SMTL ID : 7yro.2 (3 other biounits)

Crystal structure of mango fucosyltransferase 13

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.42 Å

Oligo State

homo-dimer

Ligands

2 x PPV: PYROPHOSPHATE(Non-covalent)

PPV.1: 6 residues within 4Å: Chain A: S.229, S.230, R.231, R.236, N.301, K.311 10 PLIP interactions: 10 interactions with chain A Hydrogen bonds: A:S.230, A:R.231, A:N.301 Water bridges: A:N.301, A:T.309 Salt bridges: A:R.231, A:R.236, A:R.236, A:K.311, A:K.311 PPV.10: 7 residues within 4Å: Chain B: S.228, S.229, S.230, R.231, R.236, N.301, K.311 12 PLIP interactions: 12 interactions with chain B Hydrogen bonds: B:S.229, B:S.229, B:S.230, B:R.231, B:N.301 Water bridges: B:R.231, B:K.311 Salt bridges: B:R.231, B:R.236, B:R.236, B:K.311, B:K.311

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

NAG.2: 2 residues within 4Å: Chain A: N.221, D.222 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.222 NAG.11: 3 residues within 4Å: Chain B: P.56, N.221, D.222 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:D.222

10 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 6 residues within 4Å: Chain A: M.109, H.111, S.113, K.149, D.151 Chain B: R.373 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.113, A:S.113 GOL.4: 5 residues within 4Å: Chain A: W.121, L.176, E.177, Y.202, F.207 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:W.121, A:E.177 Water bridges: A:E.177 GOL.5: 3 residues within 4Å: Chain A: K.117, G.118, W.119 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:W.119, A:W.119 GOL.7: 4 residues within 4Å: Chain A: S.230, R.231, C.232, K.254 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:C.232 GOL.8: 4 residues within 4Å: Chain A: F.325, G.342, T.343, F.345 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:F.345 Water bridges: A:T.343, A:F.345 GOL.9: 8 residues within 4Å: Chain A: N.128, L.129, Y.130, S.131 Chain B: A.203, R.384, S.387, D.389 6 PLIP interactions: 4 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:R.384, B:R.384, B:R.384, B:S.387, A:N.128, A:S.131 GOL.12: 8 residues within 4Å: Chain A: R.77, R.373, C.374 Chain B: M.109, H.111, S.113, K.149, D.151 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.113, B:D.151 GOL.13: 5 residues within 4Å: Chain B: T.157, T.158, T.159, Y.173, S.183 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:T.157, B:T.159 GOL.14: 4 residues within 4Å: Chain B: W.121, L.176, E.177, Y.202 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Y.202 Water bridges: B:W.121, B:E.177 GOL.15: 2 residues within 4Å: Chain B: G.118, W.119 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:W.119, B:W.119

1 x ACY: ACETIC ACID(Non-functional Binders)

ACY.6: 6 residues within 4Å: Chain A: L.176, T.201, Y.202, G.204, F.207, L.388 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:L.388

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Okada, T. et al., Crystal structure of mango alpha1,3/alpha1,4-fucosyltransferase elucidates unique elements strictly regulating its type I-dominant acceptor preference. To Be Published

Release Date

2023-08-16

Peptides

Fucosyltransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
D

Fucosyltransferase

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