SMTL ID : 4c14.1

The crystal strucuture of PpAzoR in complex with reactive black 5 (RB5)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

2 x FD5: [5-[3-[2-[[4-[2-[1-azanyl-7-[2-[4-[methyl-bis(oxidanyl)-$l^{4}-sulfanyl]phenyl]hydrazinyl]-8-oxidanyl-3,6-bis[tris(oxidanyl)-$l^{4}-sulfanyl]naphthalen-2-yl]hydrazinyl]phenyl]-bis(oxidanyl)-$l^{4}-sulfanyl]ethoxy]-7,8-dimethyl-2,4-bis(oxidanylidene)benzo[g]pteridin-10-yl]-2,3,4-tris(oxidanyl)pentyl] dihydrogen phosphate(Non-covalent)

FD5.1: 29 residues within 4Å: Chain A: S.9, I.10, L.11, N.14, S.15, A.16, S.17, P.94, M.95, Y.96, N.97, F.98, T.139, A.140, G.141, G.142, H.144, L.177, A.178, R.184 Chain B: F.50, L.55, V.56, G.59, T.60, Y.120, P.125, F.163 Ligands: 12P.2 26 PLIP interactions: 24 interactions with chain A, 2 interactions with chain B Hydrophobic interactions: A:L.11, A:Y.96, A:Y.96, A:A.178, B:F.50 Hydrogen bonds: A:S.9, A:S.9, A:N.14, A:S.15, A:A.16, A:S.17, A:R.18, A:M.95, A:M.95, A:Y.96, A:N.97, A:F.98, A:G.141, A:G.142, A:L.177, A:L.177, A:R.184, B:G.59 Water bridges: A:L.11, A:N.14, A:R.184 FD5.3: 29 residues within 4Å: Chain A: F.50, L.55, V.56, G.59, T.60, Y.120, P.125, F.163 Chain B: S.9, I.10, L.11, N.14, S.15, A.16, S.17, P.94, M.95, Y.96, N.97, F.98, T.139, A.140, G.141, G.142, H.144, L.177, A.178, R.184 Ligands: 12P.4 26 PLIP interactions: 2 interactions with chain A, 24 interactions with chain B Hydrophobic interactions: A:F.50, B:L.11, B:Y.96, B:Y.96, B:A.178 Hydrogen bonds: A:G.59, B:S.9, B:S.9, B:N.14, B:S.15, B:A.16, B:S.17, B:R.18, B:M.95, B:M.95, B:Y.96, B:N.97, B:F.98, B:G.141, B:G.142, B:L.177, B:L.177, B:R.184 Water bridges: B:L.11, B:N.14, B:R.184

2 x 12P: DODECAETHYLENE GLYCOL(Non-covalent)

12P.2: 3 residues within 4Å: Chain A: A.178 Chain B: Y.120 Ligands: FD5.1 No protein-ligand interaction detected (PLIP) 12P.4: 3 residues within 4Å: Chain A: Y.120 Chain B: A.178 Ligands: FD5.3 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Goncalves, A.M. et al., The crystal structure of Pseudomonas putida azoreductase - the active site revisited. FEBS J. (2013)

Release Date

2013-10-30

Peptides

FMN-DEPENDENT NADH-AZOREDUCTASE 1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

FMN-DEPENDENT NADH-AZOREDUCTASE 1