SMTL ID : 5lu8.1

CRYSTAL STRUCTURE OF YVAD-CMK BOUND HUMAN LEGUMAIN (AEP) IN COMPLEX WITH COMPOUND 11B

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.95 Å

Oligo State

monomer

Ligands

1 x ACE- TYR- VAL- ALA- ASP- 0QE: AC-TYR-VAL-ALA-ASP-CHLOROMETHYLKETONE(Non-covalent)

ACE-TYR-VAL-ALA-ASP-0QE.1: 14 residues within 4Å: Chain A: R.19, H.20, N.122, H.123, G.124, E.162, A.163, C.164, S.191, Y.192, A.193, Y.203, D.206, W.207 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:Y.192, A:A.193, A:Y.203, A:W.207 Hydrogen bonds: A:R.19, A:H.123, A:G.124, A:E.162, A:C.164, A:S.191, A:S.191, A:A.193, A:Y.203, A:D.206 Salt bridges: A:R.19, A:H.20 pi-Stacking: A:W.207

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

SO4.2: 4 residues within 4Å: Chain A: T.57, N.66, K.199, R.200 4 PLIP interactions: 4 interactions with chain A Water bridges: A:N.66, A:N.66 Salt bridges: A:K.199, A:R.200 SO4.3: 3 residues within 4Å: Chain A: T.225, H.227, K.228 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.225 Salt bridges: A:H.227

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

NAG.4: 6 residues within 4Å: Chain A: N.142, I.145, H.172, L.173, P.174, I.177 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:I.145, A:I.177 NAG.5: 6 residues within 4Å: Chain A: K.156, D.175, N.176, N.247, T.249, I.250 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:N.176 Hydrogen bonds: A:N.247, A:T.249

1 x EMC: ETHYL MERCURY ION(Non-covalent)

EMC.6: 5 residues within 4Å: Chain A: C.194, Y.195, W.207, V.210, N.211 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:V.210 Metal complexes: A:C.194

1 x 5KN: 2,4-di(morpholin-4-yl)aniline(Non-covalent)

5KN.7: 7 residues within 4Å: Chain A: H.227, H.231, K.234, Q.244, K.248, T.249, S.251 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.234 pi-Stacking: A:H.227

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhang, Z. et al., Inhibition of delta-secretase improves cognitive functions in mouse models of Alzheimer's disease. Nat Commun (2017)

Release Date

2017-03-29

Peptides

Legumain: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Legumain

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