SMTL ID : 3qfz.1

Crystal Structure of Cellvibrio gilvus Cellobiose Phosphorylase Complexed with Sulfate and 1-Deoxynojirimycin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.39 Å

Oligo State

homo-dimer

Ligands

2 x BGC: beta-D-glucopyranose(Non-covalent)

BGC.1: 11 residues within 4Å: Chain A: D.510, C.511, Q.526, E.669, Y.673, K.678, E.679, F.684 Chain B: Q.185, R.186 Ligands: NOJ.3 6 PLIP interactions: 5 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:E.669, A:K.678, A:K.678, A:E.679, B:Q.185 Salt bridges: A:K.678 BGC.7: 12 residues within 4Å: Chain A: Q.185, R.186 Chain B: I.436, D.510, C.511, Q.526, E.669, Y.673, K.678, E.679, F.684 Ligands: NOJ.9 6 PLIP interactions: 5 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:E.669, B:K.678, B:E.679, B:E.679, A:Q.185 Salt bridges: B:K.678

5 x SO4: SULFATE ION(Non-functional Binders)

SO4.2: 7 residues within 4Å: Chain A: R.371, F.684, H.686, Q.732, T.751, G.752 Ligands: NOJ.3 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:Q.732, A:G.752 Water bridges: A:R.371, A:R.371, A:T.751, A:T.751 Salt bridges: A:R.371, A:H.686 SO4.5: 2 residues within 4Å: Chain A: D.111, R.130 3 PLIP interactions: 3 interactions with chain A Water bridges: A:D.111, A:R.130 Salt bridges: A:R.130 SO4.6: 2 residues within 4Å: Chain A: R.812, R.825 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.825 SO4.8: 7 residues within 4Å: Chain B: R.371, F.684, H.686, Q.732, T.751, G.752 Ligands: NOJ.9 10 PLIP interactions: 10 interactions with chain B Hydrogen bonds: B:Q.732, B:G.752 Water bridges: B:R.371, B:D.388, B:D.388, B:H.686, B:T.751, B:T.751 Salt bridges: B:R.371, B:H.686 SO4.10: 2 residues within 4Å: Chain B: D.111, R.130 3 PLIP interactions: 3 interactions with chain B Water bridges: B:D.111, B:R.130 Salt bridges: B:R.130

2 x NOJ: 1-DEOXYNOJIRIMYCIN(Non-covalent)

NOJ.3: 12 residues within 4Å: Chain A: R.371, R.382, R.387, D.388, W.508, N.509, D.510, E.679, F.684, Q.732 Ligands: BGC.1, SO4.2 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:R.382, A:R.382, A:R.387, A:R.387, A:D.388, A:D.510, A:E.679, A:E.679 NOJ.9: 12 residues within 4Å: Chain B: R.371, R.382, R.387, D.388, W.508, N.509, D.510, E.679, F.684, Q.732 Ligands: BGC.7, SO4.8 9 PLIP interactions: 9 interactions with chain B Hydrogen bonds: B:R.382, B:R.382, B:R.387, B:R.387, B:D.388, B:N.509, B:D.510, B:E.679, B:E.679

1 x EPE: 4-(2-HYDROXYETHYL)-1-PIPERAZINE ETHANESULFONIC ACID(Non-functional Binders)

EPE.4: 5 residues within 4Å: Chain A: F.416, A.417, D.418, S.438, G.439 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:D.418, A:D.418 Water bridges: A:S.420 Salt bridges: A:D.418

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Fushinobu, S. et al., Interactions between glycoside hydrolase family 94 cellobiose phosphorylase and glucosidase inhibitors. J.Appl.Glyosci. (2011)

Release Date

2011-09-21

Peptides

Cellobiose Phosphorylase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Cellobiose Phosphorylase

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