SMTL ID : 6xbb.1 (1 other biounit)

Crystal structure of Streptomyces sviceus SsDesB in complex with NADP+

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.37 Å

Oligo State

homo-tetramer

Ligands

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

FAD.1: 29 residues within 4Å: Chain A: G.18, L.19, G.20, P.21, F.22, L.41, E.42, S.43, K.44, W.49, H.50, M.53, L.60, Q.61, T.62, R.103, T.124, T.125, V.126, G.154, T.155, G.156, Y.337, F.344, N.379, P.390, D.391, L.392 Ligands: NAP.2 23 PLIP interactions: 23 interactions with chain A Hydrophobic interactions: A:W.49, A:H.50, A:M.53, A:Y.337 Hydrogen bonds: A:L.19, A:L.19, A:F.22, A:S.43, A:K.44, A:W.49, A:Q.61, A:T.62, A:T.62, A:T.62, A:V.126, A:V.126, A:N.379, A:P.390, A:L.392 Water bridges: A:N.23, A:G.156, A:T.157, A:T.157 FAD.3: 27 residues within 4Å: Chain B: G.18, L.19, G.20, P.21, F.22, L.41, E.42, S.43, K.44, W.49, H.50, L.60, Q.61, T.62, T.124, T.125, V.126, G.154, T.155, G.156, Y.337, F.344, N.379, P.390, D.391, L.392 Ligands: NAP.4 23 PLIP interactions: 23 interactions with chain B Hydrophobic interactions: B:W.49, B:H.50, B:Y.337 Hydrogen bonds: B:L.19, B:L.19, B:G.20, B:F.22, B:S.43, B:W.49, B:Q.61, B:T.62, B:T.62, B:V.126, B:V.126, B:N.379, B:P.390, B:L.392 Water bridges: B:S.43, B:K.44, B:G.156, B:G.156, B:T.157, B:T.157 FAD.5: 28 residues within 4Å: Chain C: G.18, L.19, G.20, P.21, F.22, L.41, E.42, S.43, K.44, W.49, H.50, M.53, L.60, Q.61, T.62, T.124, T.125, V.126, G.154, T.155, G.156, Y.337, F.344, N.379, P.390, D.391, L.392 Ligands: NAP.6 24 PLIP interactions: 24 interactions with chain C Hydrophobic interactions: C:W.49, C:H.50, C:M.53, C:Y.337 Hydrogen bonds: C:L.19, C:L.19, C:F.22, C:S.43, C:W.49, C:Q.61, C:T.62, C:T.62, C:V.126, C:V.126, C:N.379, C:P.390, C:L.392 Water bridges: C:N.23, C:S.43, C:S.43, C:H.50, C:H.50, C:G.156, C:T.157 FAD.7: 28 residues within 4Å: Chain D: G.18, L.19, G.20, P.21, F.22, L.41, E.42, S.43, K.44, W.49, H.50, M.53, L.60, Q.61, T.62, T.124, T.125, V.126, G.154, T.155, G.156, Y.337, F.344, N.379, P.390, D.391, L.392 Ligands: NAP.8 25 PLIP interactions: 25 interactions with chain D Hydrophobic interactions: D:W.49, D:H.50, D:M.53, D:Y.337 Hydrogen bonds: D:G.18, D:L.19, D:L.19, D:F.22, D:S.43, D:W.49, D:Q.61, D:T.62, D:T.62, D:V.126, D:V.126, D:G.156, D:N.379, D:P.390, D:L.392 Water bridges: D:G.20, D:N.23, D:S.43, D:S.43, D:T.157, D:T.157

4 x NAP: NADP NICOTINAMIDE-ADENINE-DINUCLEOTIDE PHOSPHATE(Non-covalent)

NAP.2: 26 residues within 4Å: Chain A: H.59, L.60, Q.61, R.103, P.162, V.194, G.195, S.196, G.197, Q.198, S.199, E.202, T.222, R.223, S.224, K.264, F.267, K.268, S.299, S.300, L.301, A.334, T.335, G.336, Y.337 Ligands: FAD.1 31 PLIP interactions: 31 interactions with chain A Hydrophobic interactions: A:Q.198 Hydrogen bonds: A:H.59, A:Q.61, A:Q.61, A:R.103, A:S.196, A:S.196, A:G.197, A:Q.198, A:S.199, A:S.199, A:R.223, A:R.223, A:S.224, A:S.224, A:F.267, A:K.268, A:L.301, A:L.301 Water bridges: A:Y.160, A:Q.198, A:Q.198, A:A.200, A:A.200, A:G.269, A:A.334, A:G.336 Salt bridges: A:R.223, A:K.264, A:K.268 pi-Cation interactions: A:R.223 NAP.4: 26 residues within 4Å: Chain B: H.59, L.60, Q.61, R.103, P.162, V.194, G.195, S.196, G.197, Q.198, S.199, E.202, T.222, R.223, S.224, K.264, F.267, K.268, S.299, S.300, L.301, A.334, T.335, G.336, Y.337 Ligands: FAD.3 31 PLIP interactions: 31 interactions with chain B Hydrophobic interactions: B:Q.198, B:Q.198 Hydrogen bonds: B:H.59, B:Q.61, B:Q.61, B:R.103, B:S.196, B:S.196, B:G.197, B:Q.198, B:S.199, B:S.199, B:R.223, B:S.224, B:S.224, B:F.267, B:L.301, B:L.301 Water bridges: B:H.59, B:Y.160, B:Q.198, B:Q.198, B:A.200, B:R.223, B:K.264, B:K.268, B:G.336 Salt bridges: B:R.223, B:K.264, B:K.268 pi-Cation interactions: B:R.223 NAP.6: 27 residues within 4Å: Chain C: H.59, L.60, Q.61, R.103, P.162, N.175, V.194, G.195, S.196, G.197, Q.198, S.199, E.202, T.222, R.223, S.224, K.264, F.267, K.268, S.299, S.300, L.301, A.334, T.335, G.336, Y.337 Ligands: FAD.5 27 PLIP interactions: 27 interactions with chain C Hydrophobic interactions: C:Q.198 Hydrogen bonds: C:H.59, C:Q.61, C:R.103, C:N.175, C:N.175, C:S.196, C:S.196, C:G.197, C:S.199, C:S.199, C:T.222, C:R.223, C:R.223, C:S.224, C:S.224, C:F.267, C:L.301, C:L.301 Water bridges: C:H.59, C:Q.198, C:Q.198, C:K.268 Salt bridges: C:R.223, C:K.264, C:K.268 pi-Cation interactions: C:R.223 NAP.8: 26 residues within 4Å: Chain D: H.59, L.60, Q.61, R.103, P.162, V.194, G.195, S.196, G.197, Q.198, S.199, E.202, T.222, R.223, S.224, K.264, F.267, K.268, S.299, S.300, L.301, A.334, T.335, G.336, Y.337 Ligands: FAD.7 29 PLIP interactions: 29 interactions with chain D Hydrophobic interactions: D:Q.198 Hydrogen bonds: D:H.59, D:Q.61, D:R.103, D:S.196, D:S.196, D:G.197, D:Q.198, D:Q.198, D:S.199, D:S.199, D:T.222, D:R.223, D:R.223, D:S.224, D:S.224, D:F.267, D:L.301, D:L.301 Water bridges: D:A.200, D:E.202, D:S.224, D:G.269, D:A.334, D:G.336 Salt bridges: D:R.223, D:K.264, D:K.268 pi-Cation interactions: D:R.223

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Giddings, L.A. et al., Characterization of a broadly specific cadaverine N-hydroxylase involved in desferrioxamine B biosynthesis in Streptomyces sviceus. Plos One (2021)

Release Date

2021-03-17

Peptides

Monooxigenase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Monooxigenase

Related Entries With Identical Sequence