SMTL ID : 4obv.2 (1 other biounit)

Ruminococcus gnavus tryptophan decarboxylase RUMGNA_01526 (alpha-FMT)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.84 Å

Oligo State

homo-dimer

Ligands

2 x 2SU: alpha-(fluoromethyl)-D-tryptophan(Non-covalent)

2SU.1: 10 residues within 4Å: Chain A: K.40, P.102, A.103, S.104, S.105, F.309, L.371, P.462, E.463 Chain B: I.19 9 PLIP interactions: 8 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:F.309, A:L.371, A:P.462, B:I.19 Hydrogen bonds: A:P.102, A:S.105, A:S.105 Salt bridges: A:K.40 pi-Stacking: A:F.309 2SU.3: 8 residues within 4Å: Chain A: I.19 Chain B: P.102, A.103, S.104, S.105, F.309, P.462, E.463 8 PLIP interactions: 1 interactions with chain A, 7 interactions with chain B Hydrophobic interactions: A:I.19, B:F.309, B:P.462 Hydrogen bonds: B:P.102, B:S.105, B:S.105 Salt bridges: B:K.40 pi-Stacking: B:F.309

2 x 3SO: {5-hydroxy-4-[(1E)-4-(1H-indol-3-yl)-3-oxobut-1-en-1-yl]-6-methylpyridin-3-yl}methyl dihydrogen phosphate(Covalent)(Non-covalent)

3SO.2: 17 residues within 4Å: Chain A: F.98, V.99, G.159, S.160, N.163, H.192, S.194, T.249, D.274, A.276, D.303, H.305, K.306 Chain B: H.120, L.126, W.349, T.356 13 PLIP interactions: 9 interactions with chain A, 4 interactions with chain B Hydrophobic interactions: A:F.98, A:A.276, B:L.126, B:W.349 Hydrogen bonds: A:V.99, A:V.99, A:G.159, A:S.160, B:T.356 Salt bridges: A:K.306 pi-Stacking: A:F.98, A:H.192, B:H.120 3SO.4: 20 residues within 4Å: Chain A: H.120, L.336, L.339, W.349, L.355, T.356 Chain B: F.98, V.99, G.158, G.159, S.160, H.192, S.194, G.247, T.249, D.274, A.276, D.303, H.305, K.306 17 PLIP interactions: 10 interactions with chain B, 7 interactions with chain A Hydrophobic interactions: B:F.98, B:H.192, A:L.336, A:L.339, A:W.349 Hydrogen bonds: B:V.99, B:V.99, B:G.159, B:S.160, B:H.305, A:L.355, A:T.356, A:T.356 Salt bridges: B:K.306 pi-Stacking: B:F.98, B:H.192 pi-Cation interactions: A:H.120

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Williams, B.B. et al., Discovery and Characterization of Gut Microbiota Decarboxylases that Can Produce the Neurotransmitter Tryptamine. Cell Host Microbe (2014)

Release Date

2014-10-29

Peptides

Pyridoxal-dependent decarboxylase domain protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
A

Pyridoxal-dependent decarboxylase domain protein

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