SMTL ID : 6s9f.2 (1 other biounit)

Drosophila OTK, extracellular domains 3-5

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.97 Å

Oligo State

monomer

Ligands

6 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.1: 5 residues within 4Å: Chain A: V.452, H.469, Q.471, N.504, T.506 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:V.452, A:H.469 Hydrogen bonds: A:H.469, A:Q.471, A:T.506 Water bridges: A:T.506 NAG.2: 6 residues within 4Å: Chain A: R.422, G.423, N.424, A.441, I.442, N.443 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:R.422 Hydrogen bonds: A:R.422 NAG.3: 3 residues within 4Å: Chain A: L.428, Q.435, N.437 3 PLIP interactions: 3 interactions with chain A Water bridges: A:N.437, A:N.437, A:N.437 NAG.4: 6 residues within 4Å: Chain A: R.393, N.397, T.399, L.400, P.401, D.402 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.393, A:N.397, A:T.399, A:L.400, A:D.402 NAG.5: 3 residues within 4Å: Chain A: H.313, N.316, T.318 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.316, A:T.318, A:T.318 NAG.6: 2 residues within 4Å: Chain A: D.407, N.409 No protein-ligand interaction detected (PLIP)

3 x SO4: SULFATE ION(Non-functional Binders)

SO4.7: 5 residues within 4Å: Chain A: T.364, K.366, K.376, V.377, H.378 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:K.376, A:H.378 Water bridges: A:T.364, A:K.366 Salt bridges: A:K.366, A:H.378 SO4.8: 3 residues within 4Å: Chain A: V.374, K.376, R.415 2 PLIP interactions: 2 interactions with chain A Salt bridges: A:K.376, A:R.415 SO4.9: 3 residues within 4Å: Chain A: H.313, K.314, Q.315 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:K.314, A:Q.315, A:Q.315 Salt bridges: A:H.313

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Rozbesky, D. et al., Drosophila OTK Is a Glycosaminoglycan-Binding Protein with High Conformational Flexibility. Structure (2020)

Release Date

2020-03-25

Peptides

Tyrosine-protein kinase-like otk: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Tyrosine-protein kinase-like otk

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