SMTL ID : 4zfl.2 (2 other biounits)

Ergothioneine-biosynthetic Ntn hydrolase variant EgtC_C2A with natural substrate

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-tetramer

Ligands

4 x 4NK: (1S)-1-carboxy-4-({(1R)-1-carboxy-2-[(S)-{4-[(2S)-2-carboxy-2-(trimethylammonio)ethyl]-1H-imidazol-2-yl}sulfinyl]ethyl}amino)-4-oxobutan-1-aminium(Non-covalent)

4NK.1: 23 residues within 4Å: Chain A: A.1, Q.34, H.36, G.37, L.38, M.39, D.42, R.87, S.88, A.89, T.90, I.91, M.93, H.112, N.113, G.114, L.115, V.131, D.132, S.133, R.163 Chain D: Y.29, W.65 23 PLIP interactions: 21 interactions with chain A, 2 interactions with chain D Hydrophobic interactions: A:L.115 Hydrogen bonds: A:A.1, A:Q.34, A:L.38, A:M.39, A:S.88, A:T.90, A:T.90, A:N.113, A:G.114, A:G.114, A:G.114, A:S.133, A:S.133 Water bridges: A:R.87, A:S.88, A:R.163, A:R.163 Salt bridges: A:D.42, A:R.87, A:R.163 pi-Cation interactions: D:W.65, D:W.65 4NK.3: 24 residues within 4Å: Chain B: A.1, Q.34, H.36, G.37, L.38, M.39, A.41, D.42, R.87, S.88, A.89, T.90, I.91, M.93, H.112, N.113, G.114, L.115, V.131, D.132, S.133, R.163 Chain C: Y.29, W.65 22 PLIP interactions: 20 interactions with chain B, 2 interactions with chain C Hydrophobic interactions: B:L.115 Hydrogen bonds: B:A.1, B:Q.34, B:L.38, B:M.39, B:S.88, B:T.90, B:N.113, B:G.114, B:G.114, B:G.114, B:S.133, B:S.133 Water bridges: B:G.37, B:S.88, B:R.163, B:R.163 Salt bridges: B:D.42, B:R.87, B:R.163 pi-Cation interactions: C:W.65, C:W.65 4NK.4: 24 residues within 4Å: Chain B: Y.29, W.65 Chain C: A.1, Q.34, H.36, G.37, L.38, M.39, A.41, D.42, R.87, S.88, A.89, T.90, I.91, M.93, H.112, N.113, G.114, L.115, V.131, D.132, S.133, R.163 22 PLIP interactions: 19 interactions with chain C, 3 interactions with chain B Hydrophobic interactions: C:L.115 Hydrogen bonds: C:A.1, C:Q.34, C:L.38, C:M.39, C:S.88, C:S.88, C:T.90, C:N.113, C:G.114, C:G.114, C:D.132, C:S.133, C:S.133 Water bridges: C:R.163, C:R.163 Salt bridges: C:D.42, C:R.87, C:R.163 pi-Cation interactions: B:Y.29, B:W.65, B:W.65 4NK.5: 24 residues within 4Å: Chain A: Y.29, W.65 Chain D: A.1, Q.34, H.36, G.37, L.38, M.39, A.41, D.42, R.87, S.88, A.89, T.90, I.91, M.93, H.112, N.113, G.114, L.115, V.131, D.132, S.133, R.163 23 PLIP interactions: 21 interactions with chain D, 2 interactions with chain A Hydrophobic interactions: D:L.115 Hydrogen bonds: D:Q.34, D:L.38, D:M.39, D:S.88, D:T.90, D:N.113, D:G.114, D:G.114, D:D.132, D:S.133, D:S.133 Water bridges: D:A.1, D:A.1, D:G.37, D:S.88, D:R.163, D:R.163 Salt bridges: D:D.42, D:R.87, D:R.163 pi-Cation interactions: A:W.65, A:W.65

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 8 residues within 4Å: Chain A: D.105, W.108, G.144, L.145, D.146, A.147, N.170, R.173 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:W.108, A:L.145, A:D.146 Water bridges: A:A.147 GOL.6: 8 residues within 4Å: Chain D: Q.107, W.108, G.144, L.145, D.146, A.147, N.170, R.173 5 PLIP interactions: 5 interactions with chain D Hydrogen bonds: D:Q.107, D:W.108, D:L.145, D:D.146 Water bridges: D:A.147

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Vit, A. et al., Structure of the Ergothioneine-Biosynthesis Amidohydrolase EgtC. Chembiochem (2015)

Release Date

2015-07-01

Peptides

Amidohydrolase EgtC: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
E

B
H

C
J

D
K

Amidohydrolase EgtC

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