SMTL ID : 3lmy.2 (1 other biounit)

The Crystal Structure of beta-hexosaminidase B in complex with Pyrimethamine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.80 Å

Oligo State

homo-dimer

Ligands

2 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 5 residues within 4Å: Chain A: M.65, T.66, P.67, L.69, N.190 No protein-ligand interaction detected (PLIP) NAG-NAG.7: 5 residues within 4Å: Chain B: M.65, T.66, P.67, L.69, N.190 No protein-ligand interaction detected (PLIP)

4 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.2: 2 residues within 4Å: Chain A: E.136, N.142 No protein-ligand interaction detected (PLIP) NAG.3: 1 residues within 4Å: Chain A: N.327 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.327 NAG.8: 2 residues within 4Å: Chain B: E.136, N.142 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.136 NAG.9: 1 residues within 4Å: Chain B: N.327 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.327

2 x NDG: 2-acetamido-2-deoxy-alpha-D-glucopyranose(Post Translational Modification)

NDG.4: 5 residues within 4Å: Chain A: N.84, S.130, T.132, V.159, K.161 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:T.132 Hydrogen bonds: A:N.84, A:S.130, A:K.161 NDG.10: 5 residues within 4Å: Chain B: N.84, S.130, T.132, V.159, K.161 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:T.132 Hydrogen bonds: B:N.84, B:S.130, B:K.161

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

SO4.5: 2 residues within 4Å: Chain A: R.372, Q.373 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.373 Salt bridges: A:R.372 SO4.11: 2 residues within 4Å: Chain B: R.372, Q.373 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.373 Salt bridges: B:R.372

2 x CP6: 5-(4-CHLORO-PHENYL)-6-ETHYL-PYRIMIDINE-2,4-DIAMINE(Non-covalent)

CP6.6: 13 residues within 4Å: Chain A: R.211, H.237, D.240, D.290, H.294, D.354, E.355, W.405, W.424, Y.450, L.453, W.489, E.491 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:D.354, A:W.405, A:W.424, A:W.424, A:Y.450 Hydrogen bonds: A:R.211, A:R.211, A:H.237, A:D.290, A:E.491 Salt bridges: A:D.240, A:D.354, A:E.355 pi-Stacking: A:W.489, A:W.489 pi-Cation interactions: A:H.294 CP6.12: 13 residues within 4Å: Chain B: R.211, H.237, D.240, D.290, H.294, D.354, E.355, W.405, W.424, Y.450, L.453, W.489, E.491 15 PLIP interactions: 15 interactions with chain B Hydrophobic interactions: B:D.354, B:W.405, B:W.424, B:W.424, B:Y.450 Hydrogen bonds: B:R.211, B:R.211, B:H.237, B:E.491 Salt bridges: B:D.240, B:D.354, B:E.355 pi-Stacking: B:W.489, B:W.489 pi-Cation interactions: B:H.294

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bateman, K.S. et al., The Crystal Structure of beta-hexosaminidase B in complex with Pyrimethamine. To be Published

Release Date

2011-02-16

Peptides

Beta-hexosaminidase subunit beta: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
B

Beta-hexosaminidase subunit beta

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