SMTL ID : 5id9.1

Crystal structure of equine serum albumin in complex with phosphorodithioate derivative of myristoyl cyclic phosphatidic acid (cPA)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.48 Å

Oligo State

monomer

Ligands

1 x 6A4: (4S)-2-sulfanylidene-4-[(tetradecanoyloxy)methyl]-1,3,2lambda~5~-dioxaphospholane-2-thiolate(Non-covalent)

6A4.1: 16 residues within 4Å: Chain A: F.205, R.208, A.209, K.211, A.212, S.231, T.235, D.323, L.326, G.327, L.346, A.349, K.350, S.479, L.480, A.481 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:K.211, A:L.326, A:A.349 Salt bridges: A:R.208

3 x MLI: MALONATE ION(Non-functional Binders)

MLI.2: 6 residues within 4Å: Chain A: A.193, E.424, T.428, L.454, A.455, R.458 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:T.428, A:A.455 Hydrogen bonds: A:E.424, A:H.451 MLI.3: 8 residues within 4Å: Chain A: Y.149, L.218, K.221, L.237, R.256, S.286, I.289, A.290 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:L.237, A:I.289 Hydrogen bonds: A:Y.149 Salt bridges: A:K.221, A:R.256 MLI.4: 8 residues within 4Å: Chain A: L.66, H.67, F.70, G.247, D.248, L.249, L.250, E.251 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:L.66 Hydrogen bonds: A:L.249, A:L.250, A:E.251 Salt bridges: A:H.67

4 x FMT: FORMIC ACID(Non-functional Binders)

FMT.5: 3 residues within 4Å: Chain A: L.115, H.145, L.189 No protein-ligand interaction detected (PLIP) FMT.6: 3 residues within 4Å: Chain A: P.415, K.499, K.533 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.533 FMT.7: 0 residues within 4Å: (No contacts) 1 PLIP interactions: 1 interactions with chain A Water bridges: A:D.131 FMT.8: 3 residues within 4Å: Chain A: K.194, W.213, R.217 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.217

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sekula, B. et al., Structural evidence of the species-dependent albumin binding of the modified cyclic phosphatidic acid with cytotoxic properties. Biosci.Rep. (2016)

Release Date

2016-05-11

Peptides

Serum albumin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Serum albumin

Related Entries With Identical Sequence