SMTL ID : 3rdq.1

Crystal structure of R7-2 streptavidin complexed with desthiobiotin

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.60 Å

Oligo State

monomer

Ligands

1 x DTB: 6-(5-METHYL-2-OXO-IMIDAZOLIDIN-4-YL)-HEXANOIC ACID(Non-covalent)

DTB.1: 15 residues within 4Å: Chain A: N.36, L.38, S.40, Y.56, S.58, V.60, G.61, N.62, W.92, A.99, S.101, V.121, T.123, D.141 Ligands: NI.2 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:W.92, A:W.92, A:W.92, A:A.99, A:V.121 Hydrogen bonds: A:N.36, A:S.40, A:Y.56, A:S.58, A:N.62, A:S.101, A:D.141 Water bridges: A:N.62, A:N.62

1 x NI: NICKEL (II) ION(Non-covalent)

NI.2: 2 residues within 4Å: Chain A: N.62 Ligands: DTB.1 No protein-ligand interaction detected (PLIP)

1 x NA: SODIUM ION(Non-functional Binders)

NA.3: 2 residues within 4Å: Chain A: A.132, S.135 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.135, A:S.135

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.4: 2 residues within 4Å: Chain A: N.98, H.100 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.98 Water bridges: A:N.98 GOL.5: 2 residues within 4Å: Chain A: H.9, H.10 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:H.9, A:H.10 Water bridges: A:H.9

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Magalhaes, M.L. et al., Evolved streptavidin mutants reveal key role of loop residue in high-affinity binding. Protein Sci. (2011)

Release Date

2011-07-06

Peptides

Streptavidin: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Streptavidin

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