8BE5

Crystal structure of SOS1-KRasG12V-Nanobody22-Nanobody75

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
SAbDab Antibody 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)
A [auth AAZA]	SCOP2B Superfamily	ENTH/VHS domain-like	8057961	3000164	SCOP2B (2022-06-29)
A [auth AAZA]	SCOP2B Superfamily	Ras GEF	8057967	3000128	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 [auth AAZA]	PF00617,PF00618	e8be5AAZA1	A: alpha superhelices	X: Repetitive alpha hairpins	H: Ras GEF (From Topology)	T: Ras GEF	F: PF00617,PF00618	ECOD (1.6)
B [auth C]	F_UNCLASSIFIED	e8be5C1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: F_UNCLASSIFIED	ECOD (1.6)
C [auth R]	PF00071	e8be5R1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: PF00071	ECOD (1.6)
D [auth N]	PF07686	e8be5N1	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)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
B [auth C]	Heavy Chain	IGHV1	-	unknown \| isoform 2b of gtpase kras	SAbDab (2024-05-24)
D [auth N]	Heavy Chain	IGHV1	-	-	SAbDab (2024-05-24)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth AAZA]	Son of sevenless homolog 1	GTPase regulator activity enzyme regulator activity enzyme activator activity GTPase activator activity molecular function activator activity nucleoside-triphosphatase regulator activity molecular function regulator activity SH3 domain binding protein binding binding protein domain specific binding protein heterodimerization activity protein dimerization activity molecular condensate scaffold activity GTPase regulator activity enzyme regulator activity enzyme activator activity GTPase activator activity molecular function activator activity nucleoside-triphosphatase regulator activity molecular function regulator activity SH3 domain binding protein binding binding protein domain specific binding protein heterodimerization activity protein dimerization activity molecular condensate scaffold activity protein-macromolecule adaptor activity molecular adaptor activity guanyl-nucleotide exchange factor activity epidermal growth factor receptor binding signaling receptor binding growth factor receptor 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 multicellular organismal process regulation of leukocyte activation regulation of cell activation lymphocyte activation leukocyte proliferation leukocyte activation T cell activation lymphocyte proliferation regulation of multicellular organismal process regulation of immune system process T cell proliferation regulation of lymphocyte proliferation regulation of leukocyte proliferation cell population proliferation cell activation regulation of T cell activation regulation of T cell proliferation regulation of cell population proliferation mononuclear cell proliferation immune system process regulation of mononuclear cell proliferation regulation of lymphocyte activation response to stress response to ischemia cellular component organization sexual reproduction reproductive process multicellular organismal reproductive process cytoplasm organization cellular component organization or biogenesis female gamete generation vitellogenesis gamete generation B cell homeostasis multicellular organismal-level homeostasis leukocyte homeostasis homeostatic process homeostasis of number of cells lymphocyte homeostasis insulin-like growth factor receptor signaling pathway cell surface receptor protein tyrosine kinase signaling pathway enzyme-linked receptor protein signaling pathway positive regulation of cell communication positive regulation of signal transduction positive regulation of biological process regulation of signal transduction positive regulation of response to stimulus positive regulation of ERBB signaling pathway regulation of epidermal growth factor receptor signaling pathway epidermal growth factor receptor signaling pathway positive regulation of cellular process positive regulation of epidermal growth factor receptor signaling pathway regulation of ERBB signaling pathway regulation of signaling regulation of response to stimulus ERBB signaling pathway regulation of cell communication positive regulation of signaling immune response-regulating cell surface receptor signaling pathway immune response Fc receptor signaling pathway immune response-regulating signaling pathway Fc-epsilon receptor signaling pathway regulation of immune response developmental process head development brain morphogenesis animal organ development brain development nervous system development midbrain morphogenesis multicellular organism development anatomical structure morphogenesis central nervous system development midbrain development anatomical structure development animal organ morphogenesis system development regulation of pro-B cell differentiation regulation of developmental process cellular developmental process hemopoiesis cell development regulation of cell differentiation regulation of lymphoid progenitor cell differentiation pro-B cell differentiation cell differentiation lymphoid progenitor cell differentiation regulation of hematopoietic progenitor cell differentiation hematopoietic progenitor cell differentiation multicellular organism growth developmental growth growth pericardium morphogenesis heart development epithelium development embryonic morphogenesis morphogenesis of an epithelium embryo development tissue development morphogenesis of an epithelial sheet circulatory system development tissue morphogenesis pericardium development blood vessel morphogenesis tube development vasculature development tube morphogenesis blood vessel development cardiac atrium morphogenesis cardiac chamber morphogenesis heart morphogenesis cardiac atrium development cardiac chamber development immune response-activating signaling pathway positive regulation of immune response positive regulation of immune system process immune response-activating cell surface receptor signaling pathway B cell receptor signaling pathway antigen receptor-mediated signaling pathway activation of immune response heart trabecula morphogenesis trabecula morphogenesis peripheral nervous system development glial cell development neurogenesis Schwann cell development gliogenesis glial cell differentiation Schwann cell differentiation epidermis development molting cycle process hair cycle skin development skin epidermis development hair follicle development molting cycle hair cycle process small GTPase-mediated signal transduction Ras protein signal transduction intracellular signal transduction intracellular signaling cassette response to fibroblast growth factor cellular response to growth factor stimulus response to endogenous stimulus cellular response to endogenous stimulus fibroblast growth factor receptor signaling pathway response to growth factor cellular response to fibroblast growth factor stimulus cellular response to nitrogen compound response to peptide hormone insulin receptor signaling pathway response to hormone cellular response to hormone stimulus response to organonitrogen compound response to oxygen-containing compound cellular response to peptide hormone stimulus response to nitrogen compound cellular response to oxygen-containing compound cellular response to organonitrogen compound response to insulin cellular response to insulin stimulus axonogenesis cell projection organization plasma membrane bounded cell projection morphogenesis neuron projection development cell morphogenesis cell projection morphogenesis neuron differentiation neuron projection morphogenesis plasma membrane bounded cell projection organization axon guidance axon development cell morphogenesis involved in neuron differentiation generation of neurons neuron projection guidance neuron development leukocyte migration cell migration cell motility regulation of leukocyte differentiation regulation of T cell differentiation in thymus mononuclear cell differentiation lymphocyte differentiation regulation of cell development regulation of T cell differentiation T cell differentiation in thymus T cell differentiation regulation of lymphocyte differentiation regulation of multicellular organismal development regulation of hemopoiesis leukocyte differentiation neurotrophin TRK receptor signaling pathway neurotrophin signaling pathway myelination axon ensheathment ensheathment of neurons cellular biosynthetic process RNA metabolic process regulation of primary metabolic process RNA biosynthetic process nucleobase-containing compound metabolic process DNA-templated transcription nucleic acid biosynthetic process regulation of RNA metabolic process transcription by RNA polymerase II organic substance metabolic process organic substance biosynthetic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of transcription by RNA polymerase II regulation of biosynthetic process cellular metabolic process primary metabolic process regulation of cellular metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of cellular biosynthetic process organic cyclic compound metabolic process regulation of gene expression biosynthetic process organic cyclic compound biosynthetic process metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process eyelid development in camera-type eye sensory organ development eye development visual system development camera-type eye development sensory system development regulation of small GTPase mediated signal transduction regulation of intracellular signal transduction positive regulation of intracellular signal transduction positive regulation of small GTPase mediated signal transduction roof of mouth development	intracellular anatomical structure cytoplasm cellular anatomical entity cytosol somatodendritic compartment cell body neuronal cell body cell periphery plasma membrane membrane protein-containing complex catalytic complex GTPase complex
B [auth C]	Nanobody75	-	-	-
C [auth R]	Isoform 2B of GTPase KRas	-	-	-
D [auth N]	Nanobody22	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth AAZA]	IPR000219	Dbl homology (DH) domain	Domain
A [auth AAZA]	IPR008937	Ras-like guanine nucleotide exchange factor	Family
A [auth AAZA]	IPR019804	Ras guanine-nucleotide exchange factor, conserved site	Conserved Site
A [auth AAZA]	IPR036964	Ras guanine-nucleotide exchange factor, catalytic domain superfamily	Homologous Superfamily
A [auth AAZA]	IPR035899	Dbl homology (DH) domain superfamily	Homologous Superfamily
A [auth AAZA]	IPR023578	Ras guanine nucleotide exchange factor domain superfamily	Homologous Superfamily
A [auth AAZA]	IPR001849	Pleckstrin homology domain	Domain
A [auth AAZA]	IPR000651	Ras-like guanine nucleotide exchange factor, N-terminal	Domain
A [auth AAZA]	IPR011993	PH-like domain superfamily	Homologous Superfamily
A [auth AAZA]	IPR001895	Ras guanine-nucleotide exchange factors catalytic domain	Domain
A [auth AAZA]	IPR009072	Histone-fold	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A [auth AAZA]	Pharos: Q07889	Noonan syndrome Noonan syndrome 4 hereditary gingival fibromatosis fibromatosis, gingival, 1 pancreatic ductal adenocarcinoma Adenocarcinoma of Lung Costello syndrome hepatocellular carcinoma hypertrophic cardiomyopathy malignant pancreatic neoplasm osteosarcoma tuberculosis cardiofaciocutaneous syndrome intellectual disability medulloblastoma Noonan syndrome Noonan syndrome 4 hereditary gingival fibromatosis fibromatosis, gingival, 1 pancreatic ductal adenocarcinoma Adenocarcinoma of Lung Costello syndrome hepatocellular carcinoma hypertrophic cardiomyopathy malignant pancreatic neoplasm osteosarcoma tuberculosis cardiofaciocutaneous syndrome intellectual disability medulloblastoma Noonan syndrome with multiple lentigines ovarian cancer Charcot-Marie-Tooth disease hydrops fetalis lung adenocarcinoma osteogenesis imperfecta

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 R01GM133198.