SMTL ID : 5l8l.1

Aurora-A kinase domain in complex with vNAR-D01 (crystal form 1)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.67 Å

Oligo State

hetero-1-1-mer

Ligands

1 x ADP: ADENOSINE-5'-DIPHOSPHATE(Non-covalent)

ADP.1: 14 residues within 4Å: Chain A: L.21, G.22, K.23, G.24, K.25, V.29, A.42, K.44, L.76, E.93, Y.94, A.95, T.99, L.145 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:K.25, A:E.93, A:A.95 Water bridges: A:K.23, A:K.23, A:G.27 Salt bridges: A:K.44, A:K.44

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

SO4.2: 6 residues within 4Å: Chain A: R.137, S.160, V.161, H.162, S.165, R.167 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:R.137, A:S.160, A:V.161, A:H.162 Salt bridges: A:H.162, A:R.167 SO4.3: 1 residues within 4Å: Chain A: N.249 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.249 Water bridges: A:N.249 SO4.4: 2 residues within 4Å: Chain A: Y.128, K.132 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:Y.128, A:Y.128 Water bridges: A:K.132, A:K.132, A:K.132 Salt bridges: A:K.132 SO4.5: 1 residues within 4Å: Chain A: S.148 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.148 SO4.6: 3 residues within 4Å: Chain A: R.33, K.38 Ligands: SO4.7 3 PLIP interactions: 3 interactions with chain A Water bridges: A:R.33, A:R.33 Salt bridges: A:R.33 SO4.7: 3 residues within 4Å: Chain A: R.33, K.38 Ligands: SO4.6 3 PLIP interactions: 3 interactions with chain A Water bridges: A:R.33 Salt bridges: A:R.33, A:K.38 SO4.11: 4 residues within 4Å: Chain B: M.1, A.2, L.92, R.94 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:M.1, B:M.1, B:A.2 Salt bridges: B:R.94

5 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.8: 2 residues within 4Å: Chain A: R.133 Chain B: Q.48 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:R.133, A:R.133, B:Q.48 EDO.9: 4 residues within 4Å: Chain A: E.190, M.255, L.256, R.257 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.190, A:L.256, A:R.257 EDO.10: 2 residues within 4Å: Chain A: D.232, R.239 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.239, A:R.239 Water bridges: A:D.232 EDO.12: 4 residues within 4Å: Chain B: V.4, S.93, R.94, E.95 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:S.93, B:E.95, B:E.95 Water bridges: B:V.4 EDO.13: 2 residues within 4Å: Chain B: R.9, I.10 No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Burgess, S.G. et al., Allosteric inhibition of Aurora-A kinase by a synthetic vNAR domain. Open Biology (2016)

Release Date

2016-07-20

Peptides

Aurora kinase A: A
New antigen receptor variable domain: B

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Aurora kinase A

New antigen receptor variable domain

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