SMTL ID : 3acz.1

Crystal structure of Entamoeba histolytica methionine gamma-lyase 1

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.97 Å

Oligo State

homo-tetramer

Ligands

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

SO4.1: 7 residues within 4Å: Chain A: Y.108, N.155, K.205, V.331, S.332, T.347, R.367 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:N.155, A:S.332 Water bridges: A:N.155, A:R.367 Salt bridges: A:R.367 SO4.2: 1 residues within 4Å: Chain A: R.176 3 PLIP interactions: 3 interactions with chain A Water bridges: A:R.176, A:R.176 Salt bridges: A:R.176 SO4.3: 6 residues within 4Å: Chain A: H.210, V.336, D.337 Chain C: H.22, A.23, K.253 4 PLIP interactions: 3 interactions with chain C, 1 interactions with chain A Water bridges: C:H.22 Salt bridges: C:H.22, C:K.253 Hydrogen bonds: A:H.210 SO4.5: 8 residues within 4Å: Chain B: Y.108, N.155, K.205, V.331, S.332, L.333, T.347, R.367 5 PLIP interactions: 4 interactions with chain B, 1 interactions with chain C Hydrogen bonds: B:Y.108, B:N.155, B:S.332 Salt bridges: B:R.367 Water bridges: C:Y.53 SO4.6: 7 residues within 4Å: Chain B: H.210, C.335, V.336, D.337 Chain D: H.22, A.23, K.253 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain D Hydrogen bonds: B:H.210 Salt bridges: D:H.22, D:K.253 SO4.7: 1 residues within 4Å: Chain B: R.176 3 PLIP interactions: 3 interactions with chain B Water bridges: B:F.94, B:R.176 Salt bridges: B:R.176 SO4.8: 6 residues within 4Å: Chain A: H.22, A.23 Chain C: H.210, C.335, V.336, D.337 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:H.22, A:K.253 SO4.9: 8 residues within 4Å: Chain C: Y.108, N.155, K.205, V.331, S.332, L.333, T.347, R.367 7 PLIP interactions: 6 interactions with chain C, 1 interactions with chain B Hydrogen bonds: C:N.155, C:S.332 Water bridges: C:N.155, C:T.347, C:H.348, B:Y.53 Salt bridges: C:R.367 SO4.10: 1 residues within 4Å: Chain C: R.176 3 PLIP interactions: 3 interactions with chain C Water bridges: C:R.176, C:R.176 Salt bridges: C:R.176 SO4.12: 6 residues within 4Å: Chain B: H.22, A.23, K.253 Chain D: H.210, V.336, D.337 7 PLIP interactions: 6 interactions with chain B, 1 interactions with chain D Water bridges: B:L.11, B:H.22, B:K.253, B:K.253 Salt bridges: B:H.22, B:K.253 Hydrogen bonds: D:H.210 SO4.13: 8 residues within 4Å: Chain D: Y.108, N.155, K.205, V.331, S.332, L.333, T.347, R.367 5 PLIP interactions: 4 interactions with chain D, 1 interactions with chain A Hydrogen bonds: D:Y.108, D:N.155, D:S.332 Salt bridges: D:R.367 Water bridges: A:Y.53 SO4.14: 1 residues within 4Å: Chain D: R.176 3 PLIP interactions: 3 interactions with chain D Water bridges: D:R.176, D:R.176 Salt bridges: D:R.176

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 1 residues within 4Å: Chain A: K.312 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.312 GOL.11: 1 residues within 4Å: Chain C: K.312 2 PLIP interactions: 2 interactions with chain C Water bridges: C:K.312, C:S.313

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Karaki, T. et al., Crystal structure of Entamoeba histolytica methionine gamma-lyase 1. To be Published

Release Date

2011-02-09

Peptides

Methionine gamma-lyase: ABCD

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

Methionine gamma-lyase

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