SMTL ID : 5ygp.2 (3 other biounits)

Human TNFRSF25 death domain mutant-D412E

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.09 Å

Oligo State

monomer

Ligands

1 x GLC- GLC: alpha-D-glucopyranose-(1-4)-alpha-D-glucopyranose(Non-covalent)

GLC-GLC.1: 15 residues within 4Å: Chain A: D.15, K.16, W.63, A.64, D.66, R.67, E.112, E.154, P.155, Y.156, F.157, W.231, M.331, W.341, R.345 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.16, A:K.16, A:E.112, A:E.112

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

SO4.2: 7 residues within 4Å: Chain A: P.383, A.384, R.385, R.386, W.387, R.412, Y.416 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.385, A:R.385, A:R.386, A:W.387 Salt bridges: A:R.412 SO4.3: 2 residues within 4Å: Chain A: A.173, A.174 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:A.174 SO4.4: 3 residues within 4Å: Chain A: P.41, D.42, K.47 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.42 Salt bridges: A:K.47

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Yin, X. et al., Crystal structure and activation mechanism of DR3 death domain. Febs J. (2019)

Release Date

2018-10-03

Peptides

TNFRSF25 death domain: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

TNFRSF25 death domain

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