SMTL ID : 4m4v.1 (1 other biounit)

Structural evaluation R171L mutant of the aspergillus fumigatus kdnase (sialidase)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.84 Å

Oligo State

monomer

Ligands

1 x DAN: 2-DEOXY-2,3-DEHYDRO-N-ACETYL-NEURAMINIC ACID(Non-covalent)

DAN.1: 11 residues within 4Å: Chain A: R.75, I.76, R.94, D.100, Q.164, W.218, A.264, E.265, R.281, R.338, Y.374 20 PLIP interactions: 20 interactions with chain A Hydrophobic interactions: A:I.76, A:D.100, A:W.218 Hydrogen bonds: A:R.94, A:D.100, A:Q.164, A:E.265, A:E.265, A:R.281, A:R.281 Water bridges: A:R.75, A:R.75, A:R.75, A:N.140, A:N.140, A:E.265, A:R.338 Salt bridges: A:R.75, A:R.281, A:R.338

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 2 residues within 4Å: Chain A: R.86, K.112 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.86, A:R.86 Water bridges: A:T.114 GOL.6: 1 residues within 4Å: Chain A: P.40 No protein-ligand interaction detected (PLIP)

2 x NO3: NITRATE ION(Non-functional Binders)

NO3.3: 6 residues within 4Å: Chain A: T.231, G.232, E.233, R.246, G.247, R.252 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.231, A:G.247, A:G.247, A:R.252 Water bridges: A:R.252 NO3.4: 3 residues within 4Å: Chain A: A.57, N.58, Y.403 No protein-ligand interaction detected (PLIP)

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

NA.5: 6 residues within 4Å: Chain A: D.103, I.104, N.105, S.133, G.136, W.138 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.103, A:I.104, A:S.133, A:G.136

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yeung, J.Y. et al., Active site mutants of a fungal KDNase. To be Published

Release Date

2014-09-17

Peptides

Extracellular sialidase/neuraminidase, putative: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Extracellular sialidase/neuraminidase, putative

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