SMTL ID : 4nmb.1

Crystal structure of proline utilization A (PutA) from Geobacter sulfurreducens PCA in complex with L-lactate

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-dimer

Ligands

2 x FAD: FLAVIN-ADENINE DINUCLEOTIDE(Non-covalent)

FAD.1: 32 residues within 4Å: Chain A: D.245, M.246, V.275, Q.277, Y.279, R.304, V.306, K.307, G.308, A.309, Y.310, W.311, W.328, T.329, I.330, K.331, S.334, D.335, A.357, S.358, H.359, N.360, Q.384, V.385, L.386, Y.407, R.423, E.426, E.431, S.432, F.433 Ligands: 2OP.2 30 PLIP interactions: 30 interactions with chain A Hydrophobic interactions: A:A.357, A:Q.384, A:L.386, A:L.386, A:Y.407 Hydrogen bonds: A:M.246, A:M.246, A:Q.277, A:R.304, A:K.307, A:G.308, A:G.308, A:A.309, A:T.329, A:S.334, A:D.335, A:S.358, A:H.359, A:H.359, A:N.360, A:N.360, A:E.426, A:E.426, A:F.433 Water bridges: A:L.434 Salt bridges: A:K.307, A:K.307, A:K.331 pi-Stacking: A:W.311, A:W.311 FAD.4: 32 residues within 4Å: Chain B: D.245, M.246, V.275, Q.277, Y.279, R.304, V.306, K.307, G.308, A.309, Y.310, W.311, W.328, T.329, I.330, K.331, S.334, D.335, A.357, S.358, H.359, N.360, Q.384, V.385, L.386, Y.407, R.423, E.426, E.431, S.432, F.433 Ligands: 2OP.5 31 PLIP interactions: 31 interactions with chain B Hydrophobic interactions: B:A.357, B:Q.384, B:L.386, B:L.386, B:Y.407, B:Y.407 Hydrogen bonds: B:M.246, B:M.246, B:Q.277, B:R.304, B:K.307, B:G.308, B:G.308, B:A.309, B:T.329, B:K.331, B:S.334, B:D.335, B:H.359, B:N.360, B:N.360, B:E.426, B:F.433 Water bridges: B:K.204, B:Y.310, B:L.434 Salt bridges: B:K.307, B:K.307, B:K.331 pi-Stacking: B:W.311, B:W.311

2 x 2OP: (2S)-2-HYDROXYPROPANOIC ACID(Non-covalent)

2OP.2: 8 residues within 4Å: Chain A: K.204, D.245, A.309, L.386, Y.419, R.422, R.423 Ligands: FAD.1 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:L.386, A:Y.419 Hydrogen bonds: A:K.204 Water bridges: A:D.245, A:Y.310 Salt bridges: A:K.204, A:R.422, A:R.423 2OP.5: 8 residues within 4Å: Chain B: K.204, D.245, A.309, L.386, Y.419, R.422, R.423 Ligands: FAD.4 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:L.386, B:Y.419 Hydrogen bonds: B:K.204 Water bridges: B:K.204, B:Y.310 Salt bridges: B:K.204, B:R.422, B:R.423

2 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.3: 10 residues within 4Å: Chain A: E.610, F.614, F.657, I.661, K.793, S.795, T.949, G.950, A.951, F.958 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:S.795, A:G.950, A:A.951 Water bridges: A:F.958 Salt bridges: A:E.610 pi-Cation interactions: A:F.958 MES.6: 10 residues within 4Å: Chain B: E.610, F.614, F.657, I.661, S.795, T.949, G.950, A.951, F.958, A.970 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:S.795, B:G.950, B:A.951 Salt bridges: B:E.610

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Singh, H. et al., Structures of the PutA peripheral membrane flavoenzyme reveal a dynamic substrate-channeling tunnel and the quinone-binding site. Proc.Natl.Acad.Sci.USA (2014)

Release Date

2014-02-19

Peptides

Proline dehydrogenase and Delta-1-pyrroline-5-carboxylate dehydrogenase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Proline dehydrogenase and Delta-1-pyrroline-5-carboxylate dehydrogenase

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