SMTL ID : 3zbl.1

Crystal structure of SCP2 thiolase from Leishmania mexicana: The C123S mutant.

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 1.90 Å

Oligo State

homo-dimer

Ligands

2 x CL: CHLORIDE ION(Non-functional Binders)

CL.1: 4 residues within 4Å: Chain A: A.138, S.139, A.184, G.444 Ligand excluded by PLIP CL.17: 4 residues within 4Å: Chain B: A.138, S.139, A.184, G.444 Ligand excluded by PLIP

15 x DMS: DIMETHYL SULFOXIDE(Non-functional Binders)

DMS.2: 5 residues within 4Å: Chain A: L.101, F.102, S.104, T.171, Y.180 No protein-ligand interaction detected (PLIP) DMS.3: 1 residues within 4Å: Chain A: N.300 No protein-ligand interaction detected (PLIP) DMS.4: 3 residues within 4Å: Chain A: F.259, M.271, C.274 No protein-ligand interaction detected (PLIP) DMS.5: 3 residues within 4Å: Chain A: G.58, K.59, K.61 No protein-ligand interaction detected (PLIP) DMS.6: 7 residues within 4Å: Chain A: Q.91, P.131, A.132, M.133 Chain B: L.144, I.147, C.312 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:Q.91 DMS.7: 4 residues within 4Å: Chain A: R.191, Q.192, D.194, D.195 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:D.195 DMS.8: 2 residues within 4Å: Chain A: R.222, R.381 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.222 Water bridges: A:G.383 DMS.9: 5 residues within 4Å: Chain A: N.382, G.383, D.384, T.386, E.388 No protein-ligand interaction detected (PLIP) DMS.10: 4 residues within 4Å: Chain A: H.37, I.38, H.79, L.236 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:I.38 Water bridges: A:R.419 DMS.12: 3 residues within 4Å: Chain B: N.250, K.258, R.270 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.258, B:R.270 DMS.14: 6 residues within 4Å: Chain A: I.147, N.151 Chain B: Q.91, P.131, A.132, M.133 No protein-ligand interaction detected (PLIP) DMS.16: 3 residues within 4Å: Chain A: Y.129 Chain B: P.321, F.328 1 PLIP interactions: 1 interactions with chain B pi-Cation interactions: B:F.328 DMS.18: 7 residues within 4Å: Chain A: S.155, S.157 Chain B: I.147, M.150, N.151, K.154, I.310 No protein-ligand interaction detected (PLIP) DMS.19: 4 residues within 4Å: Chain B: F.196, F.259, C.274, V.277 No protein-ligand interaction detected (PLIP) DMS.20: 3 residues within 4Å: Chain B: N.232, H.240, K.243 1 PLIP interactions: 1 interactions with chain B pi-Cation interactions: B:H.240

4 x MPD: (4S)-2-METHYL-2,4-PENTANEDIOL(Non-functional Binders)

MPD.11: 5 residues within 4Å: Chain A: T.39, P.40, L.48, M.63, D.279 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:T.39 Hydrogen bonds: A:T.39, A:D.279 MPD.13: 3 residues within 4Å: Chain B: R.191, Q.192, D.194 No protein-ligand interaction detected (PLIP) MPD.15: 4 residues within 4Å: Chain B: I.433, P.434, N.456, I.457 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:P.434, B:N.456, B:I.457 MPD.21: 5 residues within 4Å: Chain B: T.39, P.40, V.42, L.48, D.279 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:P.40, B:V.42, B:V.42, B:L.48 Hydrogen bonds: B:T.39

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Harijan, R.K. et al., Crystal Structures of Scp2-Thiolases of Trypanosomatidae, Human Pathogens Causing Widespread Tropical Diseases: The Importance for Catalysis of the Cysteine of the Unique Hdcf Loop. Biochem.J. (2013)

Release Date

2013-08-14

Peptides

3-KETOACYL-COA THIOLASE-LIKE PROTEIN: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

3-KETOACYL-COA THIOLASE-LIKE PROTEIN