SMTL ID : 3dwr.1

Leishmania major coproporphyrinogen III oxidase with bound ligand

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.66 Å

Oligo State

homo-dimer

Ligands

5 x ACT: ACETATE ION(Non-functional Binders)

ACT.1: 8 residues within 4Å: Chain A: V.103, H.115, F.180, R.189, Y.249, N.253, S.276 Ligands: 0PA.6 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:V.103 Hydrogen bonds: A:N.253 Water bridges: A:H.115, A:D.257 Salt bridges: A:H.115, A:R.189 ACT.2: 2 residues within 4Å: Chain A: P.233, Y.234 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:Y.234 Hydrogen bonds: A:Y.234 ACT.3: 4 residues within 4Å: Chain A: W.45, G.52, G.53, F.71 No protein-ligand interaction detected (PLIP) ACT.4: 3 residues within 4Å: Chain A: T.39, F.40, V.41 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:V.41 ACT.8: 8 residues within 4Å: Chain B: V.103, H.115, F.180, R.189, Y.249, N.253, S.276 Ligands: 0PA.10 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:Y.249, B:N.253 Water bridges: B:H.115, B:D.257 Salt bridges: B:H.115, B:R.189

6 x 0PA: cyclopentylacetic acid(Non-covalent)

0PA.5: 9 residues within 4Å: Chain A: W.45, R.47, N.70, S.72, V.74, G.268, R.269, I.273 Ligands: 0PA.6 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:I.273 Hydrogen bonds: A:R.269 Water bridges: A:G.52 Salt bridges: A:R.47 0PA.6: 12 residues within 4Å: Chain A: S.101, L.102, V.103, G.259, T.260, S.272, I.273, I.275, S.276 Ligands: ACT.1, 0PA.5, 0PA.7 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:I.275 Hydrogen bonds: A:S.101 Water bridges: A:S.276 0PA.7: 11 residues within 4Å: Chain A: S.72, V.74, A.97, M.98, G.99, V.100, S.101, N.117, V.118, R.119 Ligands: 0PA.6 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:V.74, A:A.97 Hydrogen bonds: A:N.117, A:V.118 Water bridges: A:S.72, A:S.101, A:S.101 0PA.9: 8 residues within 4Å: Chain B: S.72, V.74, G.263, S.266, G.268, I.273 Ligands: 0PA.10, 0PA.11 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:V.74, B:I.273 Hydrogen bonds: B:G.263 0PA.10: 12 residues within 4Å: Chain B: N.70, S.101, V.103, G.259, T.260, S.272, I.273, I.275, S.276 Ligands: ACT.8, 0PA.9, 0PA.11 1 PLIP interactions: 1 interactions with chain B Water bridges: B:S.276 0PA.11: 12 residues within 4Å: Chain B: S.72, V.74, A.97, M.98, G.99, V.100, S.101, N.117, V.118, R.119 Ligands: 0PA.9, 0PA.10 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:V.74, B:A.97 Hydrogen bonds: B:S.101, B:N.117, B:V.118 Water bridges: B:S.72, B:S.101

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Merritt, E.A. et al., Leishmania major coproporphyrinogen III oxidase with bound ligand. To be Published

Release Date

2008-09-09

Peptides

Coproporphyrinogen III oxidase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Coproporphyrinogen III oxidase

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