SMTL ID : 4oif.1

3D structure of Gan42B, a GH42 beta-galactosidase from G.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.45 Å

Oligo State

homo-trimer

Ligands

3 x ZN: ZINC ION(Non-covalent)

ZN.1: 4 residues within 4Å: Chain A: C.123, C.163, C.165, C.168 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.123, A:C.163, A:C.165, A:C.168 ZN.10: 4 residues within 4Å: Chain B: C.123, C.163, C.165, C.168 4 PLIP interactions: 4 interactions with chain B Metal complexes: B:C.123, B:C.163, B:C.165, B:C.168 ZN.23: 4 residues within 4Å: Chain C: C.123, C.163, C.165, C.168 4 PLIP interactions: 4 interactions with chain C Metal complexes: C:C.123, C:C.163, C:C.165, C:C.168

25 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 8 residues within 4Å: Chain A: S.326, L.327, K.364, D.378, V.387 Chain C: E.531, T.532 Ligands: GOL.25 Ligand excluded by PLIP GOL.3: 11 residues within 4Å: Chain A: D.20, F.53, R.119, N.157, E.158, N.255, D.284, E.322, F.360, E.370 Ligands: GOL.4 Ligand excluded by PLIP GOL.4: 6 residues within 4Å: Chain A: R.119, E.158, M.257, Y.286, W.330 Ligands: GOL.3 Ligand excluded by PLIP GOL.5: 6 residues within 4Å: Chain A: G.516, W.517, P.529, I.530 Ligands: GOL.12, GOL.13 Ligand excluded by PLIP GOL.6: 6 residues within 4Å: Chain A: E.451, R.452, F.621, V.622, K.623, H.624 Ligand excluded by PLIP GOL.7: 5 residues within 4Å: Chain A: R.437, Q.440, T.441, Q.444, R.597 Ligand excluded by PLIP GOL.8: 6 residues within 4Å: Chain A: P.410, A.411, E.412, P.455, R.617, P.618 Ligand excluded by PLIP GOL.9: 1 residues within 4Å: Chain A: K.41 Ligand excluded by PLIP GOL.11: 8 residues within 4Å: Chain B: R.119, N.157, E.158, N.255, D.284, E.322, F.360, E.370 Ligand excluded by PLIP GOL.12: 5 residues within 4Å: Chain A: I.505 Chain B: K.364, F.372 Ligands: GOL.5, GOL.13 Ligand excluded by PLIP GOL.13: 9 residues within 4Å: Chain A: E.531, T.532 Chain B: S.326, L.327, K.364, D.378, V.387 Ligands: GOL.5, GOL.12 Ligand excluded by PLIP GOL.14: 9 residues within 4Å: Chain B: E.531, T.532 Chain C: S.326, L.327, K.364, D.378, V.387 Ligands: GOL.16, GOL.17 Ligand excluded by PLIP GOL.15: 6 residues within 4Å: Chain B: R.437, Q.440, T.441, Q.444, D.554, R.597 Ligand excluded by PLIP GOL.16: 5 residues within 4Å: Chain B: I.505 Chain C: K.364, F.372 Ligands: GOL.14, GOL.17 Ligand excluded by PLIP GOL.17: 6 residues within 4Å: Chain B: G.516, W.517, P.529, I.530 Ligands: GOL.14, GOL.16 Ligand excluded by PLIP GOL.18: 6 residues within 4Å: Chain B: E.451, R.452, F.621, V.622, K.623, H.624 Ligand excluded by PLIP GOL.19: 5 residues within 4Å: Chain B: L.42, H.44, Q.389, A.392, K.396 Ligand excluded by PLIP GOL.20: 5 residues within 4Å: Chain B: Y.536, P.537, R.538 Chain C: D.292, W.293 Ligand excluded by PLIP GOL.21: 7 residues within 4Å: Chain A: P.211, I.212, G.213 Chain B: Q.114, L.115, G.117, N.121 Ligand excluded by PLIP GOL.22: 7 residues within 4Å: Chain B: H.463, D.464, F.465, S.466, R.486, E.489, F.490 Ligand excluded by PLIP GOL.24: 9 residues within 4Å: Chain C: D.20, R.119, N.157, E.158, N.255, D.284, E.322, F.360, E.370 Ligand excluded by PLIP GOL.25: 5 residues within 4Å: Chain A: F.372 Chain C: F.431, I.505, T.532 Ligands: GOL.2 Ligand excluded by PLIP GOL.26: 6 residues within 4Å: Chain C: H.463, D.464, F.465, S.466, R.486, E.489 Ligand excluded by PLIP GOL.27: 4 residues within 4Å: Chain C: D.71, R.143, Y.144, H.147 Ligand excluded by PLIP GOL.28: 6 residues within 4Å: Chain B: I.530, E.531 Chain C: D.378, S.385, R.386, V.387 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Solomon, H.V. et al., Crystallization and preliminary crystallographic analysis of GanB, a GH42 intracellular beta-galactosidase from Geobacillus stearothermophilus. Acta Crystallogr.,Sect.F (2013)

Release Date

2015-02-04

Peptides

Beta-galactosidase: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Beta-galactosidase