SMTL ID : 8ae5.2 (1 other biounit)

Crystal structure of human legumain in complex with macrocypin 1a

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.29 Å

Oligo State

hetero-1-1-mer

Ligands

1 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: K.156, D.175, N.247, T.249, I.250 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.155

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

NAG.2: 6 residues within 4Å: Chain A: K.139, N.142, I.145, H.172, L.173, P.174 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:I.145 Hydrogen bonds: A:K.139, A:K.139 NAG.3: 2 residues within 4Å: Chain A: N.66 Ligands: SO4.4 No protein-ligand interaction detected (PLIP)

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

SO4.4: 4 residues within 4Å: Chain A: N.66, K.199, R.200 Ligands: NAG.3 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.66 Water bridges: A:N.66, A:R.200 Salt bridges: A:K.199, A:R.200 SO4.5: 3 residues within 4Å: Chain B: G.34, K.35, R.71 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.35 Salt bridges: B:R.71 SO4.6: 6 residues within 4Å: Chain B: A.113, D.114, H.115, H.122, I.159, R.161 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:D.114 Salt bridges: B:H.115, B:H.122

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Elamin, T. et al., Structural and functional studies of legumain-mycocypin complexes revealed a competitive, exosite-regulated mode of interaction. J.Biol.Chem. (2022)

Release Date

2022-09-28

Peptides

Legumain: A
Macrocypin-1a: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

B
D

Legumain

Macrocypin-1a

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