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

Structure of the reversible pyrrole-2-carboxylic acid decarboxylase PA0254/HudA

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.65 Å

Oligo State

homo-dimer

Ligands

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

MN.1: 4 residues within 4Å: Chain A: H.188, E.229 Ligands: K.2, 4LU.3 5 PLIP interactions: 2 interactions with chain A, 3 Ligand-Water interactions Metal complexes: A:H.188, A:E.229, H2O.1, H2O.2, H2O.5 MN.6: 4 residues within 4Å: Chain B: H.188, E.229 Ligands: K.7, 4LU.8 5 PLIP interactions: 2 interactions with chain B, 3 Ligand-Water interactions Metal complexes: B:H.188, B:E.229, H2O.14, H2O.18, H2O.18

2 x K: POTASSIUM ION(Non-covalent)

K.2: 7 residues within 4Å: Chain A: W.166, A.218, A.219, M.221, E.229 Ligands: MN.1, 4LU.3 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:A.218, A:A.219, A:M.221, A:E.229 K.7: 7 residues within 4Å: Chain B: W.166, A.218, A.219, M.221, E.229 Ligands: MN.6, 4LU.8 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:A.218, B:A.219, B:M.221, B:E.229

2 x 4LU: 1-deoxy-5-O-phosphono-1-(3,3,4,5-tetramethyl-9,11-dioxo-2,3,8,9,10,11-hexahydro-7H-quinolino[1,8-fg]pteridin-12-ium-7-y l)-D-ribitol(Non-covalent)

4LU.3: 23 residues within 4Å: Chain A: T.150, S.167, V.168, G.169, R.170, P.182, Q.187, H.188, A.219, G.220, M.221, P.222, E.229, E.278, C.309, E.317, N.318, W.322, H.386, L.390 Ligands: MN.1, K.2, IMD.4 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:V.168, A:R.170, A:W.322 Hydrogen bonds: A:V.168, A:V.168, A:R.170, A:Q.187, A:H.188, A:G.220, A:W.322 Water bridges: A:S.167, A:P.182, A:I.189 Salt bridges: A:H.188, A:H.386 4LU.8: 25 residues within 4Å: Chain B: T.150, S.167, V.168, G.169, R.170, P.182, I.184, Q.187, H.188, A.219, G.220, M.221, P.222, E.229, E.278, C.309, E.317, N.318, I.321, W.322, H.386, L.390 Ligands: IMD.5, MN.6, K.7 19 PLIP interactions: 19 interactions with chain B Hydrophobic interactions: B:V.168, B:R.170, B:I.321, B:W.322 Hydrogen bonds: B:V.168, B:V.168, B:R.170, B:Q.187, B:H.188, B:G.220, B:W.322 Water bridges: B:S.167, B:R.170, B:P.182, B:Q.187, B:I.189, B:H.386 Salt bridges: B:H.188, B:H.386

2 x IMD: IMIDAZOLE(Non-covalent)

IMD.4: 6 residues within 4Å: Chain A: E.278, Y.279, N.318, W.322, M.434 Ligands: 4LU.3 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.318 pi-Stacking: A:W.322 IMD.5: 6 residues within 4Å: Chain B: E.278, Y.279, N.318, W.322, M.434 Ligands: 4LU.8 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.278

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
D

B
M

UbiD-like decarboxylase

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