9D20 | pdb_00009d20

Crystal structure of DLK1 in complex with ACVR2B

External Resource: Annotation

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

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A [auth E]	SCOP2B Superfamily	Snake toxin-like	8042166	3000545	SCOP2B (2022-06-29)
C [auth A]	SCOP2B Superfamily	Snake toxin-like	8042166	3000545	SCOP2B (2022-06-29)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth E], C [auth A]	PF01064	Activin types I and II receptor domain (Activin_recp)	Activin types I and II receptor domain	This Pfam entry consists of both TGF-beta receptor types. This is an alignment of the hydrophilic cysteine-rich ligand-binding domains, Both receptor types, (type I and II) posses a 9 amino acid cysteine box, with the the consensus CCX{4-5}CN. The t ...	This Pfam entry consists of both TGF-beta receptor types. This is an alignment of the hydrophilic cysteine-rich ligand-binding domains, Both receptor types, (type I and II) posses a 9 amino acid cysteine box, with the the consensus CCX{4-5}CN. The type I receptors also possess 7 extracellular residues preceding the cysteine box.	Domain
B [auth D], D [auth B]	PF00008	EGF-like domain (EGF)	EGF-like domain	There is no clear separation between noise and signal. Pfam:PF00053 is very similar, but has 8 instead of 6 conserved cysteines. Includes some cytokine receptors. The EGF domain misses the N-terminus regions of the Ca2+ binding EGF domains (this is t ...	There is no clear separation between noise and signal. Pfam:PF00053 is very similar, but has 8 instead of 6 conserved cysteines. Includes some cytokine receptors. The EGF domain misses the N-terminus regions of the Ca2+ binding EGF domains (this is the main reason of discrepancy between swiss-prot domain start/end and Pfam). The family is hard to model due to many similar but different sub-types of EGF domains. Pfam certainly misses a number of EGF domains.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth E], C [auth A]	Activin receptor type-2B	protein-containing complex binding activin binding binding enzyme regulator activity kinase activator activity enzyme activator activity molecular function activator activity molecular function regulator activity kinase regulator activity adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding protein-containing complex binding activin binding binding enzyme regulator activity kinase activator activity enzyme activator activity molecular function activator activity molecular function regulator activity kinase regulator activity adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding protein serine/threonine kinase activity molecular transducer activity catalytic activity, acting on a protein kinase activity protein kinase activity signaling receptor activity activin receptor activity transferase activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups transmembrane receptor protein serine/threonine kinase activity transmembrane receptor protein kinase activity transmembrane signaling receptor activity catalytic activity cation binding metal ion binding activin receptor activity, type II protein serine/threonine/tyrosine kinase activity protein binding growth factor binding	intracellular iron ion homeostasis inorganic ion homeostasis cellular homeostasis chemical homeostasis homeostatic process intracellular monoatomic cation homeostasis monoatomic ion homeostasis intracellular chemical homeostasis monoatomic cation homeostasis intracellular monoatomic ion homeostasis developmental process multicellular organism development multicellular organismal process anatomical structure development intracellular iron ion homeostasis inorganic ion homeostasis cellular homeostasis chemical homeostasis homeostatic process intracellular monoatomic cation homeostasis monoatomic ion homeostasis intracellular chemical homeostasis monoatomic cation homeostasis intracellular monoatomic ion homeostasis developmental process multicellular organism development multicellular organismal process anatomical structure development pattern specification process heart development animal organ development circulatory system development system development epithelium development endothelial cell differentiation cellular developmental process endothelium development lymphatic endothelial cell differentiation tissue development epithelial cell differentiation vasculature development cell differentiation cellular process lymph vessel development digestive system development foregut morphogenesis tube development embryonic morphogenesis embryo development digestive tract development anatomical structure morphogenesis tube morphogenesis embryonic foregut morphogenesis digestive tract morphogenesis mesoderm development artery development blood vessel development regulation of developmental process positive regulation of biological process regulation of biomineral tissue development regulation of bone mineralization positive regulation of ossification positive regulation of developmental process positive regulation of biomineral tissue development ossification biomineral tissue development regulation of multicellular organismal process regulation of multicellular organismal development regulation of biological process bone mineralization biological regulation positive regulation of bone mineralization positive regulation of multicellular organismal process regulation of ossification regulation of cellular process RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process primary metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of gene expression biosynthetic process metabolic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process skeletal system development skeletal system morphogenesis animal organ morphogenesis cellular response to stimulus cell surface receptor protein serine/threonine kinase signaling pathway cell surface receptor signaling pathway response to stimulus signaling cell communication signal transduction enzyme-linked receptor protein signaling pathway negative regulation of biological process negative regulation of RNA biosynthetic process transcription by RNA polymerase II negative regulation of cellular process negative regulation of nucleobase-containing compound metabolic process negative regulation of macromolecule 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 negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of RNA metabolic process kidney development renal system development protein localization establishment of protein localization cellular localization nitrogen compound transport transport hormone secretion protein localization to extracellular region peptide secretion localization secretion by cell amide transport signal release cellular macromolecule localization regulation of biological quality secretion regulation of hormone levels establishment of protein localization to extracellular region cell-cell signaling export from cell protein secretion establishment of localization peptide transport protein transport peptide hormone secretion macromolecule localization hormone transport insulin secretion trophoblast cell migration multi-multicellular organism process reproductive process ameboidal-type cell migration cell migration cell motility female pregnancy embryo implantation multi-organism reproductive process positive regulation of activin receptor signaling pathway positive regulation of cell communication activin receptor signaling pathway positive regulation of signal transduction regulation of transmembrane receptor protein serine/threonine kinase signaling pathway regulation of signal transduction positive regulation of response to stimulus positive regulation of cellular process regulation of signaling positive regulation of transmembrane receptor protein serine/threonine kinase signaling pathway regulation of response to stimulus regulation of cell communication transforming growth factor beta receptor superfamily signaling pathway regulation of activin receptor signaling pathway positive regulation of signaling sensory organ development retina vasculature development in camera-type eye eye development retina development in camera-type eye visual system development camera-type eye development sensory system development cellular response to BMP stimulus cellular response to growth factor stimulus response to endogenous stimulus cellular response to endogenous stimulus response to BMP response to growth factor BMP signaling pathway gastrulation with mouth forming second gastrulation developmental growth growth organ growth odontogenesis of dentin-containing tooth odontogenesis lymphangiogenesis anatomical structure formation involved in morphogenesis lymph vessel morphogenesis respiratory tube development lung development respiratory system development response to hexose response to monosaccharide response to carbohydrate response to glucose response to chemical response to oxygen-containing compound determination of bilateral symmetry determination of left/right symmetry left/right pattern formation regionalization specification of symmetry pancreas development blood vessel remodeling tissue remodeling regulation of osteoblast differentiation regulation of cell differentiation osteoblast differentiation positive regulation of osteoblast differentiation positive regulation of cell differentiation venous blood vessel development negative regulation of cold-induced thermogenesis adaptive thermogenesis multicellular organismal-level homeostasis regulation of cold-induced thermogenesis cold-induced thermogenesis temperature homeostasis negative regulation of multicellular organismal process negative regulation of ossification post-embryonic development anterior/posterior pattern specification roof of mouth development	cellular anatomical structure intracellular anatomical structure cytoplasm protein-containing complex receptor complex catalytic complex plasma membrane protein complex membrane plasma membrane membrane protein complex transferase complex protein kinase complex transferase complex, transferring phosphorus-containing groups cell periphery cellular anatomical structure intracellular anatomical structure cytoplasm protein-containing complex receptor complex catalytic complex plasma membrane protein complex membrane plasma membrane membrane protein complex transferase complex protein kinase complex transferase complex, transferring phosphorus-containing groups cell periphery serine/threonine protein kinase complex plasma membrane signaling receptor complex activin receptor complex
B [auth D], D [auth B]	Protein delta homolog 1	cation binding ion binding binding calcium ion binding metal ion binding small molecule binding	developmental process cellular developmental process cell differentiation cellular process cellular response to stimulus regulation of cellular process response to stimulus negative regulation of signaling signaling negative regulation of biological process regulation of signal transduction negative regulation of cell communication cell communication negative regulation of cellular process developmental process cellular developmental process cell differentiation cellular process cellular response to stimulus regulation of cellular process response to stimulus negative regulation of signaling signaling negative regulation of biological process regulation of signal transduction negative regulation of cell communication cell communication negative regulation of cellular process signal transduction regulation of signaling regulation of biological process cell surface receptor signaling pathway negative regulation of response to stimulus biological regulation negative regulation of signal transduction Notch signaling pathway negative regulation of Notch signaling pathway regulation of response to stimulus regulation of Notch signaling pathway regulation of cell communication	cellular anatomical structure membrane intracellular anatomical structure cytoplasm extracellular region extracellular space

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth E], C [auth A]	IPR000472	Activin types I and II receptor domain	Domain
A [auth E], C [auth A]	IPR000719	Protein kinase domain	Domain
A [auth E], C [auth A]	IPR000333	Ser/Thr protein kinase, TGFB receptor	Family
A [auth E], C [auth A]	IPR045860	Snake toxin-like superfamily	Homologous Superfamily
A [auth E], C [auth A]	IPR011009	Protein kinase-like domain superfamily	Homologous Superfamily
A [auth E], C [auth A]	IPR008271	Serine/threonine-protein kinase, active site	Active Site
B [auth D], D [auth B]	IPR001881	EGF-like calcium-binding domain	Domain
B [auth D], D [auth B]	IPR000742	EGF-like domain	Domain
B [auth D], D [auth B]	IPR000152	EGF-type aspartate/asparagine hydroxylation site	PTM
B [auth D], D [auth B]	IPR051022	Notch Signaling and Cell Fate Determination	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A [auth E], C [auth A]	Pharos: Q13705	visceral heterotaxy situs inversus heterotaxy, visceral, 4, autosomal right atrial isomerism subependymal giant cell astrocytoma Asplenia Syndrome interstitial cystitis lung cancer osteosarcoma primitive neuroectodermal tumor situs ambiguus atrial fibrillation large cell medulloblastoma malignant mesothelioma Pick disease visceral heterotaxy situs inversus heterotaxy, visceral, 4, autosomal right atrial isomerism subependymal giant cell astrocytoma Asplenia Syndrome interstitial cystitis lung cancer osteosarcoma primitive neuroectodermal tumor situs ambiguus atrial fibrillation large cell medulloblastoma malignant mesothelioma Pick disease atypical teratoid rhabdoid tumor medulloblastoma
B [auth D], D [auth B]	Pharos: P80370	myelodysplastic syndrome paternal uniparental disomy of chromosome 14 lung carcinoma motor developmental delay due to 14q32.2 paternally expressed gene defect pancreatic intraductal papillary-mucinous neoplasm amyotrophic lateral sclerosis psoriasis breast carcinoma dermatomyositis Fetal Growth Retardation interstitial cystitis large cell medulloblastoma malignant glioma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia pituitary cancer myelodysplastic syndrome paternal uniparental disomy of chromosome 14 lung carcinoma motor developmental delay due to 14q32.2 paternally expressed gene defect pancreatic intraductal papillary-mucinous neoplasm amyotrophic lateral sclerosis psoriasis breast carcinoma dermatomyositis Fetal Growth Retardation interstitial cystitis large cell medulloblastoma malignant glioma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia pituitary cancer atypical teratoid rhabdoid tumor renal cell carcinoma cleft lip Duchenne muscular dystrophy gastrointestinal stromal tumor Hodgkins lymphoma invasive ductal breast carcinoma lung cancer malignant pancreatic neoplasm pancreatic intraductal papillary-mucinous carcinoma primitive neuroectodermal tumor breast cancer type 2 diabetes mellitus congestive heart failure fetal growth restriction glioblastoma idiopathic central precocious puberty juvenile dermatomyositis

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.