4WHK

A New Class of Peptidomimetics Targeting the Polo-box Domain of Polo-like kinase 1

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations
Protein Modification Annotation

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Polo-box domain	8041915	3000394	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Polo-box domain	8041914	3000394	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	POLO_box	e4whkA2	A: a+b two layers	X: RIP/Polo-box domain	H: Polo-box domain (From Topology)	T: Polo-box domain	F: POLO_box	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.30.1120.30	Alpha Beta	2-Layer Sandwich	Arylsulfatase, C-terminal domain	POLO box domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00659	POLO box duplicated region (POLO_box)	POLO box duplicated region	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Serine/threonine-protein kinase PLK1	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding cytoskeletal protein binding microtubule binding protein binding tubulin binding catalytic activity, acting on a protein kinase activity protein kinase activity transferase activity catalytic activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups identical protein binding protein serine kinase activity cation binding magnesium ion binding metal ion binding protein-containing complex binding anaphase-promoting complex binding kinase binding enzyme binding protein kinase binding protein serine/threonine kinase activity	regulation of chromosome segregation regulation of cell cycle phase transition regulation of cellular process regulation of metaphase/anaphase transition of cell cycle regulation of cellular component organization cell cycle phase transition regulation of mitotic metaphase/anaphase transition mitotic cell cycle cellular component organization regulation of mitotic cell cycle cell cycle cellular component organization or biogenesis regulation of cell cycle chromosome segregation regulation of chromosome segregation regulation of cell cycle phase transition regulation of cellular process regulation of metaphase/anaphase transition of cell cycle regulation of cellular component organization cell cycle phase transition regulation of mitotic metaphase/anaphase transition mitotic cell cycle cellular component organization regulation of mitotic cell cycle cell cycle cellular component organization or biogenesis regulation of cell cycle chromosome segregation cell cycle process regulation of biological process regulation of cell cycle process biological regulation chromosome organization sister chromatid segregation regulation of chromosome organization regulation of organelle organization regulation of mitotic cell cycle phase transition organelle organization mitotic cell cycle process regulation of sister chromatid segregation nuclear chromosome segregation metaphase/anaphase transition of mitotic cell cycle cellular process metaphase/anaphase transition of cell cycle mitotic cell cycle phase transition protein destabilization regulation of protein stability regulation of biological quality regulation of cytoskeleton organization non-membrane-bounded organelle assembly microtubule cytoskeleton organization regulation of mitotic spindle organization cellular component biogenesis cellular component assembly regulation of mitotic spindle assembly mitotic sister chromatid segregation microtubule cytoskeleton organization involved in mitosis spindle organization mitotic nuclear division organelle assembly organelle fission regulation of microtubule-based process regulation of spindle organization regulation of cellular component biogenesis spindle assembly mitotic spindle organization regulation of spindle assembly mitotic spindle assembly nuclear division regulation of organelle assembly microtubule-based process cytoskeleton organization regulation of microtubule cytoskeleton organization mitotic chromosome condensation chromosome condensation membrane organization cellular component disassembly nuclear membrane disassembly membrane disassembly nuclear membrane organization mitotic nuclear membrane disassembly nucleus organization nuclear envelope organization endomembrane system organization sister chromatid cohesion protein localization localization cellular localization protein localization to organelle cellular macromolecule localization macromolecule localization protein localization to nucleus protein localization to nuclear envelope positive regulation of proteasomal protein catabolic process catabolic process positive regulation of protein metabolic process proteolysis involved in protein catabolic process positive regulation of biological process proteasome-mediated ubiquitin-dependent protein catabolic process macromolecule catabolic process regulation of ubiquitin-dependent protein catabolic process regulation of primary metabolic process regulation of nitrogen compound metabolic process positive regulation of metabolic process organic substance metabolic process positive regulation of ubiquitin-dependent protein catabolic process regulation of proteolysis regulation of proteolysis involved in protein catabolic process modification-dependent macromolecule catabolic process proteolysis nitrogen compound metabolic process positive regulation of macromolecule metabolic process protein metabolic process organonitrogen compound catabolic process organonitrogen compound metabolic process regulation of protein metabolic process primary metabolic process proteasomal protein catabolic process regulation of macromolecule metabolic process protein catabolic process regulation of catabolic process positive regulation of protein catabolic process positive regulation of proteolysis involved in protein catabolic process positive regulation of catabolic process regulation of proteasomal ubiquitin-dependent protein catabolic process positive regulation of nitrogen compound metabolic process modification-dependent protein catabolic process positive regulation of proteolysis regulation of proteasomal protein catabolic process positive regulation of proteasomal ubiquitin-dependent protein catabolic process metabolic process ubiquitin-dependent protein catabolic process macromolecule metabolic process regulation of metabolic process organic substance catabolic process regulation of protein catabolic process protein ubiquitination macromolecule modification post-translational protein modification protein modification process protein modification by small protein conjugation protein modification by small protein conjugation or removal regulation of protein modification process regulation of catalytic activity regulation of protein ubiquitination regulation of transferase activity positive regulation of post-translational protein modification regulation of ubiquitin protein ligase activity positive regulation of molecular function positive regulation of ubiquitin protein ligase activity positive regulation of protein modification process regulation of ubiquitin-protein transferase activity regulation of protein modification by small protein conjugation or removal positive regulation of protein modification by small protein conjugation or removal positive regulation of protein ubiquitination positive regulation of transferase activity regulation of post-translational protein modification positive regulation of catalytic activity positive regulation of ubiquitin-protein transferase activity regulation of molecular function regulation of cytokinesis cytokinesis regulation of cell division cell division establishment of organelle localization spindle localization establishment or maintenance of cell polarity establishment of mitotic spindle localization establishment of spindle localization establishment of spindle orientation organelle localization establishment of localization in cell establishment of localization establishment of cell polarity establishment of mitotic spindle orientation protein phosphorylation phosphorylation cellular metabolic process phosphate-containing compound metabolic process phosphorus metabolic process peptidyl-serine modification peptidyl-serine phosphorylation peptidyl-amino acid modification cellular response to stimulus response to stimulus nucleobase-containing compound metabolic process heterocycle metabolic process cellular response to stress response to stress DNA repair double-strand break repair double-strand break repair via nonhomologous end joining double-strand break repair via alternative nonhomologous end joining cellular nitrogen compound metabolic process DNA metabolic process nucleic acid metabolic process organic cyclic compound metabolic process DNA damage response cellular aromatic compound metabolic process negative regulation of biological process negative regulation of nitrogen compound metabolic process negative regulation of cellular metabolic process negative regulation of RNA biosynthetic process DNA-templated transcription regulation of RNA metabolic process transcription by RNA polymerase II organic substance biosynthetic process negative regulation of nucleobase-containing compound metabolic process regulation of nucleobase-containing compound metabolic process regulation of transcription by RNA polymerase II negative regulation of DNA-templated transcription negative regulation of transcription by RNA polymerase II negative regulation of metabolic process regulation of cellular metabolic process negative regulation of cellular biosynthetic process regulation of gene expression biosynthetic process aromatic compound biosynthetic process negative regulation of macromolecule biosynthetic process organic cyclic compound biosynthetic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription negative regulation of RNA metabolic process cellular biosynthetic process RNA metabolic process RNA biosynthetic process nucleic acid biosynthetic process negative regulation of cellular process regulation of RNA biosynthetic process negative regulation of macromolecule metabolic process regulation of biosynthetic process nucleobase-containing compound biosynthetic process heterocycle biosynthetic process gene expression macromolecule biosynthetic process regulation of cellular biosynthetic process negative regulation of biosynthetic process cell cycle G2/M phase transition G2/M transition of mitotic cell cycle regulation of localization protein localization to cell periphery regulation of protein localization regulation of protein localization to cell periphery regulation of protein localization to cell cortex regulation of cellular localization protein localization to cell cortex meiotic chromosome segregation sexual reproduction reproductive process meiotic cell cycle multicellular organismal reproductive process female gamete generation meiotic cell cycle process gamete generation female meiotic nuclear division meiotic nuclear division female meiosis chromosome segregation positive regulation of protein localization to nucleus regulation of protein localization to nucleus positive regulation of protein localization positive regulation of cellular process microtubule bundle formation cytoskeleton-dependent cytokinesis mitotic cytokinesis establishment of protein localization negative regulation of programmed cell death regulation of apoptotic process regulation of programmed cell death cell death negative regulation of apoptotic process apoptotic process programmed cell death positive regulation of phosphorylation regulation of protein phosphorylation regulation of peptidyl-threonine phosphorylation positive regulation of cellular metabolic process positive regulation of phosphate metabolic process regulation of phosphate metabolic process peptidyl-threonine modification positive regulation of protein phosphorylation positive regulation of phosphorus metabolic process positive regulation of peptidyl-threonine phosphorylation regulation of phosphorus metabolic process regulation of phosphorylation peptidyl-threonine phosphorylation protein localization to chromatin protein localization to chromosome spindle checkpoint signaling negative regulation of cell cycle regulation of mitotic nuclear division intracellular signal transduction negative regulation of mitotic cell cycle cell communication negative regulation of mitotic sister chromatid segregation negative regulation of chromosome organization negative regulation of cell cycle phase transition mitotic spindle checkpoint signaling signal transduction mitotic sister chromatid separation negative regulation of sister chromatid segregation mitotic spindle assembly checkpoint signaling negative regulation of cellular component organization regulation of mitotic sister chromatid segregation regulation of chromosome separation negative regulation of mitotic nuclear division regulation of mitotic sister chromatid separation signaling spindle assembly checkpoint signaling negative regulation of mitotic metaphase/anaphase transition negative regulation of chromosome separation negative regulation of mitotic cell cycle phase transition negative regulation of cell cycle process cell cycle checkpoint signaling mitotic cell cycle checkpoint signaling negative regulation of chromosome segregation chromosome separation negative regulation of organelle organization negative regulation of nuclear division negative regulation of mitotic sister chromatid separation regulation of nuclear division negative regulation of metaphase/anaphase transition of cell cycle negative regulation of catalytic activity regulation of cyclin-dependent protein kinase activity negative regulation of kinase activity negative regulation of transferase activity regulation of cyclin-dependent protein serine/threonine kinase activity negative regulation of protein modification process negative regulation of protein metabolic process regulation of kinase activity negative regulation of protein phosphorylation regulation of protein serine/threonine kinase activity negative regulation of phosphate metabolic process negative regulation of cyclin-dependent protein serine/threonine kinase activity negative regulation of protein serine/threonine kinase activity negative regulation of cyclin-dependent protein kinase activity negative regulation of molecular function negative regulation of protein kinase activity regulation of protein kinase activity negative regulation of phosphorus metabolic process negative regulation of phosphorylation DNA damage checkpoint signaling mitotic G2 DNA damage checkpoint signaling mitotic G2/M transition checkpoint mitotic DNA integrity checkpoint signaling mitotic DNA damage checkpoint signaling regulation of G2/M transition of mitotic cell cycle DNA integrity checkpoint signaling regulation of cell cycle G2/M phase transition negative regulation of cell cycle G2/M phase transition signal transduction in response to DNA damage negative regulation of G2/M transition of mitotic cell cycle synaptonemal complex disassembly synaptonemal complex organization Golgi inheritance organelle inheritance Golgi organization microtubule organizing center organization centrosome cycle meiosis I meiosis I cell cycle process homologous chromosome segregation regulation of anaphase-promoting complex-dependent catabolic process anaphase-promoting complex-dependent catabolic process regulation of protein binding regulation of binding	intracellular organelle intracellular anatomical structure cytoskeleton spindle organelle intracellular non-membrane-bounded organelle spindle pole cellular anatomical entity microtubule cytoskeleton non-membrane-bounded organelle spindle midzone cytoplasm cytosol protein-containing complex intracellular organelle intracellular anatomical structure cytoskeleton spindle organelle intracellular non-membrane-bounded organelle spindle pole cellular anatomical entity microtubule cytoskeleton non-membrane-bounded organelle spindle midzone cytoplasm cytosol protein-containing complex chromosome chromosomal region kinetochore chromosome, centromeric region outer kinetochore condensed chromosome, centromeric region supramolecular complex condensed chromosome protein-DNA complex chromatin mitotic spindle mitotic spindle pole midbody centrosome microtubule organizing center centriolar satellite centriole membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen condensed nuclear chromosome nuclear chromosome synaptonemal structure synaptonemal complex
B	C6H5(CH2)8-DERIVATIZED PEPTIDE INHIBITOR	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR000719	Protein kinase domain	Domain
A	IPR000959	POLO box domain	Domain
A	IPR033695	Second polo-box domain	Domain
A	IPR033702	Polo-like kinase 1, catalytic domain	Domain
A	IPR017441	Protein kinase, ATP binding site	Binding Site
A	IPR036947	POLO box domain superfamily	Homologous Superfamily
A	IPR033701	First polo-box domain	Domain
A	IPR011009	Protein kinase-like domain superfamily	Homologous Superfamily
A	IPR008271	Serine/threonine-protein kinase, active site	Active Site

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: P53350	malignant glioma leukemia mixed glioma atypical teratoid rhabdoid tumor cancer hepatocellular carcinoma malignant mesothelioma non-small cell lung carcinoma squamous cell lung carcinoma breast cancer glioblastoma invasive ductal breast carcinoma lung adenocarcinoma medulloblastoma osteosarcoma malignant glioma leukemia mixed glioma atypical teratoid rhabdoid tumor cancer hepatocellular carcinoma malignant mesothelioma non-small cell lung carcinoma squamous cell lung carcinoma breast cancer glioblastoma invasive ductal breast carcinoma lung adenocarcinoma medulloblastoma osteosarcoma breast carcinoma glioma large cell medulloblastoma psoriasis

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
B	56A	Parent Component: HIS
B	NH2	RESID: AA0081 , AA0083 , AA0084 , AA0086 , AA0087 , AA0088 , AA0090 , AA0091 , AA0092 , AA0093 , AA0095 , AA0096 , AA0097 , AA0098 , AA0099 , AA0100 PSI-MOD : L-alanine amide MOD:00090 , L-asparagine amide MOD:00092 , L-aspartic acid 1-amide MOD:00093 , L-glutamine amide MOD:00095 , L-glutamic acid 1-amide MOD:00096 , glycine amide MOD:00097 , L-isoleucine amide MOD:00099 , L-leucine amide MOD:00100 , L-lysine amide MOD:00101 , L-methionine amide MOD:00102 , L-proline amide MOD:00104 , L-serine amide MOD:00105 , L-threonine amide MOD:00106 , L-tryptophan amide MOD:00107 , L-tyrosine amide MOD:00108 , L-valine amide MOD:00109
B	TPO	Parent Component: THR RESID: AA0081 , AA0083 , AA0084 , AA0086 , AA0087 , AA0088 , AA0090 , AA0091 , AA0092 , AA0093 , AA0095 , AA0096 , AA0097 , AA0098 , AA0099 , AA0100 , AA0038 PSI-MOD : L-alanine amide MOD:00090 , L-asparagine amide MOD:00092 , L-aspartic acid 1-amide MOD:00093 , L-glutamine amide MOD:00095 , L-glutamic acid 1-amide MOD:00096 , glycine amide MOD:00097 , L-isoleucine amide MOD:00099 , L-leucine amide MOD:00100 , L-lysine amide MOD:00101 , L-methionine amide MOD:00102 , L-proline amide MOD:00104 , L-serine amide MOD:00105 , L-threonine amide MOD:00106 , L-tryptophan amide MOD:00107 , L-tyrosine amide MOD:00108 , L-valine amide MOD:00109 , O-phospho-L-threonine MOD:00047
B	YAC	RESID: AA0081 , AA0083 , AA0084 , AA0086 , AA0087 , AA0088 , AA0090 , AA0091 , AA0092 , AA0093 , AA0095 , AA0096 , AA0097 , AA0098 , AA0099 , AA0100 , AA0038

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.