2Q7N

Crystal structure of Leukemia inhibitory factor in complex with LIF receptor (domains 1-5)

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
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

Domain Annotation: SCOP/SCOPe Classification SCOP Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
B	d2q7nb1	All alpha proteins	4-helical cytokines	4-helical cytokines	Long-chain cytokines	Leukemia inhibitory factor (LIF)	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
D	d2q7nd1	All alpha proteins	4-helical cytokines	4-helical cytokines	Long-chain cytokines	Leukemia inhibitory factor (LIF)	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	4-helical cytokines	8039173	3001717	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	4-helical cytokines	8039173	3001717	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	IL6Ra-bind	e2q7nA10	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: IL6Ra-bind	ECOD (1.6)
A	EUF07685	e2q7nA11	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: EUF07685	ECOD (1.6)
A	fn3_6	e2q7nA1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: fn3_6	ECOD (1.6)
A	Lep_receptor_Ig_like	e2q7nA12	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Lep_receptor_Ig_like	ECOD (1.6)
A	EUF07718	e2q7nA13	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: EUF07718	ECOD (1.6)
C	IL6Ra-bind	e2q7nC18	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: IL6Ra-bind	ECOD (1.6)
C	EUF07685	e2q7nC21	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: EUF07685	ECOD (1.6)
C	fn3_6	e2q7nC19	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: fn3_6	ECOD (1.6)
C	Lep_receptor_Ig_like	e2q7nC5	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Lep_receptor_Ig_like	ECOD (1.6)
C	EUF07718	e2q7nC20	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: EUF07718	ECOD (1.6)
B	LIF_OSM	e2q7nB1	A: alpha bundles	X: Ferritin/Heme oxygenase/4-helical cytokines	H: 4-helical cytokines (From Topology)	T: 4-helical cytokines	F: LIF_OSM	ECOD (1.6)
D	LIF_OSM	e2q7nD1	A: alpha bundles	X: Ferritin/Heme oxygenase/4-helical cytokines	H: 4-helical cytokines (From Topology)	T: 4-helical cytokines	F: LIF_OSM	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
C	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
B	1.20.1250.10	Mainly Alpha	Up-down Bundle	Growth Hormone	Chain: A	CATH (4.3.0)
D	1.20.1250.10	Mainly Alpha	Up-down Bundle	Growth Hormone	Chain: A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, C	PF21177	Leukemia inhibitory factor receptor, Ig-like domain (LIF-R_Ig-like)	Leukemia inhibitory factor receptor, Ig-like domain	This domain is found in Leukemia inhibitory factor receptor from mouse (LIF-R) and similar proteins from animals. LIF-R binds a cytokine that acts on many cell types including embryonic stem cells, megakaryocytes, osteoblasts, and neuronal cells. The ...	This domain is found in Leukemia inhibitory factor receptor from mouse (LIF-R) and similar proteins from animals. LIF-R binds a cytokine that acts on many cell types including embryonic stem cells, megakaryocytes, osteoblasts, and neuronal cells. The extracellular region of this protein shows a modular structure with two cytokine-binding modules (CBM, with Pfam:PF17971 representing the second subdomain of CBM1, D2) separated by an Ig-like domain (this entry) and followed by three membrane- proximal fibronectin type-III (FNIII) domains (Pfam:PF00041) This domain interacts directly with site 3 of Cilliary Neutrophic Factor (CNTF) [1,2].	Domain
A, C	PF17971	Leukemia inhibitory factor receptor D2 domain (LIFR_D2)	Leukemia inhibitory factor receptor D2 domain	This is the D2 domain in cytokine-binding module 1 (CBM1) found in Leukemia inhibitory factor receptor (LIFR) and OSM receptors (OSMR). LIFR has an extracellular region with a modular structure containing two cytokine-binding modules (CBM) separated ...	This is the D2 domain in cytokine-binding module 1 (CBM1) found in Leukemia inhibitory factor receptor (LIFR) and OSM receptors (OSMR). LIFR has an extracellular region with a modular structure containing two cytokine-binding modules (CBM) separated by an Ig-like domain and followed by three membrane-proximal fibronectin type-III (FNIII) domains. The D2 domain in CBM1 shows structural similarity to the corresponding CBM domains of both gp130 and IL-6Ralpha because it contains conserved structural features like the WSXWS motif [1] [2]. The WSXWS motif in cytokine receptors is a molecular switch involved in receptor activation [3].	Domain
A, C	PF00041	Fibronectin type III domain (fn3)	Fibronectin type III domain	-	Domain
A, C	PF18207	Leukemia inhibitory factor receptor N-terminal domain (LIFR_N)	Leukemia inhibitory factor receptor N-terminal domain	This domain can be found in leukemia inhibitory factor receptor (LIFR). LIFR is a cell surface receptor that mediates the actions of LIF and other interleukin-6 type cytokines through the formation of signalling complexes with gp130. This is the N-te ...	This domain can be found in leukemia inhibitory factor receptor (LIFR). LIFR is a cell surface receptor that mediates the actions of LIF and other interleukin-6 type cytokines through the formation of signalling complexes with gp130. This is the N-terminal domain, referred to as domain 1, which contains conserved disulfide bonds between Cys-10 to Cys-20 and Cys-37 to Cys-45 [1].	Domain
B, D	PF01291	LIF / OSM family (LIF_OSM)	LIF / OSM family	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, C	Leukemia inhibitory factor receptor	ciliary neurotrophic factor receptor binding protein binding binding signaling receptor binding cytokine receptor binding oncostatin-M receptor activity molecular transducer activity transmembrane signaling receptor activity signaling receptor activity cytokine receptor activity immune receptor activity growth factor binding cytokine binding leukemia inhibitory factor receptor activity ciliary neurotrophic factor receptor binding protein binding binding signaling receptor binding cytokine receptor binding oncostatin-M receptor activity molecular transducer activity transmembrane signaling receptor activity signaling receptor activity cytokine receptor activity immune receptor activity growth factor binding cytokine binding leukemia inhibitory factor receptor activity ciliary neurotrophic factor receptor activity	cellular response to stimulus response to organic substance regulation of biological process regulation of cellular process response to stimulus cell surface receptor signaling pathway signaling biological regulation response to cytokine cytokine-mediated signaling pathway cell communication cellular response to chemical stimulus response to chemical cellular response to cytokine stimulus cellular response to stimulus response to organic substance regulation of biological process regulation of cellular process response to stimulus cell surface receptor signaling pathway signaling biological regulation response to cytokine cytokine-mediated signaling pathway cell communication cellular response to chemical stimulus response to chemical cellular response to cytokine stimulus cellular process cellular response to organic substance signal transduction ciliary neurotrophic factor-mediated signaling pathway multicellular organismal process cellular developmental process cell projection organization plasma membrane bounded cell projection morphogenesis cell development neuron projection development cell morphogenesis cellular component organization neurogenesis multicellular organism development cell projection morphogenesis neuron differentiation neuron projection morphogenesis cell differentiation anatomical structure development cellular component organization or biogenesis system development developmental process plasma membrane bounded cell projection organization nervous system development generation of neurons anatomical structure morphogenesis neuron development cell population proliferation positive regulation of cell population proliferation regulation of cell population proliferation positive regulation of biological process positive regulation of cellular process leukemia inhibitory factor signaling pathway enzyme-linked receptor protein signaling pathway muscle cell apoptotic process negative regulation of programmed cell death regulation of apoptotic process negative regulation of biological process regulation of muscle cell apoptotic process regulation of programmed cell death cell death negative regulation of apoptotic process negative regulation of muscle cell apoptotic process negative regulation of cellular process apoptotic process programmed cell death animal organ regeneration animal organ development regeneration oncostatin-M-mediated signaling pathway	cell periphery cell surface membrane plasma membrane cellular anatomical entity external side of plasma membrane side of membrane protein-containing complex receptor complex extracellular region
B, D	Leukemia inhibitory factor	protein binding binding molecular function activator activity signaling receptor binding molecular function regulator activity signaling receptor regulator activity growth factor activity receptor ligand activity signaling receptor activator activity cytokine activity cytokine receptor binding leukemia inhibitory factor receptor binding	regulation of cellular process cellular biosynthetic process positive regulation of biological process positive regulation of cellular metabolic process positive regulation of macromolecule biosynthetic process positive regulation of metabolic process organic substance metabolic process positive regulation of biosynthetic process organic substance biosynthetic process positive regulation of macromolecule metabolic process positive regulation of cellular process regulation of biosynthetic process regulation of biological process cellular metabolic process regulation of cellular process cellular biosynthetic process positive regulation of biological process positive regulation of cellular metabolic process positive regulation of macromolecule biosynthetic process positive regulation of metabolic process organic substance metabolic process positive regulation of biosynthetic process organic substance biosynthetic process positive regulation of macromolecule metabolic process positive regulation of cellular process regulation of biosynthetic process regulation of biological process cellular metabolic process biological regulation regulation of cellular metabolic process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process regulation of cellular biosynthetic process regulation of gene expression biosynthetic process positive regulation of gene expression regulation of macromolecule biosynthetic process metabolic process cellular process macromolecule metabolic process regulation of metabolic process positive regulation of cellular biosynthetic process developmental process cell differentiation involved in embryonic placenta development multicellular organismal process cellular developmental process placenta development reproductive process chordate embryonic development animal organ development developmental process involved in reproduction embryo development tissue development in utero embryonic development spongiotrophoblast differentiation multicellular organism development embryonic placenta development embryo development ending in birth or egg hatching cell differentiation anatomical structure development spongiotrophoblast layer development embryonic organ development positive regulation of phosphorylation regulation of protein modification process regulation of protein phosphorylation positive regulation of protein metabolic process regulation of peptidyl-serine phosphorylation positive regulation of phosphate metabolic process peptidyl-serine modification regulation of primary metabolic process regulation of nitrogen compound metabolic process positive regulation of protein modification process peptidyl-serine phosphorylation regulation of phosphate metabolic process phosphate-containing compound metabolic process peptidyl-amino acid modification nitrogen compound metabolic process protein metabolic process positive regulation of protein phosphorylation phosphorus metabolic process protein modification process organonitrogen compound metabolic process protein phosphorylation positive regulation of phosphorus metabolic process phosphorylation regulation of protein metabolic process primary metabolic process positive regulation of peptidyl-serine phosphorylation positive regulation of nitrogen compound metabolic process macromolecule modification regulation of phosphorus metabolic process regulation of phosphorylation cellular response to stimulus response to stimulus signaling negative regulation of signaling negative regulation of intracellular signal transduction negative regulation of biological process regulation of signal transduction intracellular signal transduction negative regulation of cell communication cell communication regulation of intracellular signal transduction intracellular signaling cassette negative regulation of cellular process signal transduction regulation of signaling negative regulation of response to stimulus regulation of MAPK cascade negative regulation of signal transduction negative regulation of ERK1 and ERK2 cascade regulation of response to stimulus MAPK cascade regulation of cell communication ERK1 and ERK2 cascade regulation of ERK1 and ERK2 cascade negative regulation of MAPK cascade cell surface receptor signaling pathway via STAT cell surface receptor signaling pathway leukemia inhibitory factor signaling pathway enzyme-linked receptor protein signaling pathway fibroblast proliferation cell population proliferation muscle structure development anatomical structure morphogenesis animal organ morphogenesis muscle organ development muscle organ morphogenesis cell morphogenesis response to decreased oxygen levels response to hypoxia response to stress response to oxygen levels response to abiotic stimulus sexual reproduction organelle fission meiotic cell cycle meiotic cell cycle process cellular component organization nuclear division organelle organization meiotic nuclear division cellular component organization or biogenesis cell cycle cell cycle process kidney epithelium development renal vesicle morphogenesis regulation of cell differentiation epithelial cell differentiation regulation of epithelial cell differentiation positive regulation of developmental process metanephros development metanephros morphogenesis regulation of epithelial cell differentiation involved in kidney development nephron development system development epithelium development positive regulation of epithelial cell differentiation regulation of developmental process nephron morphogenesis nephron epithelium morphogenesis regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis metanephric renal vesicle morphogenesis renal vesicle development renal system development positive regulation of epithelial cell differentiation involved in kidney development positive regulation of cell differentiation positive regulation of morphogenesis of an epithelium regulation of morphogenesis of an epithelium regulation of multicellular organismal process metanephric nephron development regulation of anatomical structure morphogenesis mesenchymal to epithelial transition involved in metanephros morphogenesis epithelial cell differentiation involved in kidney development nephron epithelium development regulation of multicellular organismal development morphogenesis of an epithelium mesenchymal to epithelial transition positive regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis metanephric nephron morphogenesis cell differentiation involved in metanephros development tissue morphogenesis kidney morphogenesis cell differentiation involved in kidney development kidney development myeloid leukocyte differentiation regulation of leukocyte differentiation cell development mononuclear cell differentiation regulation of cell development positive regulation of hemopoiesis regulation of immune system process regulation of macrophage differentiation positive regulation of immune system process hemopoiesis regulation of myeloid cell differentiation positive regulation of cell development macrophage differentiation regulation of myeloid leukocyte differentiation positive regulation of myeloid leukocyte differentiation positive regulation of macrophage differentiation myeloid cell differentiation immune system process positive regulation of myeloid cell differentiation regulation of hemopoiesis positive regulation of multicellular organismal process positive regulation of leukocyte differentiation leukocyte differentiation somatic stem cell population maintenance maintenance of cell number stem cell population maintenance nucleobase-containing compound metabolic process DNA-templated transcription regulation of RNA metabolic process transcription by RNA polymerase II heterocycle metabolic process regulation of nucleobase-containing compound metabolic process regulation of transcription by RNA polymerase II positive regulation of nucleobase-containing compound metabolic process cellular nitrogen compound metabolic process positive regulation of transcription by RNA polymerase II positive regulation of RNA metabolic process organic cyclic compound metabolic process aromatic compound biosynthetic process organic cyclic compound biosynthetic process regulation of DNA-templated transcription positive regulation of DNA-templated transcription RNA metabolic process RNA biosynthetic process nucleic acid biosynthetic process regulation of RNA biosynthetic process nucleobase-containing compound biosynthetic process heterocycle biosynthetic process nucleic acid metabolic process positive regulation of RNA biosynthetic process cellular aromatic compound metabolic process tube development lung lobe morphogenesis respiratory tube development lung lobe development lung development respiratory system development lung morphogenesis immune response positive regulation of cell population proliferation regulation of fibroblast proliferation regulation of cell population proliferation positive regulation of fibroblast proliferation metanephric nephron tubule epithelial cell differentiation metanephric epithelium development nephron tubule development renal tubule development regulation of nephron tubule epithelial cell differentiation regulation of metanephric nephron tubule epithelial cell differentiation metanephric nephron epithelium development metanephric nephron tubule development nephron tubule epithelial cell differentiation metanephric tubule development regulation of localization regulation of hormone secretion transport negative regulation of transport hormone secretion localization negative regulation of secretion regulation of secretion by cell secretion by cell signal release negative regulation of hormone secretion negative regulation of secretion by cell regulation of biological quality regulation of transport secretion regulation of hormone levels export from cell cell-cell signaling establishment of localization regulation of secretion hormone transport trophoblast giant cell differentiation multi-multicellular organism process female pregnancy embryo implantation multi-organism reproductive process positive regulation of cell adhesion mediated by integrin positive regulation of cell adhesion regulation of cell adhesion mediated by integrin regulation of cell adhesion cell adhesion cell adhesion mediated by integrin positive regulation of cell communication positive regulation of signal transduction positive regulation of response to stimulus positive regulation of MAPK cascade positive regulation of intracellular signal transduction positive regulation of signaling blood vessel remodeling tissue remodeling negative regulation of cell population proliferation maternal process involved in female pregnancy multicellular organismal reproductive process maternal placenta development decidualization tyrosine phosphorylation of STAT protein peptidyl-tyrosine modification positive regulation of peptidyl-tyrosine phosphorylation regulation of tyrosine phosphorylation of STAT protein regulation of peptidyl-tyrosine phosphorylation positive regulation of tyrosine phosphorylation of STAT protein peptidyl-tyrosine phosphorylation cell surface receptor signaling pathway via JAK-STAT regulation of cellular component organization regulation of reproductive process negative regulation of cell cycle regulation of cell cycle negative regulation of meiotic nuclear division regulation of meiotic cell cycle negative regulation of cellular component organization regulation of cell cycle process negative regulation of cell cycle process regulation of organelle organization regulation of meiotic nuclear division negative regulation of nuclear division negative regulation of organelle organization negative regulation of reproductive process regulation of nuclear division negative regulation of meiotic cell cycle stem cell differentiation vasculature development circulatory system development lung vasculature development nervous system development generation of neurons neurogenesis neuron differentiation neuron development lung alveolus development positive regulation of nervous system development astrocyte differentiation regulation of neurogenesis regulation of gliogenesis regulation of astrocyte differentiation positive regulation of gliogenesis regulation of nervous system development gliogenesis positive regulation of neurogenesis positive regulation of astrocyte differentiation regulation of glial cell differentiation positive regulation of glial cell differentiation central nervous system development glial cell differentiation regulation of receptor signaling pathway via JAK-STAT positive regulation of peptidyl-serine phosphorylation of STAT protein serine phosphorylation of STAT protein regulation of receptor signaling pathway via STAT regulation of peptidyl-serine phosphorylation of STAT protein	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol extracellular region extracellular space

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, C	IPR040817	Leukemia inhibitory factor receptor, D2 domain	Domain
A, C	IPR003529	Long hematopoietin receptor, Gp130 family 2, conserved site	Conserved Site
A, C	IPR048497	Leukemia inhibitory factor receptor-like, Ig-like domain	Domain
A, C	IPR003961	Fibronectin type III	Domain
A, C	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A, C	IPR040901	Leukemia inhibitory factor receptor, N-terminal	Domain
A, C	IPR036116	Fibronectin type III superfamily	Homologous Superfamily
B, D	IPR001581	Leukemia inhibitory factor /oncostatin	Family
B, D	IPR019827	Leukemia inhibitory factor /oncostatin, conserved site	Conserved Site
B, D	IPR009079	Four-helical cytokine-like, core	Homologous Superfamily
B, D	IPR003624	Leukemia inhibitory factor	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B, D	Pharos: P15018	polycystic ovary syndrome Cardiomegaly female infertility non-alcoholic fatty liver disease malignant ependymoma malignant pancreatic neoplasm pilocytic astrocytoma psoriasis sinusitis subependymal giant cell astrocytoma depressive disorder glioblastoma interstitial cystitis malignant glioma pancreatic ductal adenocarcinoma polycystic ovary syndrome Cardiomegaly female infertility non-alcoholic fatty liver disease malignant ependymoma malignant pancreatic neoplasm pilocytic astrocytoma psoriasis sinusitis subependymal giant cell astrocytoma depressive disorder glioblastoma interstitial cystitis malignant glioma pancreatic ductal adenocarcinoma pituitary cancer rheumatoid arthritis breast cancer Crohn disease heart disease lung cancer malignant mesothelioma pancreatic intraductal papillary-mucinous neoplasm atypical teratoid rhabdoid tumor delirium IgA glomerulonephritis

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.