SMTL ID : 2x8f.1 (1 other biounit)

Native structure of Endo-1,5-alpha-L-arabinanases from Bacillus subtilis

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

monomer

Ligands

1 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.1: 4 residues within 4Å: Chain A: W.93, R.125, M.151, E.152 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.152, A:E.152 Water bridges: A:G.153 Salt bridges: A:R.125

1 x CA: CALCIUM ION(Non-covalent)

CA.2: 2 residues within 4Å: Chain A: P.172, H.318 5 PLIP interactions: 1 interactions with chain A, 4 Ligand-Water interactions Metal complexes: A:H.318, H2O.1, H2O.4, H2O.5, H2O.6

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 3 residues within 4Å: Chain A: N.406, K.407, N.408 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.407, A:N.408, A:N.408, A:N.408 GOL.6: 5 residues within 4Å: Chain A: N.45, Y.49, N.135, I.136, E.137 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.45, A:N.135, A:N.135, A:E.137 Water bridges: A:I.136, A:I.136 GOL.7: 3 residues within 4Å: Chain A: F.48, D.324, Y.367 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.331, A:Y.367 GOL.8: 7 residues within 4Å: Chain A: T.311, G.312, Y.313, F.338, R.348, R.366, V.447 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:G.312, A:Y.313, A:R.348, A:R.366 Water bridges: A:R.341, A:S.446 GOL.9: 6 residues within 4Å: Chain A: G.121, S.123, P.124, N.168, Y.189, F.285 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:S.123 Water bridges: A:N.168, A:N.168, A:N.168, A:N.168, A:S.190, A:S.190

2 x NA: SODIUM ION(Non-functional Binders)

NA.4: 3 residues within 4Å: Chain A: D.103, V.104, T.105 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.103, A:V.104 NA.5: 2 residues within 4Å: Chain A: V.73, Y.84 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.84, A:D.97

1 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.10: 5 residues within 4Å: Chain A: H.37, S.53, H.54, L.246, R.337 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.246 Hydrogen bonds: A:H.54

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

De Sanctis, D. et al., New Evidence for the Role of Calcium in the Glycosidase Reaction of Gh43 Arabinanases. FEBS J. (2010)

Release Date

2011-03-23

Peptides

ENDO-ALPHA-1,5-L-ARABINANASE: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

ENDO-ALPHA-1,5-L-ARABINANASE

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