6P50

Crystal Structure of a Complex of human IL-7Ralpha with an anti-IL-7Ralpha Fab 4A10

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
IMGT Antibody Annotation
SAbDab Antibody Annotation
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
B [auth H]	d6p50h1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	(Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
B [auth H]	d6p50h2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
C [auth L]	d6p50l2	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	C1 set domains (antibody constant domain-like)	automated matches	(Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
C [auth L]	d6p50l1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	(Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A [auth C]	PF18447	e6p50C1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF18447	ECOD (1.6)
B [auth H]	PF07654	e6p50H2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07654	ECOD (1.6)
B [auth H]	PF07686	e6p50H1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)
C [auth L]	PF07654	e6p50L2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07654	ECOD (1.6)
C [auth L]	PF07686	e6p50L1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07686	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A [auth C]	2.60.40.1870	Mainly Beta	Sandwich	Immunoglobulin-like		CATH (utative)
B [auth H]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)
C [auth L]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)

IMGT Antibody Annotation IMGT Database Homepage

Chain	Protein Name	Description	Organism Name	Gene Allele Name(s)	Domain Name(s)	Receptor Type	Receptor Description	Provenance Source
A [auth C]	IL7R (Interleukin-7 receptor subunit alpha)	2F-DOMAIN	Homo sapiens (human)	IL7R*01	F-LIKE-DOMAIN F-DOMAIN	RPI	2F-DOMAIN	IMGT (202416-0)
B [auth H]	Fab 4A10, anti-IL-7R	VH-CH1	Mus musculus (house mouse)	IGHV1-6902, IGHV1-6901, IGHJ401, IGHG102	V-DOMAIN VH, C-DOMAIN CH1	IG	FAB-GAMMA-1_KAPPA	IMGT (202416-0)
C [auth L]	Fab 4A10, anti-IL-7R	L-KAPPA	Mus musculus (house mouse)	IGKV19-9301, IGKV19-9302, IGKJ501, IGKJ2-301, IGKJ2-101, IGKJ2-201, IGKC03, IGKC01	V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA	IG	FAB-GAMMA-1_KAPPA	IMGT (202416-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
B [auth H]	Heavy Chain	IGHV1	-	interleukin-7 receptor subunit alpha	SAbDab (2024-04-26)
C [auth L]	Light Chain	IGKV19	Kappa	interleukin-7 receptor subunit alpha	SAbDab (2024-04-26)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth C]	PF18447	Fibronectin type III domain (FN3_7)	Fibronectin type III domain	This domain is found in Interleukin-7 receptor subunit alpha (IL-7Ralpha), which together IL-7 form a complex crucial to several signalling cascades leading to the development and homeostasis of T and B cells. IL-7Ralpha carries a 219 residue ectodom ...	This domain is found in Interleukin-7 receptor subunit alpha (IL-7Ralpha), which together IL-7 form a complex crucial to several signalling cascades leading to the development and homeostasis of T and B cells. IL-7Ralpha carries a 219 residue ectodomain on the N-terminal region which is crucial for T and B-cell development. Mutations in the IL-7Ralpha ectodomain inhibits T and B cell development, resulting in patients with a form of severe combined immunodeficiency (SCID). The ectodomain folds into two fibronectin type III (FNIII) domains connected by a 310-helical linker. This entry comprises the first of the two FNIII domains, D1 while D2 domain is Pfam:PF00041. In the D1 domain of IL-7Ralpha, a disulfide bond (C22R-C37R) conserved among cytokine receptor class I (CRH I) family members bridges two beta strands [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth C]	Interleukin-7 receptor subunit alpha	molecular transducer activity transmembrane signaling receptor activity signaling receptor activity interleukin-7 receptor activity cytokine receptor activity immune receptor activity binding antigen binding	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 developmental process immune system development multicellular organism development multicellular organismal process lymph node development immune system process animal organ development anatomical structure development hematopoietic or lymphoid organ development system development immune response regulation of DNA recombination DNA recombination primary metabolic process DNA metabolic process regulation of macromolecule metabolic process nucleic acid metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process organic cyclic compound metabolic process organic substance metabolic process metabolic process macromolecule metabolic process regulation of nucleobase-containing compound metabolic process regulation of metabolic process regulation of DNA metabolic process positive regulation of cell communication cell surface receptor signaling pathway via STAT positive regulation of signal transduction positive regulation of biological process positive regulation of receptor signaling pathway via STAT regulation of signal transduction positive regulation of response to stimulus positive regulation of cellular process regulation of signaling regulation of response to stimulus regulation of cell communication regulation of receptor signaling pathway via STAT positive regulation of signaling cellular biosynthetic process positive regulation of cellular metabolic process positive regulation of macromolecule biosynthetic process positive regulation of metabolic process positive regulation of biosynthetic process organic substance biosynthetic process positive regulation of macromolecule metabolic process regulation of biosynthetic process cellular metabolic process regulation of cellular 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 positive regulation of cellular biosynthetic process cellular component organization regulation of cellular component size cellular component organization or biogenesis regulation of biological quality regulation of cell size regulation of anatomical structure size multicellular organismal-level homeostasis leukocyte homeostasis T cell homeostasis homeostatic process homeostasis of number of cells lymphocyte homeostasis cellular developmental process hemopoiesis cell differentiation cell development B cell homeostasis regulation of leukocyte differentiation regulation of leukocyte activation regulation of cell activation mononuclear cell differentiation regulation of cell differentiation lymphocyte differentiation positive regulation of T cell differentiation regulation of cell development T cell differentiation in thymus positive regulation of developmental process positive regulation of cell activation positive regulation of T cell differentiation in thymus T cell activation positive regulation of leukocyte activation T cell differentiation regulation of immune system process positive regulation of immune system process positive regulation of T cell activation positive regulation of cell development regulation of leukocyte cell-cell adhesion positive regulation of multicellular organismal process leukocyte differentiation regulation of developmental process positive regulation of leukocyte cell-cell adhesion regulation of T cell differentiation in thymus lymphocyte activation leukocyte cell-cell adhesion leukocyte activation positive regulation of cell-cell adhesion regulation of T cell differentiation positive regulation of lymphocyte activation cell adhesion cell-cell adhesion positive regulation of hemopoiesis positive regulation of cell differentiation regulation of multicellular organismal process regulation of cell-cell adhesion regulation of lymphocyte differentiation regulation of multicellular organismal development positive regulation of cell adhesion regulation of cell adhesion cell activation regulation of T cell activation regulation of hemopoiesis positive regulation of leukocyte differentiation positive regulation of lymphocyte differentiation regulation of lymphocyte activation adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains T cell mediated cytotoxicity lymphocyte mediated immunity T cell mediated immunity leukocyte mediated cytotoxicity adaptive immune response immune effector process leukocyte mediated immunity cell killing cell population proliferation positive regulation of cell population proliferation regulation of cell population proliferation B cell activation B cell proliferation leukocyte proliferation mononuclear cell proliferation lymphocyte proliferation regulation of immune effector process negative regulation of biological process negative regulation of lymphocyte mediated immunity regulation of adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains negative regulation of leukocyte mediated cytotoxicity negative regulation of cellular process negative regulation of cell killing regulation of T cell mediated immunity regulation of adaptive immune response negative regulation of response to stimulus negative regulation of immune response negative regulation of T cell mediated cytotoxicity negative regulation of immune effector process regulation of leukocyte mediated cytotoxicity negative regulation of adaptive immune response negative regulation of adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains regulation of leukocyte mediated immunity regulation of T cell mediated cytotoxicity regulation of lymphocyte mediated immunity negative regulation of immune system process regulation of immune response regulation of cell killing negative regulation of leukocyte mediated immunity negative regulation of T cell mediated immunity anatomical structure morphogenesis cell morphogenesis positive regulation of receptor signaling pathway via JAK-STAT regulation of receptor signaling pathway via JAK-STAT cell surface receptor signaling pathway via JAK-STAT regulation of leukocyte apoptotic process regulation of lymphocyte apoptotic process negative regulation of programmed cell death leukocyte apoptotic process regulation of apoptotic process regulation of programmed cell death cell death negative regulation of T cell apoptotic process lymphocyte apoptotic process negative regulation of apoptotic process negative regulation of leukocyte apoptotic process regulation of T cell apoptotic process T cell apoptotic process apoptotic process programmed cell death negative regulation of lymphocyte apoptotic process biological process involved in interspecies interaction between organisms response to other organism defense response defense response to Gram-positive bacterium response to external stimulus response to biotic stimulus defense response to bacterium defense response to other organism response to stress response to bacterium response to external biotic stimulus	cell periphery cell surface membrane plasma membrane cellular anatomical entity external side of plasma membrane side of membrane membrane-bounded organelle intracellular anatomical structure intracellular vesicle intracellular organelle bounding membrane of organelle cytoplasmic vesicle vesicle membrane cell periphery cell surface membrane plasma membrane cellular anatomical entity external side of plasma membrane side of membrane membrane-bounded organelle intracellular anatomical structure intracellular vesicle intracellular organelle bounding membrane of organelle cytoplasmic vesicle vesicle membrane clathrin-coated vesicle endocytic vesicle membrane coated vesicle vesicle endocytic vesicle clathrin-coated vesicle membrane clathrin-coated endocytic vesicle membrane intracellular membrane-bounded organelle clathrin-coated endocytic vesicle cytoplasmic vesicle membrane coated vesicle membrane organelle cytoplasm organelle membrane cytosol nucleus membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen extracellular region
B [auth H]	anti-IL-7R 4A10 Fab heavy chain	-	-	-
C [auth L]	anti-IL-7R 4A10 Fab light chain	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth C]	IPR003531	Short hematopoietin receptor, family 1, conserved site	Conserved Site
A [auth C]	IPR003961	Fibronectin type III	Domain
A [auth C]	IPR040997	IL-7Ralpha, fibronectin type III domain	Domain
A [auth C]	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A [auth C]	IPR036116	Fibronectin type III superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A [auth C]	Pharos: P16871	ulcerative colitis Omenn syndrome primary biliary cholangitis severe combined immunodeficiency, autosomal recessive, T cell-negative, B cell-positive, NK cell-positive multiple sclerosis Precursor T-Cell Lymphoblastic Leukemia-Lymphoma endometriosis atopic eczema severe combined immunodeficiency lung adenocarcinoma malignant glioma non-small cell lung carcinoma ovarian cancer acute myeloid leukemia asthma ulcerative colitis Omenn syndrome primary biliary cholangitis severe combined immunodeficiency, autosomal recessive, T cell-negative, B cell-positive, NK cell-positive multiple sclerosis Precursor T-Cell Lymphoblastic Leukemia-Lymphoma endometriosis atopic eczema severe combined immunodeficiency lung adenocarcinoma malignant glioma non-small cell lung carcinoma ovarian cancer acute myeloid leukemia asthma sarcoidosis B-cell chronic lymphocytic leukemia Sjogren syndrome breast cancer cutaneous lupus erythematosus interstitial cystitis lung cancer malignant mesothelioma multiple sclerosis, susceptibility to, 3 pituitary cancer acute T cell leukemia tuberculosis cancer cystic fibrosis gastric carcinoma lung carcinoma osteosarcoma allergic rhinitis psoriasis autoimmune disease Hashimoto thyroiditis

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.