6S8U | pdb_00006s8u

Structure of the PfEMP1 IT4var13 DBLbeta domain bound to ICAM-1

External Resource: Annotation

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: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	Immunoglobulin (Ig) domain-like	8054735	3000071	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Immunoglobulin (Ig) domain-like	8054755	3000071	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)
B	Peptidase_M13,Peptidase_M13_N	e6s8uB1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: Hemagglutinin HA2 chain	T: Hemagglutinin HA2 chain	F: Peptidase_M13,Peptidase_M13_N	ECOD (v294.1)
A	Cas9_PI2	e6s8uA1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: DUF1107-like	T: DUF1107-like	F: Cas9_PI2	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B	PF03921	Intercellular adhesion molecule (ICAM), N-terminal domain (ICAM_N)	Intercellular adhesion molecule (ICAM), N-terminal domain	ICAMs normally functions to promote intercellular adhesion and signalling. However, The N-terminal domain of the receptor binds to the rhinovirus 'canyon' surrounding the icosahedral 5-fold axes, during the viral attachment process [1]. This family ...	ICAMs normally functions to promote intercellular adhesion and signalling. However, The N-terminal domain of the receptor binds to the rhinovirus 'canyon' surrounding the icosahedral 5-fold axes, during the viral attachment process [1]. This family is a family that is part of the Ig superfamily and is therefore related to the family ig (Pfam:PF00047).	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B	Intercellular adhesion molecule 1	protein binding binding virus receptor activity exogenous protein binding molecular transducer activity signaling receptor activity molecular function activator activity molecular function regulator activity signaling receptor regulator activity receptor ligand activity signaling receptor activator activity cell adhesion molecule binding protein-containing complex binding integrin binding protein binding binding virus receptor activity exogenous protein binding molecular transducer activity signaling receptor activity molecular function activator activity molecular function regulator activity signaling receptor regulator activity receptor ligand activity signaling receptor activator activity cell adhesion molecule binding protein-containing complex binding integrin binding signaling receptor binding transmembrane signaling receptor activity	cell adhesion cell-cell adhesion cell-cell adhesion mediated by integrin cell adhesion mediated by integrin cellular process positive regulation of locomotion regulation of cell motility regulation of cellular process positive regulation of biological process positive regulation of cell migration positive regulation of cell motility regulation of cell migration cellular extravasation cell migration cell adhesion cell-cell adhesion cell-cell adhesion mediated by integrin cell adhesion mediated by integrin cellular process positive regulation of locomotion regulation of cell motility regulation of cellular process positive regulation of biological process positive regulation of cell migration positive regulation of cell motility regulation of cell migration cellular extravasation cell migration regulation of immune system process cell motility positive regulation of immune system process locomotion positive regulation of cellular process regulation of biological process regulation of leukocyte migration biological regulation positive regulation of leukocyte migration leukocyte migration immune system process regulation of locomotion positive regulation of cellular extravasation regulation of cellular extravasation cellular response to stimulus positive regulation of cell communication positive regulation of signal transduction response to stimulus signaling regulation of signal transduction intracellular signal transduction cell communication positive regulation of response to stimulus positive regulation of ERK1 and ERK2 cascade regulation of intracellular signal transduction intracellular signaling cassette signal transduction regulation of signaling positive regulation of MAPK cascade positive regulation of intracellular signal transduction regulation of MAPK cascade regulation of response to stimulus MAPK cascade regulation of cell communication ERK1 and ERK2 cascade regulation of ERK1 and ERK2 cascade positive regulation of signaling regulation of immune effector process regulation of leukocyte mediated cytotoxicity leukocyte mediated cytotoxicity immune effector process regulation of leukocyte mediated immunity leukocyte mediated immunity regulation of cell killing cell killing membrane to membrane docking membrane docking leukocyte adhesion to vascular endothelial cell leukocyte cell-cell adhesion homeostatic process response to oxygen-containing compound cellular response to glucose stimulus intracellular glucose homeostasis cellular response to oxygen-containing compound response to hexose cellular response to carbohydrate stimulus cellular response to chemical stimulus cellular homeostasis response to monosaccharide response to carbohydrate chemical homeostasis response to glucose response to chemical glucose homeostasis carbohydrate homeostasis cellular response to hexose stimulus intracellular chemical homeostasis cellular response to monosaccharide stimulus extrinsic apoptotic signaling pathway via death domain receptors negative regulation of signaling negative regulation of biological process regulation of programmed cell death extrinsic apoptotic signaling pathway negative regulation of cell communication negative regulation of extrinsic apoptotic signaling pathway negative regulation of apoptotic signaling pathway negative regulation of cellular process cell surface receptor signaling pathway negative regulation of response to stimulus negative regulation of programmed cell death regulation of apoptotic process negative regulation of extrinsic apoptotic signaling pathway via death domain receptors cell death negative regulation of signal transduction regulation of extrinsic apoptotic signaling pathway apoptotic signaling pathway negative regulation of apoptotic process regulation of extrinsic apoptotic signaling pathway via death domain receptors apoptotic process programmed cell death regulation of apoptotic signaling pathway heterophilic cell-cell adhesion virion attachment to host cell biological process involved in interspecies interaction between organisms receptor-mediated virion attachment to host cell adhesion of symbiont to host cell viral process viral life cycle adhesion of symbiont to host biological process involved in interaction with host biological process involved in symbiotic interaction developmental process epithelium development endothelial cell differentiation cellular developmental process endothelium development cell development tissue development epithelial cell differentiation endothelial cell development epithelial cell development cell differentiation establishment of endothelial barrier anatomical structure development adaptive immune response based on somatic recombination of immune receptors built from immunoglobulin superfamily domains lymphocyte mediated immunity T cell mediated immunity immune response adaptive immune response T cell antigen processing and presentation antigen processing and presentation negative regulation of endothelial cell apoptotic process endothelial cell apoptotic process regulation of endothelial cell apoptotic process regulation of cellular component organization plasma membrane bounded cell projection organization ruffle organization cell projection organization regulation of cell projection organization regulation of cell projection assembly plasma membrane bounded cell projection assembly regulation of cellular component biogenesis ruffle assembly cellular component organization cellular component biogenesis regulation of plasma membrane bounded cell projection assembly cellular component assembly regulation of ruffle assembly cellular component organization or biogenesis cell projection assembly regulation of plasma membrane bounded cell projection organization multicellular organismal process cell activation lymphocyte activation cell activation involved in immune response leukocyte activation T cell activation via T cell receptor contact with antigen bound to MHC molecule on antigen presenting cell T cell activation involved in immune response T cell activation leukocyte activation involved in immune response lymphocyte activation involved in immune response T cell extravasation mononuclear cell migration lymphocyte migration T cell migration cellular response to nitrogen compound response to nitrogen compound cellular response to amyloid-beta response to amyloid-beta response to peptide response to cytokine response to leukemia inhibitory factor cellular response to cytokine stimulus cellular response to leukemia inhibitory factor	cellular anatomical structure anchoring junction cell junction focal adhesion cell-substrate junction cell periphery cell surface membrane plasma membrane external side of plasma membrane side of membrane extracellular exosome membrane-bounded organelle extracellular vesicle cellular anatomical structure anchoring junction cell junction focal adhesion cell-substrate junction cell periphery cell surface membrane plasma membrane external side of plasma membrane side of membrane extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle vesicle extracellular membrane-bounded organelle membrane microdomain membrane raft extracellular matrix external encapsulating structure immunological synapse
A	Erythrocyte membrane protein 1	host cell surface binding binding host cell surface receptor binding	-	cellular anatomical structure membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B	IPR036179	Immunoglobulin-like domain superfamily	Homologous Superfamily
B	IPR048679	Intercellular adhesion molecule 1/3/5, D2 domain	Domain
B	IPR003599	Immunoglobulin domain subtype	Domain
B	IPR047012	Intercellular adhesion molecule/vascular cell adhesion molecule	Family
B	IPR003988	Intercellular adhesion molecule	Domain
B	IPR003987	Intercellular adhesion molecule/vascular cell adhesion molecule, N-terminal	Domain
B	IPR013783	Immunoglobulin-like fold	Homologous Superfamily
B	IPR013768	Intercellular adhesion molecule, N-terminal	Domain
A	IPR008602	Duffy-antigen binding domain	Domain
A	IPR004258	Duffy-binding-like domain	Domain
A	IPR044932	Plasmodium falciparum erythrocyte membrane protein 1, acidic terminal segment superfamily	Homologous Superfamily
A	IPR049158	PfEMP1, CIDRalpha1 domain	Domain
A	IPR042202	Duffy-antigen binding superfamily	Homologous Superfamily
A	IPR029211	Plasmodium falciparum erythrocyte membrane protein 1, acidic terminal segment	Domain
A	IPR029210	Plasmodium falciparum erythrocyte membrane protein-1, N-terminal segment	Domain
A	IPR041480	Cysteine-rich interdomain region 1 gamma	Domain
A	IPR054595	Duffy-binding-like domain, C-terminal subdomain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
B	Pharos: P05362	ulcerative colitis asthma malaria diabetic retinopathy hypertensive disorder type 2 diabetes mellitus atherosclerosis inflammatory bowel disease leukostasis prostate cancer retinal disease Shock, Hemorrhagic multiple sclerosis cardiovascular disease uremia ulcerative colitis asthma malaria diabetic retinopathy hypertensive disorder type 2 diabetes mellitus atherosclerosis inflammatory bowel disease leukostasis prostate cancer retinal disease Shock, Hemorrhagic multiple sclerosis cardiovascular disease uremia obesity disorder cerebrovascular disorder peripheral nervous system disease pleurisy coronary artery disease acute lung injury middle cerebral artery infarction bronchiectasis nephrosis urticaria cholestasis peripheral neuropathy malignant colon neoplasm psoriasis respiratory syncytial virus infectious disease Behcet disease myocardial infarction brain ischemia non-small cell lung carcinoma interstitial cystitis pancreatic ductal adenocarcinoma chronic mucocutaneous candidiasis juvenile idiopathic arthritis pilocytic astrocytoma congenital diaphragmatic hernia lung disease cutaneous lupus erythematosus malignant ependymoma atypical teratoid rhabdoid tumor systemic lupus erythematosus Hashimoto thyroiditis benign colon neoplasm myocardial ischemia tuberculosis inborn carbohydrate metabolic disorder nasopharyngeal carcinoma injury invasive ductal breast carcinoma chronic obstructive pulmonary disease kidney disease lung cancer cystic fibrosis malignant glioma malignant pancreatic neoplasm arteriosclerosis disorder dry eye syndrome skin disease gastric carcinoma autoimmune disease systemic sclerosis head and neck cancer bipolar disorder transitional cell carcinoma oral cavity neoplasm ischemia reperfusion injury colonic neoplasm lung carcinoma primary biliary cholangitis Crohn disease malignant mesothelioma adenoma maturity-onset diabetes of the young arthritic joint disease schizophrenia glioblastoma thrombotic disease hematologic disease hypothyroidism myositis cancer

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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.