SMTL ID : 5z2l.1 (5 other biounits)

Crystal structure of BdcA in complex with NADPH

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.70 Å

Oligo State

homo-dimer

Ligands

1 x PG0: 2-(2-METHOXYETHOXY)ETHANOL(Non-functional Binders)

PG0.1: 7 residues within 4Å: Chain A: F.88, G.89, V.140, A.141, G.142, M.143, M.190 No protein-ligand interaction detected (PLIP)

2 x NDP: NADPH DIHYDRO-NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NDP.2: 35 residues within 4Å: Chain A: G.13, G.14, S.15, R.16, G.17, I.18, T.36, Y.37, A.38, G.39, S.40, T.58, D.59, S.60, A.61, N.82, A.83, G.84, I.85, R.101, I.105, I.130, G.131, S.132, V.133, Y.146, K.150, P.176, G.177, P.178, I.179, T.181, D.182, A.183, N.184 26 PLIP interactions: 26 interactions with chain A Hydrogen bonds: A:S.15, A:S.15, A:S.15, A:R.16, A:R.16, A:I.18, A:A.38, A:G.39, A:S.40, A:D.59, A:D.59, A:S.60, A:A.61, A:Y.146, A:K.150, A:K.150, A:I.179, A:I.179, A:D.182, A:A.183, A:N.184 Water bridges: A:R.16, A:R.16, A:N.82 Salt bridges: A:R.16, A:R.16 NDP.4: 35 residues within 4Å: Chain B: G.13, G.14, S.15, R.16, G.17, I.18, T.36, Y.37, A.38, G.39, S.40, T.58, D.59, S.60, A.61, N.82, A.83, G.84, I.85, R.101, I.105, I.130, G.131, S.132, V.133, Y.146, K.150, P.176, G.177, P.178, I.179, T.181, D.182, A.183, N.184 29 PLIP interactions: 29 interactions with chain B Hydrophobic interactions: B:P.176 Hydrogen bonds: B:S.15, B:S.15, B:S.15, B:R.16, B:R.16, B:I.18, B:A.38, B:G.39, B:S.40, B:D.59, B:D.59, B:S.60, B:A.61, B:N.82, B:Y.146, B:K.150, B:K.150, B:I.179, B:I.179, B:T.181, B:D.182, B:A.183, B:N.184 Water bridges: B:R.16, B:G.19, B:R.101 Salt bridges: B:R.16, B:R.16

1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.3: 7 residues within 4Å: Chain B: V.140, M.143, M.190, M.193, L.194, L.197, F.235 2 PLIP interactions: 2 interactions with chain B Water bridges: B:N.134, B:V.140

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yang, W.S. et al., A potential substrate binding pocket of BdcA plays a critical role in NADPH recognition and biofilm dispersal. Biochem. Biophys. Res. Commun. (2018)

Release Date

2018-03-07

Peptides

Cyclic-di-GMP-binding biofilm dispersal mediator protein: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Cyclic-di-GMP-binding biofilm dispersal mediator protein

Related Entries With Identical Sequence