SMTL ID : 7abo.1 (1 other biounit)

Structure of the N318H variant of the reversible pyrrole-2-carboxylic acid decarboxylase PA0254/HudA in complex with FMN

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

homo-dimer

Ligands

2 x FMN: FLAVIN MONONUCLEOTIDE(Non-covalent)

FMN.1: 24 residues within 4Å: Chain A: T.153, Y.154, S.170, V.171, G.172, R.173, P.185, I.187, Q.190, H.191, A.222, G.223, M.224, P.225, E.232, C.312, E.320, H.321, I.324, W.325, H.389, L.393 Ligands: MN.2, NA.3 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:Y.154, A:V.171, A:E.320, A:I.324 Hydrogen bonds: A:V.171, A:V.171, A:R.173, A:Q.190, A:H.191, A:G.223 Water bridges: A:S.170, A:P.185, A:I.192, A:H.389 Salt bridges: A:H.191, A:H.389 FMN.4: 24 residues within 4Å: Chain B: T.153, Y.154, S.170, V.171, G.172, R.173, P.185, I.187, Q.190, H.191, A.222, G.223, M.224, P.225, E.232, C.312, E.320, H.321, I.324, W.325, H.389, L.393 Ligands: MN.5, NA.6 15 PLIP interactions: 15 interactions with chain B Hydrophobic interactions: B:Y.154, B:V.171, B:E.320, B:I.324 Hydrogen bonds: B:V.171, B:R.173, B:Q.190, B:Q.190, B:H.191, B:G.223, B:M.224 Water bridges: B:S.170, B:I.192 Salt bridges: B:H.191, B:H.389

2 x MN: MANGANESE (II) ION(Non-covalent)

MN.2: 4 residues within 4Å: Chain A: H.191, E.232 Ligands: FMN.1, NA.3 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:H.191, A:E.232, H2O.2, H2O.3, H2O.3 MN.5: 4 residues within 4Å: Chain B: H.191, E.232 Ligands: FMN.4, NA.6 6 PLIP interactions: 2 interactions with chain B, 1 Ligand-Ligand interactions, 3 Ligand-Water interactions Metal complexes: B:H.191, B:E.232, FMN.4, H2O.9, H2O.10, H2O.12

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

NA.3: 7 residues within 4Å: Chain A: W.169, A.221, A.222, M.224, E.232 Ligands: FMN.1, MN.2 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:A.222, A:M.224 NA.6: 7 residues within 4Å: Chain B: W.169, A.221, A.222, M.224, E.232 Ligands: FMN.4, MN.5 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:A.222, B:M.224 Water bridges: B:L.226

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Payne, K.A.P. et al., Structure and Mechanism of Pseudomonas aeruginosa PA0254/HudA, a prFMN-Dependent Pyrrole-2-carboxylic Acid Decarboxylase Linked to Virulence. Acs Catalysis (2021)

Release Date

2021-04-07

Peptides

UbiD-like decarboxylase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
C

B
B

UbiD-like decarboxylase

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