4LKL: Plk1 Polo-box domain

Crystal structure of Plk1 Polo-box domain in complex with PL-55. Determined by X-ray diffraction at 1.58 Å resolution. Released 11 Dec 2013.

Method: X-ray diffraction
Resolution: 1.58 Å
Organism: Homo sapiens
Chains: 2
Atoms: 1,933
Mol. weight: 26.62 kDa
Ligands: ADM
Released: 11 Dec 2013

Explore 4LKL in 3D Show helices and sheets RCSB PDB PDBe

Secondary structure: helices and β-sheets

4LKL contains 7 α-helices and 14 β-strands across 2 chains. Residue ranges use author residue numbering, as in the PDB file, from PDBe. To see them in 3D, choose the Cartoon representation with Secondary structure coloring: helices, sheets and coils get different colors.

Chain A: 7 helices, 13 β-strands

Element	Residues	Length	Sheet
α-helix	374-386	13
α-helix	397-400	4
β-strand	401	1	1
α-helix	403-405	3
β-strand	411-417	7	2
β-strand	422-427	6	2
β-strand	432-436	5	2
β-strand	441-444	4	2
β-strand	450-454	5	2
β-strand	460-464	5	2
α-helix	470-472	3
α-helix	473-488	16
β-strand	511-516	6	1
β-strand	520-525	6	1
β-strand	530-534	5	1
β-strand	540-544	5	1
β-strand	549-553	5	1
β-strand	559-563	5	1
α-helix	564-570	7
α-helix	574-592	19

Chain B: 0 helices, 1 β-strand

Element	Residues	Length	Sheet
β-strand	5	1	2

Molecules and chains

Molecule	Chains	Type	Length	Organism	UniProt
Serine/threonine-protein kinase PLK1	A	protein	222	Homo sapiens	P53350 (AlphaFold model)
PL-55	B	protein	8

Sequence of entity 1 (A), FASTA

>4LKL_1 Serine/threonine-protein kinase PLK1 (chains A)
CHLSDMLQQLHSVNASKPSERGLVRQEEAEDPACIPIFWVSKWVDYSDKYGLGYQLCDNS
VGVLFNDSTRLILYNDGDSLQYIERDGTESYLTVSSHPNSLMKKITLLKYFRNYMSEHLL
KAGANITPREGDELARLPYLRTWFRTRSAIILHLSNGSVQINFFQDHTKLILCPLMAAVT
YIDEKRDFRTYRLSLLEEYGCCKELASRLRYARTMVDKLLSS

Sequence of entity 2 (B), FASTA

>4LKL_2 PL-55 (chains B)
XPLHSTMX

Ligands and cofactors

ID	Name	Formula	Copies
ADM	Adamantane	C10 H16	1

Primary citation

Exploring the binding nature of pyrrolidine pocket-dependent interactions in the polo-box domain of polo-like kinase 1. Murugan, R.N., Ahn, M., Lee, W.C. et al. PLoS One (2013) 8:e80043-e80043. DOI 10.1371/journal.pone.0080043 · PubMed

Other PDB entries of the same protein (UniProt P53350 (AlphaFold model), which also has an AlphaFold model), best resolution first:

4X9R 1.4 Å, PLK-1 polo-box domain in complex with Bioactive Imidazolium-containing phosphopeptide…
3P34 1.4 Å, Polo-like kinase I Polo-box domain in complex with MQSpTPL phosphopeptide
3Q1I 1.4 Å, Polo-like kinase I Polo-box domain in complex with FMPPPMSpSM phosphopeptide from TCERG1
4X9V 1.43 Å, PLK-1 polo-box domain in complex with Bioactive Imidazolium-containing phosphopeptide…
4O6W 1.45 Å, Peptide-Based Inhibitors of Plk1 Polo-box Domain
6AX4 1.45 Å, Plk-1 polo-box domain in complex with histidine N(tau)-cyclized Macrocycle 5b.
3RQ7 1.55 Å, Polo-like kinase 1 Polo box domain in complex with a C6H5(CH2)8-derivatized peptide…
4DFW 1.55 Å, Oxime-based Post Solid-phase Peptide Diversification: Identification of High Affinity…
3FVH 1.58 Å, Polo-like kinase 1 Polo box domain in complex with Ac-LHSpTA-NH2 peptide
3P36 1.59 Å, Polo-like kinase I Polo-box domain in complex with DPPLHSpTA phosphopeptide from PBIP1
4RCP 1.6 Å, Crystal structure of Plk1 Polo-box domain in complex with PL-2
9QMO 1.6 Å, PLK1 PBD apo protein at 1.6A

Browse structure collections

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