SMTL ID : 5img.2 (1 other biounit)

C9A mutant of C69-family cysteine dipeptidase from Lactobacillus farciminis

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.84 Å

Oligo State

homo-pentamer

Ligands

7 x CO: COBALT (II) ION(Non-functional Binders)(Non-covalent)

CO.1: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) CO.2: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) CO.3: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) CO.5: 2 residues within 4Å: Chain B: D.184, H.274 4 PLIP interactions: 2 interactions with chain B, 2 Ligand-Water interactions Metal complexes: B:D.184, B:H.274, H2O.28, H2O.39 CO.8: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) CO.9: 2 residues within 4Å: Chain C: D.199, D.201 2 PLIP interactions: 1 interactions with chain C, 1 Ligand-Water interactions Metal complexes: C:D.199, H2O.50 CO.10: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 9 residues within 4Å: Chain B: I.5, K.6, G.7, G.32, H.33, D.37, N.76, W.84, H.320 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:K.6, B:H.33, B:D.37, B:N.76 Water bridges: B:E.34, B:Q.39 GOL.6: 9 residues within 4Å: Chain C: I.5, K.6, G.7, G.32, H.33, D.37, N.76, W.84, H.320 9 PLIP interactions: 9 interactions with chain C Hydrogen bonds: C:K.6, C:H.33, C:D.37, C:D.37, C:N.76, C:N.76, C:H.320 Water bridges: C:E.34, C:Q.39 GOL.7: 4 residues within 4Å: Chain C: R.70, N.357, I.427, E.428 3 PLIP interactions: 3 interactions with chain C Hydrogen bonds: C:N.357, C:N.357, C:E.428

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Kono, R. et al., A C69-family cysteine dipeptidase from Lactobacillus farciminis; substrate recognition mechanism and autoproteolytic mechanism in enzyme maturation. To Be Published

Release Date

2017-03-15

Peptides

Dipeptidase: ABCDE

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
F

B
G

C
H

D
I

E
J

Dipeptidase

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