, N.393, S.394 No protein-ligand interaction detected (PLIP) NAG.6: 9 residues within 4Å: Chain A: N.118, S.120, Q.124, H.177, A.179, I.322, R.323, S.324, Y.327 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:I.322 Hydrogen bonds: A:N.118, A:Q.124, A:S.324 NAG.7: 4 residues within 4Å: Chain A: R.116, L.131, N.135, D.176 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.131 Hydrogen bonds: A:R.116, A:N.135, A:D.176

1 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)

FAD.8: 31 residues within 4Å: Chain A: G.33, G.34, G.35, T.36, S.37, L.54, E.55, R.56, V.98, A.100, R.101, I.102, G.105, T.106, N.110, A.111, G.112, V.113, A.215, V.217, S.257, A.258, G.259, V.380, W.459, H.460, D.487, A.488, H.498, P.499, Q.500 31 PLIP interactions: 31 interactions with chain A Hydrophobic interactions: A:T.106, A:N.110, A:W.459, A:W.459, A:W.459 Hydrogen bonds: A:G.34, A:T.36, A:T.36, A:S.37, A:R.56, A:R.56, A:A.100, A:I.102, A:T.106, A:N.110, A:A.111, A:V.113, A:V.113, A:V.217, A:V.217, A:A.488, A:Q.500 Water bridges: A:G.35, A:G.38, A:R.99, A:A.100, A:T.106, A:T.106, A:T.106, A:T.260, A:G.501

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Pavkov-Keller, T. et al., Structures of almond hydroxynitrile lyase isoenzyme 5 provide a rationale for the lack of oxidoreductase activity in flavin dependent HNLs. J.Biotechnol. (2016)

Release Date

2016-04-20

Peptides

Hnl isoenzyme 5: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Hnl isoenzyme 5

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