SMTL ID : 4awb.1

Crystal structure of active legumain in complex with AAN-CMK

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

homo-dimer

Ligands

2 x PHQ- ALA- ALA- ZSN- 0QE: Z-ALA-ALA-AZAASN-CHLOROMETHYLKETONE(Non-covalent)

PHQ-ALA-ALA-ZSN-0QE.1: 17 residues within 4Å: Chain A: R.19, H.20, D.122, H.123, G.124, E.162, C.164, S.191, Y.192, A.193, Y.203, D.206, W.207 Chain B: S.125, T.126, E.165, R.188 13 PLIP interactions: 8 interactions with chain A, 5 interactions with chain B Hydrophobic interactions: A:Y.203, B:E.165 Hydrogen bonds: A:R.19, A:G.124, A:C.164, A:S.191, A:S.191, A:A.193, A:Y.203, B:S.125, B:T.126, B:T.126, B:R.188 PHQ-ALA-ALA-ZSN-0QE.2: 18 residues within 4Å: Chain A: S.125, T.126, E.165, R.188 Chain B: R.19, H.20, D.122, H.123, G.124, E.162, C.164, S.191, Y.192, A.193, Y.203, D.206, W.207, T.239 13 PLIP interactions: 11 interactions with chain B, 2 interactions with chain A Hydrophobic interactions: B:Y.192, B:Y.203, B:W.207, B:T.239 Hydrogen bonds: B:R.19, B:G.124, B:C.164, B:S.191, B:S.191, B:A.193, B:Y.203, A:S.125, A:T.126

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

NAG.3: 6 residues within 4Å: Chain A: N.142, H.146, H.172, L.173, P.174, I.177 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:H.146, A:I.177 Hydrogen bonds: A:H.172 Water bridges: A:N.142, A:H.146 NAG.4: 4 residues within 4Å: Chain A: K.156, D.175, N.176, N.247 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:N.176 Hydrogen bonds: A:N.247 NAG.5: 2 residues within 4Å: Chain A: N.66, K.199 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.66 NAG.9: 6 residues within 4Å: Chain B: N.142, H.146, H.172, L.173, P.174, I.177 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:I.177 NAG.10: 6 residues within 4Å: Chain B: K.156, D.175, N.247, T.249, I.250, M.253 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.247 NAG.11: 2 residues within 4Å: Chain B: N.66, K.199 No protein-ligand interaction detected (PLIP)

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

SO4.6: 1 residues within 4Å: Chain A: R.33 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:R.33 SO4.12: 1 residues within 4Å: Chain B: R.33 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:R.33

4 x HG: MERCURY (II) ION(Non-covalent)

HG.7: 4 residues within 4Å: Chain A: C.194, Y.195, W.207, V.210 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:C.194 HG.8: 4 residues within 4Å: Chain A: I.128, H.137 Chain B: N.13, P.132 1 PLIP interactions: 1 interactions with chain A Metal complexes: A:H.137 HG.13: 4 residues within 4Å: Chain B: C.194, Y.195, W.207, V.210 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:C.194 HG.14: 4 residues within 4Å: Chain A: F.131, P.132 Chain B: I.128, H.137 1 PLIP interactions: 1 interactions with chain B Metal complexes: B:H.137

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dall, E. et al., Mechanistic and Structural Studies on Legumain Explain its Zymogenicity, Distinct Activation Pathways, and Regulation. Proc.Natl.Acad.Sci.USA (2013)

Release Date

2013-06-26

Peptides

LEGUMAIN: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

LEGUMAIN

Related Entries With Identical Sequence