SMTL ID : 2wnx.1

3b' carbohydrate-binding module from the Cel9V glycoside hydrolase from Clostridium thermocellum

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.31 Å

Oligo State

homo-dimer

Ligands

2 x CA: CALCIUM ION(Non-covalent)

CA.1: 5 residues within 4Å: Chain A: T.55, D.57, D.125, D.128, D.129 5 PLIP interactions: 5 interactions with chain A Metal complexes: A:T.55, A:D.57, A:D.57, A:D.128, A:D.129 CA.6: 5 residues within 4Å: Chain B: T.55, D.57, D.125, D.128, D.129 5 PLIP interactions: 5 interactions with chain B Metal complexes: B:T.55, B:D.57, B:D.57, B:D.128, B:D.129

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

SO4.2: 8 residues within 4Å: Chain A: K.22, D.23, G.24, T.25, K.26, N.27, T.28, R.30 13 PLIP interactions: 13 interactions with chain A Hydrogen bonds: A:D.23, A:D.23, A:D.23, A:G.24, A:T.25, A:K.26, A:N.27, A:T.28, A:T.28, A:T.28 Water bridges: A:T.25, A:T.25 Salt bridges: A:R.30 SO4.3: 3 residues within 4Å: Chain A: K.36 Chain B: K.36 Ligands: SO4.8 5 PLIP interactions: 3 interactions with chain A, 2 interactions with chain B Water bridges: A:K.36, A:S.110, B:K.36 Salt bridges: A:K.36, B:K.36 SO4.4: 3 residues within 4Å: Chain A: K.77, T.99, E.100 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.100 Water bridges: A:K.77, A:D.101 Salt bridges: A:K.77 SO4.7: 8 residues within 4Å: Chain B: K.22, D.23, G.24, T.25, K.26, N.27, T.28, R.30 11 PLIP interactions: 11 interactions with chain B Hydrogen bonds: B:D.23, B:D.23, B:G.24, B:T.25, B:T.25, B:K.26, B:N.27, B:T.28, B:T.28, B:T.28 Salt bridges: B:R.30 SO4.8: 3 residues within 4Å: Chain A: K.36 Chain B: K.36 Ligands: SO4.3 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A Water bridges: B:K.36, B:S.110, A:K.36 Salt bridges: B:K.36, A:K.36 SO4.9: 3 residues within 4Å: Chain B: K.77, T.99, E.100 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:E.100 Water bridges: B:K.77, B:D.101 Salt bridges: B:K.77

2 x FMT: FORMIC ACID(Non-functional Binders)

FMT.5: 5 residues within 4Å: Chain A: Q.61, N.62, N.63, I.79, V.80 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.62, A:V.80 Water bridges: A:F.64 FMT.10: 5 residues within 4Å: Chain B: Q.61, N.62, N.63, I.79, V.80 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Q.61, B:N.62, B:V.80 Water bridges: B:F.64

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Petkun, S. et al., Structure of a Family 3B' Carbohydrate-Binding Module from the Cel9V Glycoside Hydrolase from Clostridium Thermocellum: Structural Diversity and Implications for Carbohydrate Binding. Acta Crystallogr.,Sect.D (2010)

Release Date

2009-12-29

Peptides

GLYCOSIDE HYDROLASE, FAMILY 9: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

GLYCOSIDE HYDROLASE, FAMILY 9

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