SMTL ID : 5l8k.1

Aurora-A kinase domain in complex with vNAR-D01 (crystal form 2)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.79 Å

Oligo State

hetero-1-1-mer

Ligands

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

ADP.1: 13 residues within 4Å: Chain A: L.21, G.22, G.24, K.25, V.29, A.42, K.44, L.76, E.93, Y.94, A.95, T.99, L.145 12 PLIP interactions: 12 interactions with chain A Hydrogen bonds: A:K.25, A:E.93, A:A.95 Water bridges: A:G.27, A:K.44, A:T.99, A:T.99, A:T.99, A:T.99, A:A.155 Salt bridges: A:K.44, A:K.44

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

SO4.2: 3 residues within 4Å: Chain A: H.130, M.255, L.256 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:L.256 Water bridges: A:H.130, A:R.257 Salt bridges: A:H.130 SO4.13: 2 residues within 4Å: Chain B: M.1, A.2 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:A.2, B:A.2

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

EDO.3: 3 residues within 4Å: Chain A: P.231, D.232, F.233 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.232, A:F.233 EDO.4: 2 residues within 4Å: Chain A: Y.128, K.132 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:K.132 Water bridges: A:S.131 EDO.5: 1 residues within 4Å: Chain A: S.148 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.148 EDO.6: 1 residues within 4Å: Chain A: Q.9 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.9, A:Q.9 EDO.7: 4 residues within 4Å: Chain A: I.17, Y.30, V.45, Y.89 No protein-ligand interaction detected (PLIP) EDO.8: 3 residues within 4Å: Chain A: H.69 Chain B: E.47, K.85 5 PLIP interactions: 3 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:K.85, B:E.95, A:H.69 Water bridges: B:E.47, A:H.69 EDO.9: 4 residues within 4Å: Chain A: R.133 Chain B: R.39, R.55, Y.56 4 PLIP interactions: 2 interactions with chain A, 2 interactions with chain B Hydrogen bonds: A:R.133, A:R.133, B:R.39, B:R.55 EDO.10: 4 residues within 4Å: Chain A: Q.113, R.114, T.117, S.270 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.270, A:S.270 EDO.11: 6 residues within 4Å: Chain A: R.137, S.160, V.161, H.162, S.165, H.188 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.165, A:H.188 EDO.12: 2 residues within 4Å: Chain A: R.8, Q.9 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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