6MVL

Crystal structure of VISTA bound to a pH-selective antibody Fab fragment

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]	d6mvlh_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C [auth L]	d6mvll1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C [auth L]	d6mvll2	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	C1 set domains (antibody constant domain-like)	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	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	I-set_7	e6mvlA1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: I-set_7	ECOD (1.6)
B [auth H]	C1-set_1	e6mvlH2	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)
B [auth H]	V-set_12	e6mvlH1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_12	ECOD (1.6)
C [auth L]	C1-set_4	e6mvlL2	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)
C [auth L]	V-set	e6mvlL1	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)
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	VSIR (V-type immunoglobulin domain-containing suppressor of	1V-LIKE	Homo sapiens (human)	VSIR*01	V-LIKE-DOMAIN V-LIKE	RPI	1V-LIKE	IMGT (202415-0)
B [auth H]	Antibody Fab Fragment	VH-CH1	Homo sapiens (human)	IGHV3-901, IGHV3-902, IGHJ101, IGHG103, IGHG108, IGHG106	V-DOMAIN VH, C-DOMAIN CH1	IG	FAB-GAMMA-1_KAPPA	IMGT (202415-0)
C [auth L]	Antibody Fab Fragment	L-KAPPA	Homo sapiens (human)	IGKV3-2001, IGKJ301, IGKC*01	V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA	IG	FAB-GAMMA-1_KAPPA	IMGT (202415-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
B [auth H]	Heavy Chain	IGHV3	-	v-type immunoglobulin domain-containing suppressor of t-cell activation	SAbDab (2024-04-19)
C [auth L]	Light Chain	IGKV3	Kappa	v-type immunoglobulin domain-containing suppressor of t-cell activation	SAbDab (2024-04-19)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF07686	Immunoglobulin V-set domain (V-set)	Immunoglobulin V-set domain	This domain is found in antibodies as well as neural protein P0 and CTL4 amongst others.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	V-type immunoglobulin domain-containing suppressor of T-cell activation	endopeptidase activator activity enzyme regulator activity enzyme activator activity peptidase regulator activity molecular function activator activity molecular function regulator activity peptidase activator activity endopeptidase regulator activity protein binding binding enzyme binding identical protein binding	multicellular organismal process regulation of cellular process regulation of alpha-beta T cell activation regulation of leukocyte activation negative regulation of biological process regulation of cell activation lymphocyte activation negative regulation of lymphocyte activation leukocyte cell-cell adhesion negative regulation of cell adhesion leukocyte activation cell adhesion cell-cell adhesion T cell activation negative regulation of cellular process multicellular organismal process regulation of cellular process regulation of alpha-beta T cell activation regulation of leukocyte activation negative regulation of biological process regulation of cell activation lymphocyte activation negative regulation of lymphocyte activation leukocyte cell-cell adhesion negative regulation of cell adhesion leukocyte activation cell adhesion cell-cell adhesion T cell activation negative regulation of cellular process alpha-beta T cell activation regulation of multicellular organismal process regulation of immune system process regulation of cell-cell adhesion regulation of biological process regulation of cell adhesion cell activation biological regulation regulation of T cell activation negative regulation of cell activation negative regulation of T cell activation negative regulation of immune system process negative regulation of leukocyte cell-cell adhesion immune system process negative regulation of cell-cell adhesion regulation of leukocyte cell-cell adhesion cellular process negative regulation of alpha-beta T cell activation negative regulation of multicellular organismal process negative regulation of leukocyte activation regulation of lymphocyte activation regulation of tumor necrosis factor production cellular biosynthetic process negative regulation of cellular metabolic process negative regulation of tumor necrosis factor production organic substance metabolic process cytokine production organic substance biosynthetic process regulation of cytokine production negative regulation of macromolecule metabolic process regulation of biosynthetic process cellular metabolic process negative regulation of metabolic process tumor necrosis factor superfamily cytokine production regulation of cellular metabolic process negative regulation of cytokine production regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process tumor necrosis factor production negative regulation of cellular biosynthetic process regulation of cellular biosynthetic process regulation of gene expression negative regulation of gene expression regulation of tumor necrosis factor superfamily cytokine production biosynthetic process negative regulation of biosynthetic process negative regulation of macromolecule biosynthetic process negative regulation of tumor necrosis factor superfamily cytokine production metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of metabolic process negative regulation of lymphocyte proliferation CD8-positive, alpha-beta T cell activation CD8-positive, alpha-beta T cell proliferation negative regulation of T cell proliferation negative regulation of leukocyte proliferation alpha-beta T cell proliferation lymphocyte proliferation regulation of leukocyte proliferation cell population proliferation regulation of CD8-positive, alpha-beta T cell proliferation mononuclear cell proliferation regulation of cell population proliferation leukocyte proliferation negative regulation of mononuclear cell proliferation regulation of alpha-beta T cell proliferation T cell proliferation regulation of lymphocyte proliferation negative regulation of cell population proliferation negative regulation of CD8-positive, alpha-beta T cell activation regulation of T cell proliferation negative regulation of alpha-beta T cell proliferation regulation of mononuclear cell proliferation negative regulation of CD8-positive, alpha-beta T cell proliferation regulation of CD8-positive, alpha-beta T cell activation positive regulation of locomotion regulation of cell motility positive regulation of biological process positive regulation of cell migration regulation of locomotion positive regulation of cell motility regulation of cell migration cell migration cell motility locomotion positive regulation of cellular process positive regulation of cellular metabolic process positive regulation of macromolecule biosynthetic process positive regulation of metabolic process positive regulation of biosynthetic process positive regulation of macromolecule metabolic process positive regulation of gene expression positive regulation of cellular biosynthetic process regulation of type II interferon production type II interferon production negative regulation of type II interferon production positive regulation of collagen catabolic process catabolic process regulation of catabolic process regulation of collagen metabolic process collagen catabolic process positive regulation of catabolic process positive regulation of collagen metabolic process regulation of collagen catabolic process collagen metabolic process regulation of leukocyte differentiation mononuclear cell differentiation regulation of cell differentiation lymphocyte differentiation positive regulation of T cell differentiation regulation of cell development positive regulation of developmental process multicellular organism development positive regulation of cell activation cell differentiation anatomical structure development positive regulation of leukocyte activation T cell differentiation positive regulation of immune system process developmental process positive regulation of T cell activation positive regulation of cell development positive regulation of regulatory T cell differentiation positive regulation of multicellular organismal process leukocyte differentiation cellular developmental process regulation of developmental process cell development positive regulation of leukocyte cell-cell adhesion positive regulation of cell-cell adhesion regulation of T cell differentiation positive regulation of lymphocyte activation positive regulation of hemopoiesis positive regulation of cell differentiation regulation of lymphocyte differentiation regulation of multicellular organismal development hemopoiesis positive regulation of cell adhesion regulation of regulatory T cell differentiation regulatory T cell differentiation regulation of hemopoiesis positive regulation of leukocyte differentiation positive regulation of lymphocyte differentiation interleukin-17 production negative regulation of interleukin-17 production regulation of interleukin-17 production regulation of CD4-positive, alpha-beta T cell proliferation negative regulation of CD4-positive, alpha-beta T cell activation CD4-positive, alpha-beta T cell activation CD4-positive, alpha-beta T cell proliferation regulation of CD4-positive, alpha-beta T cell activation negative regulation of CD4-positive, alpha-beta T cell proliferation response to stimulus regulation of response to stimulus immune response regulation of immune response zymogen activation organonitrogen compound metabolic process primary metabolic process protein maturation proteolysis protein processing protein metabolic process regulation of catalytic activity positive regulation of protein metabolic process positive regulation of peptidase activity regulation of primary metabolic process positive regulation of molecular function regulation of proteolysis regulation of endopeptidase activity regulation of protein metabolic process regulation of peptidase activity positive regulation of catalytic activity regulation of molecular function positive regulation of hydrolase activity positive regulation of endopeptidase activity regulation of hydrolase activity positive regulation of proteolysis negative regulation of interleukin-10 production interleukin-10 production regulation of interleukin-10 production	cell periphery plasma membrane membrane cellular anatomical entity
B [auth H]	Antibody Fab fragment heavy chain	-	-	-
C [auth L]	Antibody Fab fragment light chain	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
A	IPR003599	Immunoglobulin subtype	Domain
A	IPR042473	V-type immunoglobulin domain-containing suppressor of T-cell activation	Family
A	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
A	IPR013106	Immunoglobulin V-set domain	Domain
A	IPR007110	Immunoglobulin-like domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: Q9H7M9	Liver Cirrhosis, Experimental adrenoleukodystrophy ductal breast carcinoma in situ medulloblastoma ovarian cancer tuberculosis atypical teratoid rhabdoid tumor invasive ductal breast carcinoma lung adenocarcinoma non-small cell lung carcinoma pancreatic ductal adenocarcinoma X-linked mixed deafness with perilymphatic gusher B-cell chronic lymphocytic leukemia large cell medulloblastoma lung carcinoma Liver Cirrhosis, Experimental adrenoleukodystrophy ductal breast carcinoma in situ medulloblastoma ovarian cancer tuberculosis atypical teratoid rhabdoid tumor invasive ductal breast carcinoma lung adenocarcinoma non-small cell lung carcinoma pancreatic ductal adenocarcinoma X-linked mixed deafness with perilymphatic gusher B-cell chronic lymphocytic leukemia large cell medulloblastoma lung carcinoma osteosarcoma primitive neuroectodermal tumor

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.