SMTL ID : 6tql.1

Cryo-EM of elastase-treated human uromodulin (UMOD)/Tamm-Horsfall protein (THP) filament

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-trimer

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: 6 residues within 4Å: Chain A: Q.25, C.26, K.27, Q.28, N.31, S.60 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 6 residues within 4Å: Chain C: Q.25, C.26, K.27, Q.28, N.31, S.60 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG- BMA- MAN- NAG- GAL- NAG- MAN- NAG- NAG: beta-D-galactopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-[2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)]alpha-D-mannopyranose-(1-6)-[2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-[2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)]alpha-D-mannopyranose-(1-3)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-NAG-GAL-NAG-MAN-NAG-NAG.2: 10 residues within 4Å: Chain A: N.105, E.106, T.107, H.108, T.110, S.135 Chain B: R.158, G.160, G.161, T.162 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.158

1 x NAG- NAG- BMA- MAN- NAG- NAG- MAN- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-2)-[2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)]alpha-D-mannopyranose-(1-3)-[2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-alpha-D-mannopyranose-(1-6)]beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-NAG-NAG-MAN-NAG.4: 11 residues within 4Å: Chain A: R.158, G.160, G.161, T.162 Chain C: N.105, E.106, T.107, H.108, T.110, S.135, P.137 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:T.162 Hydrogen bonds: A:T.162, A:T.162, A:T.162, A:T.162

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

NAG.5: 3 residues within 4Å: Chain A: N.222, T.224, D.225 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.224 NAG.6: 2 residues within 4Å: Chain B: N.222, T.224 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Stsiapanava, A. et al., Cryo-EM structure of native human uromodulin, a zona pellucida module polymer. Embo J. (2020)

Release Date

2020-11-04

Peptides

Uromodulin: ABC

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

Uromodulin