6WLY

PAK4 kinase domain in complex with LIMK1 Thr508 substrate peptide

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	Protein kinase-like (PK-like)	8062452	3000066	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	Pkinase_Tyr	e6wlyA1	A: a+b complex topology	X: Protein kinase/SAICAR synthase/ATP-grasp (From Homology)	H: Protein kinase/SAICAR synthase/ATP-grasp	T: Protein kinase	F: Pkinase_Tyr	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.30.200.20	Alpha Beta	2-Layer Sandwich	Phosphorylase Kinase	domain 1	CATH (utative)
A	1.10.510.10	Mainly Alpha	Orthogonal Bundle	Transferase(Phosphotransferase)	domain 1	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00069	Protein kinase domain (Pkinase)	Protein kinase domain	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Serine/threonine-protein kinase PAK 4	cell adhesion molecule binding cadherin binding involved in cell-cell adhesion cadherin binding protein binding binding cell adhesion mediator activity cell-cell adhesion mediator activity catalytic activity, acting on a protein kinase activity protein kinase activity transferase activity catalytic activity protein serine kinase activity phosphotransferase activity, alcohol group as acceptor cell adhesion molecule binding cadherin binding involved in cell-cell adhesion cadherin binding protein binding binding cell adhesion mediator activity cell-cell adhesion mediator activity catalytic activity, acting on a protein kinase activity protein kinase activity transferase activity catalytic activity protein serine kinase activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups 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 protein serine/threonine kinase activity histone H2AS1 kinase activity histone modifying activity histone H2A kinase activity histone kinase activity	cellular process apoptotic process cell death programmed cell death cellular response to stimulus regulation of biological process regulation of signaling regulation of cellular process response to stimulus signaling biological regulation regulation of signal transduction regulation of MAPK cascade intracellular signal transduction cellular process apoptotic process cell death programmed cell death cellular response to stimulus regulation of biological process regulation of signaling regulation of cellular process response to stimulus signaling biological regulation regulation of signal transduction regulation of MAPK cascade intracellular signal transduction cell communication regulation of intracellular signal transduction regulation of response to stimulus intracellular signaling cassette MAPK cascade regulation of cell communication signal transduction regulation of growth regulation of cellular component organization growth regulation of cell growth cell growth cellular component organization cellular component organization or biogenesis cell migration cell motility organelle organization cytoskeleton organization protein phosphorylation phosphorylation primary metabolic process macromolecule modification phosphate-containing compound metabolic process metabolic process protein metabolic process macromolecule metabolic process protein modification process phosphorus metabolic process developmental process dendritic spine development multicellular organismal process plasma membrane bounded cell projection organization cellular developmental process cell projection organization cell development neuron projection development nervous system development generation of neurons neurogenesis multicellular organism development neuron differentiation dendrite development cell differentiation neuron development anatomical structure development system development regulation of developmental process positive regulation of biological process angiogenesis regulation of vasculature development positive regulation of developmental process tube morphogenesis regulation of multicellular organismal process regulation of anatomical structure morphogenesis blood vessel development regulation of multicellular organismal development blood vessel morphogenesis tube development positive regulation of angiogenesis vasculature development circulatory system development anatomical structure morphogenesis positive regulation of vasculature development regulation of angiogenesis anatomical structure formation involved in morphogenesis positive regulation of multicellular organismal process negative regulation of endothelial cell apoptotic process negative regulation of programmed cell death regulation of apoptotic process negative regulation of biological process regulation of programmed cell death negative regulation of apoptotic process negative regulation of cellular process endothelial cell apoptotic process regulation of endothelial cell apoptotic process cellular response to chemical stimulus response to chemical cellular response to organic cyclic compound response to organic cyclic compound	cellular anatomical structure anchoring junction cell junction focal adhesion cell-substrate junction intracellular anatomical structure cytoplasm cytosol cell-cell junction adherens junction membrane-bounded organelle intracellular organelle Golgi apparatus organelle cellular anatomical structure anchoring junction cell junction focal adhesion cell-substrate junction intracellular anatomical structure cytoplasm cytosol cell-cell junction adherens junction membrane-bounded organelle intracellular organelle Golgi apparatus organelle intracellular membrane-bounded organelle endomembrane system
B	LIM Kinase 1 peptide	protein binding binding heat shock protein binding catalytic activity, acting on a protein kinase activity protein kinase activity transferase activity catalytic activity protein serine kinase activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding protein binding binding heat shock protein binding catalytic activity, acting on a protein kinase activity protein kinase activity transferase activity catalytic activity protein serine kinase activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups 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 protein serine/threonine kinase activity histone H2AS1 kinase activity histone modifying activity histone H2A kinase activity histone kinase activity cation binding metal ion binding	actomyosin structure organization actin cytoskeleton organization actin filament organization cellular component organization cellular component biogenesis organelle organization cellular component assembly actin filament bundle organization contractile actin filament bundle assembly actin filament-based process actin filament bundle assembly cellular process stress fiber assembly cellular component organization or biogenesis actomyosin structure organization actin cytoskeleton organization actin filament organization cellular component organization cellular component biogenesis organelle organization cellular component assembly actin filament bundle organization contractile actin filament bundle assembly actin filament-based process actin filament bundle assembly cellular process stress fiber assembly cellular component organization or biogenesis supramolecular fiber organization cytoskeleton organization axon extension multicellular organismal process positive regulation of nervous system development regulation of growth regulation of cellular process axonogenesis regulation of cellular component size developmental growth cell projection organization regulation of cell differentiation regulation of neurogenesis neuron projection development regulation of cell development positive regulation of developmental process multicellular organism development cell projection morphogenesis neuron differentiation neuron projection morphogenesis cell differentiation anatomical structure development positive regulation of cell projection organization regulation of biological quality positive regulation of developmental growth system development developmental process regulation of biological process regulation of cell projection organization positive regulation of cell development nervous system development developmental growth involved in morphogenesis generation of neurons positive regulation of multicellular organismal process regulation of neuron projection development regulation of cellular component organization positive regulation of cellular component organization cellular developmental process regulation of developmental process plasma membrane bounded cell projection morphogenesis positive regulation of biological process cell development cell growth cell morphogenesis regulation of axon extension regulation of nervous system development neurogenesis regulation of extent of cell growth positive regulation of cell differentiation regulation of axonogenesis positive regulation of neurogenesis regulation of multicellular organismal process positive regulation of axon extension positive regulation of cellular process positive regulation of axonogenesis regulation of anatomical structure morphogenesis regulation of cell size neuron projection extension regulation of multicellular organismal development regulation of developmental growth plasma membrane bounded cell projection organization developmental cell growth biological regulation growth positive regulation of cell growth axon development regulation of cell growth cell morphogenesis involved in neuron differentiation anatomical structure morphogenesis positive regulation of growth neuron development regulation of plasma membrane bounded cell projection organization regulation of anatomical structure size cellular response to stimulus response to stimulus signaling signal transduction cell communication positive regulation of organelle organization regulation of cytoskeleton organization regulation of actin filament-based process regulation of actin filament bundle assembly positive regulation of actin filament bundle assembly regulation of actin filament organization positive regulation of cellular component biogenesis positive regulation of cytoskeleton organization positive regulation of supramolecular fiber organization regulation of cellular component biogenesis regulation of organelle organization regulation of actin cytoskeleton organization regulation of supramolecular fiber organization protein phosphorylation phosphorylation primary metabolic process macromolecule modification phosphate-containing compound metabolic process metabolic process protein metabolic process macromolecule metabolic process protein modification process phosphorus metabolic process negative regulation of post-translational protein modification regulation of protein modification process regulation of catalytic activity negative regulation of biological process regulation of protein ubiquitination negative regulation of catalytic activity regulation of transferase activity regulation of primary metabolic process negative regulation of ubiquitin-protein transferase activity protein ubiquitination negative regulation of transferase activity negative regulation of protein modification process negative regulation of cellular process regulation of ubiquitin-protein transferase activity negative regulation of protein ubiquitination regulation of protein modification by small protein conjugation or removal negative regulation of protein metabolic process negative regulation of macromolecule metabolic process negative regulation of protein modification by small protein conjugation or removal regulation of post-translational protein modification regulation of protein metabolic process negative regulation of metabolic process negative regulation of molecular function regulation of macromolecule metabolic process regulation of molecular function post-translational protein modification regulation of metabolic process protein modification by small protein conjugation protein modification by small protein conjugation or removal small GTPase-mediated signal transduction Rho protein signal transduction intracellular signal transduction intracellular signaling cassette immune response-regulating cell surface receptor signaling pathway involved in phagocytosis import into cell immune response-regulating cell surface receptor signaling pathway transport Fc-gamma receptor signaling pathway involved in phagocytosis vesicle-mediated transport positive regulation of response to stimulus localization immune response-activating signaling pathway Fc receptor signaling pathway immune response-regulating signaling pathway positive regulation of immune response regulation of immune system process phagocytosis Fc-gamma receptor signaling pathway positive regulation of immune system process cell surface receptor signaling pathway immune response immune response-activating cell surface receptor signaling pathway Fc receptor mediated stimulatory signaling pathway establishment of localization immune effector process regulation of response to stimulus immune system process regulation of immune response endocytosis activation of immune response positive regulation of stress fiber assembly regulation of stress fiber assembly regulation of actomyosin structure organization	cellular anatomical structure anchoring junction cell junction focal adhesion cell-substrate junction cell projection cell leading edge plasma membrane bounded cell projection lamellipodium membrane membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen cellular anatomical structure anchoring junction cell junction focal adhesion cell-substrate junction cell projection cell leading edge plasma membrane bounded cell projection lamellipodium membrane membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen nuclear speck nuclear body intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen cytoplasm cytosol synapse glutamatergic synapse neuron projection cytoskeleton membraneless organelle intracellular membraneless organelle male germ cell nucleus germ cell nucleus postsynapse

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR000095	CRIB domain	Domain
A	IPR017441	Protein kinase, ATP binding site	Binding Site
A	IPR050285	STE20 Serine/Threonine-Protein Kinase	Family
A	IPR000719	Protein kinase domain	Domain
A	IPR036936	CRIB domain superfamily	Homologous Superfamily
A	IPR033923	p21 activated kinase binding domain	Domain
A	IPR011009	Protein kinase-like domain superfamily	Homologous Superfamily
B	IPR017441	Protein kinase, ATP binding site	Binding Site
B	IPR050940	Actin-regulating Serine/Threonine Kinase	Family
B	IPR000719	Protein kinase domain	Domain
B	IPR001781	Zinc finger, LIM-type	Domain
B	IPR001245	Serine-threonine/tyrosine-protein kinase, catalytic domain	Domain
B	IPR036034	PDZ superfamily	Homologous Superfamily
B	IPR011009	Protein kinase-like domain superfamily	Homologous Superfamily
B	IPR001478	PDZ domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: O96013	atypical teratoid rhabdoid tumor hepatocellular carcinoma osteosarcoma glioblastoma large cell medulloblastoma ovarian mucinous adenocarcinoma hepatitis C virus infection malignant mesothelioma
B	Pharos: P53667	Williams syndrome atypical teratoid rhabdoid tumor intellectual disability malignant ependymoma myositis rheumatoid arthritis Unresectable malignant melanoma with BRAF gene mutation large cell medulloblastoma malignant glioma osteosarcoma systemic lupus erythematosus chronic obstructive pulmonary disease lung adenocarcinoma psoriasis systemic sclerosis

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
A	SEP	Parent Component: SER RESID: AA0037 PSI-MOD : O-phospho-L-serine MOD:00046

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), 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 R01GM157729.