SMTL ID : 4oca.1

Cryatal structure of ArnB K188A complexted with PLP and UDP-Ara4N

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-dimer

Ligands

2 x 2QR: (2R,3R,4S,5S)-3,4-dihydroxy-5-[({3-hydroxy-2-methyl-5-[(phosphonooxy)methyl]pyridin-4-yl}methyl)amino]tetrahydro-2H-pyr an-2-yl [(2R,3S,4R,5R)-5-(2,4-dioxo-3,4-dihydropyrimidin-1(2H)-yl)-3,4-dihydroxytetrahydrofuran-2-yl]methyl dihydrogen diphosphate(Non-covalent)

2QR.1: 31 residues within 4Å: Chain A: P.12, F.13, S.14, R.15, P.16, S.62, A.63, T.64, T.88, W.89, S.91, V.134, D.160, A.162, H.163, S.183, F.184, H.185, A.186, I.187, G.195, H.297, L.298, H.329, F.330 Chain B: G.33, W.34, I.35, T.36, F.214, K.241 26 PLIP interactions: 21 interactions with chain A, 5 interactions with chain B Hydrophobic interactions: A:W.89, A:W.89, A:V.134, A:A.162, A:A.186 Hydrogen bonds: A:S.14, A:A.63, A:T.64, A:T.64, A:H.163, A:S.183, A:S.183, A:S.183, A:H.185, A:H.329, B:G.33, B:I.35, B:T.36 Water bridges: A:W.89, A:W.89, A:E.194 Salt bridges: A:H.185, A:H.185, A:H.329, B:K.241 pi-Stacking: B:W.34 2QR.2: 31 residues within 4Å: Chain A: G.33, W.34, I.35, T.36, F.214, K.241 Chain B: P.12, F.13, S.14, R.15, P.16, S.62, A.63, T.64, T.88, W.89, S.91, V.134, D.160, A.162, H.163, S.183, F.184, H.185, A.186, I.187, G.195, H.297, L.298, H.329, F.330 25 PLIP interactions: 5 interactions with chain A, 20 interactions with chain B Hydrogen bonds: A:G.33, A:I.35, A:T.36, B:S.14, B:A.63, B:T.64, B:T.64, B:H.163, B:S.183, B:S.183, B:S.183, B:H.185, B:H.329 Salt bridges: A:K.241, B:H.185, B:H.185, B:H.329 pi-Stacking: A:W.34 Hydrophobic interactions: B:W.89, B:W.89, B:V.134, B:A.162, B:A.186 Water bridges: B:W.89, B:W.89

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lee, M. et al., Structural Basis for Substrate Specificity in ArnB. A Key Enzyme in the Polymyxin Resistance Pathway of Gram-Negative Bacteria. Biochemistry (2014)

Release Date

2014-03-12

Peptides

UDP-4-amino-4-deoxy-L-arabinose--oxoglutarate aminotransferase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

UDP-4-amino-4-deoxy-L-arabinose--oxoglutarate aminotransferase