SMTL ID : 6ty7.1

Crystal structure of haloalkane dehalogenase variant DhaA115 domain-swapped dimer type-1

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.50 Å

Oligo State

homo-dimer

Ligands

5 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.1: 4 residues within 4Å: Chain A: W.240, P.249, A.252, A.253 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:P.249 EDO.2: 1 residues within 4Å: Chain A: F.266 1 PLIP interactions: 1 interactions with chain A Water bridges: A:F.266 EDO.7: 3 residues within 4Å: Chain B: W.240, P.249, A.253 No protein-ligand interaction detected (PLIP) EDO.8: 3 residues within 4Å: Chain B: F.266, I.267, G.268 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:F.266 EDO.9: 3 residues within 4Å: Chain B: P.9, F.10, D.11 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:D.11

1 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.3: 14 residues within 4Å: Chain A: N.41, D.106, W.107 Chain B: F.149, F.168, I.172, F.176, F.205, P.206, L.209, V.245, L.246, H.272, Y.273 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.41, A:W.107

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 6 residues within 4Å: Chain A: P.235, W.289, L.290, P.291 Chain B: V.101, K.124 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:W.289 Water bridges: A:W.289

1 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.5: 10 residues within 4Å: Chain A: F.144, L.148, K.175, F.176, L.271 Chain B: F.144, L.148, K.175, F.176, L.271 No protein-ligand interaction detected (PLIP)

1 x NO3: NITRATE ION(Non-functional Binders)

NO3.6: 7 residues within 4Å: Chain A: F.168, F.205, P.206, L.209 Chain B: N.41, D.106, W.107 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.41, B:D.106, B:W.107

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Markova, K. et al., Computational Enzyme Stabilization Can Affect Folding Energy Landscapes and Lead to Catalytically Enhanced Domain-Swapped Dimers. Acs Catalysis (2021)

Release Date

2021-01-27

Peptides

Haloalkane dehalogenase variant DhaA115 domain-swapped dimer type-1: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Haloalkane dehalogenase variant DhaA115 domain-swapped dimer type-1

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