3V4P

crystal structure of a4b7 headpiece complexed with Fab ACT-1

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)
E [auth H]	d3v4ph1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
E [auth H]	d3v4ph2	Artifacts	Tags	Tags	Tags	N-terminal Tags	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
G [auth M]	d3v4pm1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
G [auth M]	d3v4pm2	Artifacts	Tags	Tags	Tags	N-terminal Tags	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
H [auth N]	d3v4pn1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
H [auth N]	d3v4pn2	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
F [auth L]	d3v4pl1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
F [auth L]	d3v4pl2	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	mouse (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	Integrin_alpha2_1st	e3v4pA2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Integrin_alpha2_1st	ECOD (1.6)
A	FG-GAP_1st	e3v4pA1	A: beta duplicates or obligate multimers	X: beta-propeller-like	H: beta-propeller	T: 7-bladed	F: FG-GAP_1st	ECOD (1.6)
C	Integrin_alpha2_1st	e3v4pC1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Integrin_alpha2_1st	ECOD (1.6)
C	FG-GAP_1st	e3v4pC2	A: beta duplicates or obligate multimers	X: beta-propeller-like	H: beta-propeller	T: 7-bladed	F: FG-GAP_1st	ECOD (1.6)
D	INB	e3v4pD1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: INB	ECOD (1.6)
D	Integrin_beta	e3v4pD2	A: a/b three-layered sandwiches	X: HAD domain-like	H: HAD domain-related	T: vWA-like	F: Integrin_beta	ECOD (1.6)
B	INB	e3v4pB1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: INB	ECOD (1.6)
B	Integrin_beta	e3v4pB2	A: a/b three-layered sandwiches	X: HAD domain-like	H: HAD domain-related	T: vWA-like	F: Integrin_beta	ECOD (1.6)
E [auth H]	V-set_8	e3v4pH1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_8	ECOD (1.6)
E [auth H]	C1-set_1	e3v4pH2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_1	ECOD (1.6)
G [auth M]	V-set_8	e3v4pM1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_8	ECOD (1.6)
G [auth M]	C1-set_1	e3v4pM3	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_1	ECOD (1.6)
H [auth N]	C1-set_4	e3v4pN2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_4	ECOD (1.6)
H [auth N]	V-set	e3v4pN1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set	ECOD (1.6)
F [auth L]	C1-set_4	e3v4pL2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_4	ECOD (1.6)
F [auth L]	V-set	e3v4pL1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.130.10.130	Mainly Beta	7 Propeller	Methylamine Dehydrogenase	Chain H	CATH (4.3.0)
A	2.60.40.1460	Mainly Beta	Sandwich	Immunoglobulin-like	Integrin domains. Chain A, domain 2	CATH (4.3.0)
C	2.130.10.130	Mainly Beta	7 Propeller	Methylamine Dehydrogenase	Chain H	CATH (4.3.0)
C	2.60.40.1460	Mainly Beta	Sandwich	Immunoglobulin-like	Integrin domains. Chain A, domain 2	CATH (4.3.0)
D	2.60.40.1510	Mainly Beta	Sandwich	Immunoglobulin-like	ntegrin, alpha v. Chain A, domain 3	CATH (4.3.0)
D	3.40.50.410	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	von Willebrand factor, type A domain	CATH (4.3.0)
B	2.60.40.1510	Mainly Beta	Sandwich	Immunoglobulin-like	ntegrin, alpha v. Chain A, domain 3	CATH (4.3.0)
B	3.40.50.410	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	von Willebrand factor, type A domain	CATH (4.3.0)
E [auth H]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
G [auth M]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
H [auth N]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
F [auth L]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)

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
E [auth H], G [auth M]	Fab Act-1 mAb, anti-ITGA4_ITGB7 (integrin alpha4_beta7)	VH-CH1	Mus musculus (house mouse)	IGHV1-6902, IGHJ401, IGHG1*01	V-DOMAIN VH, C-DOMAIN CH1	IG	FAB-GAMMA-1_KAPPA	IMGT (202439-0)
F [auth L], H [auth N]	Fab Act-1 mAb, anti-ITGA4_ITGB7 (integrin alpha4_beta7)	L-KAPPA	Mus musculus (house mouse)	IGKV1-8801, IGKJ201, IGKC01, IGKC02	V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA	IG	FAB-GAMMA-1_KAPPA	IMGT (202439-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
E [auth H], G [auth M]	Heavy Chain	IGHV1	-	integrin beta-7 \| integrin alpha-4	SAbDab (2024-10-04)
F [auth L], H [auth N]	Light Chain	IGKV1	Kappa	integrin beta-7 \| integrin alpha-4	SAbDab (2024-10-04)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, C	PF01839	FG-GAP repeat (FG-GAP)	FG-GAP repeat	-	Repeat
A, C	PF08441	Integrin alpha Ig-like domain 1 (Integrin_A_Ig_1)	Integrin alpha Ig-like domain 1	This domain is found in integrin alpha and integrin alpha precursors to the C terminus of a number of Pfam:PF01839 repeats and to the N-terminus of the Pfam:PF00357 cytoplasmic region. This region is composed of an immunoglobulin-like domain.	Domain
B, D	PF00362	Integrin beta chain VWA domain (Integrin_beta)	Integrin beta chain VWA domain	Integrins have been found in animals and their homologues have also been found in cyanobacteria, probably due to horizontal gene transfer [1]. This domain corresponds to the integrin beta VWA domain.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, C	Integrin alpha-4	protein antigen binding protein binding binding antigen binding molecular transducer activity coreceptor activity signaling receptor activity fibronectin binding cation binding ion binding metal ion binding small molecule binding cell adhesion molecule binding protein-containing complex binding protein antigen binding protein binding binding antigen binding molecular transducer activity coreceptor activity signaling receptor activity fibronectin binding cation binding ion binding metal ion binding small molecule binding cell adhesion molecule binding protein-containing complex binding integrin binding signaling receptor binding	leukocyte tethering or rolling leukocyte cell-cell adhesion leukocyte migration cell adhesion cell-cell adhesion immune system process leukocyte adhesion to vascular endothelial cell cellular extravasation cell migration cellular process cell motility regulation of tube diameter multicellular organismal process regulation of biological process leukocyte tethering or rolling leukocyte cell-cell adhesion leukocyte migration cell adhesion cell-cell adhesion immune system process leukocyte adhesion to vascular endothelial cell cellular extravasation cell migration cellular process cell motility regulation of tube diameter multicellular organismal process regulation of biological process system process regulation of tube size regulation of system process negative regulation of biological process biological regulation negative regulation of vasoconstriction circulatory system process regulation of blood circulation vascular process in circulatory system regulation of vasoconstriction regulation of multicellular organismal process blood vessel diameter maintenance regulation of biological quality negative regulation of multicellular organismal process vasoconstriction blood circulation regulation of anatomical structure size substrate adhesion-dependent cell spreading cell-substrate adhesion immune response in gut-associated lymphoid tissue response to stimulus immune response cell population proliferation regulation of cellular process positive regulation of cell population proliferation endothelial cell proliferation positive regulation of epithelial cell proliferation positive regulation of biological process regulation of vascular endothelial cell proliferation regulation of endothelial cell proliferation regulation of cell population proliferation positive regulation of endothelial cell proliferation vascular endothelial cell proliferation regulation of epithelial cell proliferation epithelial cell proliferation positive regulation of vascular endothelial cell proliferation positive regulation of cellular process positive regulation of locomotion regulation of cell motility regulation of lymphocyte migration positive regulation of cell migration positive regulation of cell motility regulation of cell migration positive regulation of mononuclear cell migration regulation of immune system process regulation of mononuclear cell migration positive regulation of immune system process locomotion positive regulation of lymphocyte migration regulation of leukocyte migration positive regulation of T cell migration lymphocyte migration positive regulation of leukocyte migration regulation of locomotion regulation of T cell migration mononuclear cell migration T cell migration heterotypic cell-cell adhesion protein localization localization cellular localization receptor clustering cellular macromolecule localization macromolecule localization localization within membrane protein localization to membrane cell-cell adhesion mediated by integrin cell adhesion mediated by integrin cell-matrix adhesion ameboidal-type cell migration cell-matrix adhesion involved in ameboidal cell migration regulation of protein binding regulation of molecular function negative regulation of protein binding regulation of protein homodimerization activity regulation of binding negative regulation of binding negative regulation of molecular function negative regulation of protein homodimerization activity developmental process cellular developmental process hemopoiesis B cell activation cell activation cell development mononuclear cell differentiation lymphocyte differentiation lymphocyte activation leukocyte activation B cell differentiation cell differentiation anatomical structure development leukocyte differentiation diapedesis formation of primary germ layer embryonic morphogenesis tissue development embryo development gastrulation anatomical structure morphogenesis multicellular organism development endoderm development anatomical structure formation involved in morphogenesis endoderm formation endodermal cell differentiation cellular response to stimulus integrin-mediated signaling pathway cell surface receptor signaling pathway signaling cell communication signal transduction developmental growth cell projection organization plasma membrane bounded cell projection morphogenesis neuron projection development cell growth cell morphogenesis cellular component organization neurogenesis cell projection morphogenesis neuron differentiation neuron projection morphogenesis cellular component organization or biogenesis system development neuron projection extension plasma membrane bounded cell projection organization developmental cell growth growth nervous system development developmental growth involved in morphogenesis generation of neurons neuron development positive regulation of leukocyte cell-cell adhesion regulation of leukocyte adhesion to vascular endothelial cell positive regulation of cell-cell adhesion positive regulation of leukocyte tethering or rolling regulation of cell-cell adhesion positive regulation of cell adhesion regulation of cell adhesion positive regulation of leukocyte adhesion to vascular endothelial cell regulation of leukocyte tethering or rolling regulation of leukocyte cell-cell adhesion regulation of cellular extravasation positive regulation of endothelial cell apoptotic process positive regulation of programmed cell death regulation of apoptotic process regulation of programmed cell death cell death positive regulation of apoptotic process endothelial cell apoptotic process apoptotic process programmed cell death regulation of endothelial cell apoptotic process axonogenesis innervation nerve development axon development cell morphogenesis involved in neuron differentiation axonogenesis involved in innervation vesicle localization establishment of organelle localization import into cell transport establishment of vesicle localization clathrin-dependent extracellular exosome endocytosis establishment of localization vesicle-mediated transport organelle localization establishment of localization in cell clathrin-dependent endocytosis receptor-mediated endocytosis endocytosis cellular response to nitrogen compound response to oxygen-containing compound response to nitrogen compound cellular response to amyloid-beta cellular response to oxygen-containing compound cellular response to chemical stimulus response to chemical response to amyloid-beta response to peptide response to cytokine cellular response to cytokine stimulus	cell periphery cell surface membrane plasma membrane cellular anatomical entity external side of plasma membrane side of membrane extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space cell periphery cell surface membrane plasma membrane cellular anatomical entity external side of plasma membrane side of membrane extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle somatodendritic compartment cell body neuronal cell body anchoring junction cell junction focal adhesion cell-substrate junction integrin alpha4-beta1 complex protein-containing complex plasma membrane protein complex membrane protein complex receptor complex integrin complex plasma membrane signaling receptor complex protein complex involved in cell adhesion integrin alpha4-beta7 complex growth cone axon cell projection distal axon neuron projection plasma membrane bounded cell projection site of polarized growth
B, D	Integrin beta-7	protein binding binding virus receptor activity exogenous protein binding cell adhesion molecule binding protein-containing complex binding integrin binding signaling receptor binding cation binding ion binding metal ion binding small molecule binding	leukocyte tethering or rolling leukocyte cell-cell adhesion leukocyte migration cell adhesion cell-cell adhesion immune system process leukocyte adhesion to vascular endothelial cell cellular extravasation cell migration cellular process cell motility cell-matrix adhesion cell-substrate adhesion ameboidal-type cell migration leukocyte tethering or rolling leukocyte cell-cell adhesion leukocyte migration cell adhesion cell-cell adhesion immune system process leukocyte adhesion to vascular endothelial cell cellular extravasation cell migration cellular process cell motility cell-matrix adhesion cell-substrate adhesion ameboidal-type cell migration cell-matrix adhesion involved in ameboidal cell migration substrate adhesion-dependent cell spreading mononuclear cell migration lymphocyte migration T cell migration cellular response to stimulus regulation of biological process integrin-mediated signaling pathway regulation of cellular process cell surface receptor signaling pathway response to stimulus signaling biological regulation cell communication signal transduction immune response in gut-associated lymphoid tissue immune response heterotypic cell-cell adhesion protein localization localization cellular localization receptor clustering cellular macromolecule localization macromolecule localization localization within membrane protein localization to membrane	anchoring junction cell junction cellular anatomical entity focal adhesion cell-substrate junction membrane extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space vesicle anchoring junction cell junction cellular anatomical entity focal adhesion cell-substrate junction membrane extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle cell surface protein-containing complex plasma membrane protein complex plasma membrane membrane protein complex receptor complex cell periphery integrin complex plasma membrane signaling receptor complex protein complex involved in cell adhesion integrin alpha4-beta7 complex
E [auth H], G [auth M]	MONOCLONAL ANTIBODY Act-1 HEAVY CHAIN	-	-	-
F [auth L], H [auth N]	MONOCLONAL ANTIBODY Act-1 LIGHT CHAIN	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, C	IPR013517	FG-GAP repeat	Repeat
A, C	IPR048286	Integrin alpha, third immunoglobulin-like domain	Domain
A, C	IPR013649	Integrin alpha, first immunoglubulin-like domain	Domain
A, C	IPR048285	Integrin alpha, second immunoglobulin-like domain	Domain
A, C	IPR032695	Integrin domain superfamily	Homologous Superfamily
A, C	IPR013519	Integrin alpha beta-propellor	Repeat
A, C	IPR000413	Integrin alpha chain	Family
A, C	IPR028994	Integrin alpha, N-terminal	Homologous Superfamily
A, C	IPR018184	Integrin alpha chain, C-terminal cytoplasmic region, conserved site	Conserved Site
B, D	IPR033760	Integrin beta N-terminal	Domain
B, D	IPR013111	EGF-like domain, extracellular	Domain
B, D	IPR015812	Integrin beta subunit	Family
B, D	IPR036349	Integrin beta tail domain superfamily	Homologous Superfamily
B, D	IPR002369	Integrin beta subunit, VWA domain	Domain
B, D	IPR014836	Integrin beta subunit, cytoplasmic domain	Domain
B, D	IPR016201	PSI domain	Domain
B, D	IPR012896	Integrin beta subunit, tail	Domain
B, D	IPR036465	von Willebrand factor A-like domain superfamily	Homologous Superfamily
B, D	IPR032695	Integrin domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, C	Pharos: P13612	B-cell chronic lymphocytic leukemia inflammatory bowel disease ulcerative colitis Gliosis medulloblastoma pituitary cancer cutaneous lupus erythematosus intellectual disability large cell medulloblastoma malignant glioma multiple sclerosis Sjogren syndrome atypical teratoid rhabdoid tumor cystic fibrosis IgA glomerulonephritis B-cell chronic lymphocytic leukemia inflammatory bowel disease ulcerative colitis Gliosis medulloblastoma pituitary cancer cutaneous lupus erythematosus intellectual disability large cell medulloblastoma malignant glioma multiple sclerosis Sjogren syndrome atypical teratoid rhabdoid tumor cystic fibrosis IgA glomerulonephritis interstitial cystitis lung cancer malignant mesothelioma pilocytic astrocytoma tuberculosis autism Crohn disease glioblastoma invasive ductal breast carcinoma lung carcinoma
B, D	Pharos: P26010	Crohn disease osteosarcoma interstitial cystitis ulcerative colitis multiple sclerosis

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.