SMTL ID : 3iv2.2 (1 other biounit)

Crystal structure of mature apo-Cathepsin L C25A mutant

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-dimer

Ligands

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

NAG.1: 4 residues within 4Å: Chain A: S.105, V.106, A.107, N.108 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.108

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.2: 3 residues within 4Å: Chain A: Q.19, G.20, W.189 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.19 Water bridges: A:G.20 GOL.3: 4 residues within 4Å: Chain A: H.140, E.141, S.142, P.154 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:E.141, A:S.142, A:S.142, A:S.142 GOL.7: 6 residues within 4Å: Chain B: Q.19, G.20, Q.21, C.22, W.189 Ligands: SO4.11 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:Q.19, B:Q.21 GOL.8: 4 residues within 4Å: Chain B: N.18, G.190, E.191, E.192 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:N.18, B:E.191, B:E.191, B:E.192, B:E.192 GOL.9: 3 residues within 4Å: Chain B: H.140, E.141, S.142 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.141

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

SO4.4: 6 residues within 4Å: Chain A: Q.19, G.23, S.24, A.25, D.162, H.163 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.19, A:A.25 Salt bridges: A:H.163 SO4.5: 4 residues within 4Å: Chain A: N.18, G.190, E.191, E.192 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.18, A:E.191, A:E.192, A:E.192 SO4.10: 1 residues within 4Å: Chain B: K.124 1 PLIP interactions: 1 interactions with chain B Salt bridges: B:K.124 SO4.11: 7 residues within 4Å: Chain B: Q.19, G.23, S.24, A.25, D.162, H.163 Ligands: GOL.7 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:Q.19, B:G.23, B:A.25 Salt bridges: B:H.163

1 x NA: SODIUM ION(Non-functional Binders)

NA.6: 4 residues within 4Å: Chain B: D.55, C.56, S.57, G.58 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:D.55, B:G.58

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Adams-Cioaba, M.A. et al., Structural basis for the recognition and cleavage of histone H3 by cathepsin L. Nat Commun (2011)

Release Date

2010-03-23

Peptides

Cathepsin L1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Cathepsin L1

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