8BE5 | pdb_00008be5

Crystal structure of SOS1-KRasG12V-Nanobody22-Nanobody75

External Resource: Annotation

Domain Annotation: ECOD Classification
SAbDab Antibody Annotation
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
D [auth N]	Ku_PK_bind	e8be5N1	A: alpha arrays	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Ku_PK_bind	ECOD (v295.2)
C [auth R]	Ku_PK_bind	e8be5R1	A: alpha arrays	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Ku_PK_bind	ECOD (v295.2)
B [auth C]	Ku_PK_bind	e8be5C1	A: alpha arrays	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Ku_PK_bind	ECOD (v295.2)
A [auth AAZA]	Ku_PK_bind	e8be5AAZA1	A: alpha arrays	X: RNase A-like	H: RNase A-like	T: RNase A-like	F: Ku_PK_bind	ECOD (v295.2)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
D [auth N]	Heavy Chain	IGHV1	-	-	SAbDab (2026-10-16)
B [auth C]	Heavy Chain	IGHV1	-	unknown \| isoform 2b of gtpase kras	SAbDab (2026-10-16)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C [auth R]	PF00071	Ras family (Ras)	Ras family	Includes sub-families Ras, Rab, Rac, Ral, Ran, Rap Ypt1 and more. Shares P-loop motif with GTP_EFTU, arf and myosin_head. See Pfam:PF00009 Pfam:PF00025, Pfam:PF00063. As regards Rab GTPases, these are important regulators of vesicle formation, motili ...	Includes sub-families Ras, Rab, Rac, Ral, Ran, Rap Ypt1 and more. Shares P-loop motif with GTP_EFTU, arf and myosin_head. See Pfam:PF00009 Pfam:PF00025, Pfam:PF00063. As regards Rab GTPases, these are important regulators of vesicle formation, motility and fusion. They share a fold in common with all Ras GTPases: this is a six-stranded beta-sheet surrounded by five alpha-helices [1].	Domain
A [auth AAZA]	PF00617	RasGEF domain (RasGEF)	RasGEF domain	-	Family
A [auth AAZA]	PF00618	RasGEF N-terminal motif (RasGEF_N)	RasGEF N-terminal motif	A subset of guanine nucleotide exchange factor for Ras-like small GTPases appear to possess this motif/domain N-terminal to the RasGef (Cdc25-like) domain.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
D [auth N]	Nanobody22	-	-	-
C [auth R]	Isoform 2B of GTPase KRas	guanyl nucleotide binding binding nucleotide binding GMP binding guanyl ribonucleotide binding purine ribonucleotide binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding guanyl nucleotide binding binding nucleotide binding GMP binding guanyl ribonucleotide binding purine ribonucleotide binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding GTP binding purine ribonucleoside triphosphate binding GDP binding protein-containing complex binding LRR domain binding protein binding protein domain specific binding pyrophosphatase activity GTPase activity G protein activity ribonucleoside triphosphate phosphatase activity molecular function regulator activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity identical protein binding	developmental process multicellular organism development multicellular organismal process hepaticobiliary system development gland development animal organ development anatomical structure development liver development animal gross anatomical part developmental process system development cellular response to stimulus regulation of biological process regulation of cellular process cell surface receptor signaling pathway developmental process multicellular organism development multicellular organismal process hepaticobiliary system development gland development animal organ development anatomical structure development liver development animal gross anatomical part developmental process system development cellular response to stimulus regulation of biological process regulation of cellular process cell surface receptor signaling pathway response to stimulus signaling biological regulation response to cytokine cytokine-mediated signaling pathway cell communication response to peptide response to chemical cellular process cellular response to cytokine stimulus signal transduction canonical NF-kappaB signal transduction intracellular signal transduction intracellular signaling cassette myoblast proliferation cell population proliferation developmental growth cardiac muscle cell proliferation organ growth striated muscle tissue development muscle cell proliferation cardiac muscle tissue growth muscle tissue development striated muscle cell proliferation heart development heart growth cardiac muscle tissue development growth tissue development circulatory system development multi-multicellular organism process reproductive process female pregnancy multi-organism reproductive process regulation of biosynthetic process positive regulation of biological process regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process positive regulation of macromolecule biosynthetic process regulation of gene expression positive regulation of metabolic process biosynthetic process positive regulation of gene expression positive regulation of biosynthetic process regulation of macromolecule biosynthetic process metabolic process positive regulation of macromolecule metabolic process macromolecule metabolic process regulation of metabolic process positive regulation of cellular process positive regulation of cell communication positive regulation of signal transduction regulation of signal transduction positive regulation of response to stimulus regulation of intracellular signal transduction positive regulation of TOR signaling TOR signaling regulation of signaling regulation of TOR signaling positive regulation of intracellular signal transduction regulation of response to stimulus regulation of cell communication positive regulation of signaling response to corticosteroid response to lipid response to hormone response to steroid hormone response to endogenous stimulus response to mineralocorticoid negative regulation of programmed cell death negative regulation of cellular process negative regulation of biological process regulation of programmed cell death cell death programmed cell death response to glucocorticoid MAPK cascade small GTPase-mediated signal transduction Ras protein signal transduction positive regulation of cell population proliferation regulation of cell population proliferation positive regulation of MAPK cascade regulation of MAPK cascade regulation of cellular senescence cellular senescence positive regulation of cellular senescence cellular response to stress response to stress response to isolation stress multicellular organismal response to stress response to abiotic stimulus response to gravity regulation of small GTPase mediated signal transduction regulation of Ras protein signal transduction positive regulation of Ras protein signal transduction positive regulation of small GTPase mediated signal transduction	cellular anatomical structure endomembrane system anchoring junction cell junction focal adhesion cell-substrate junction membrane phosphatase complex protein-containing complex protein phosphatase type 1 complex intracellular anatomical structure catalytic complex cytoplasm protein serine/threonine phosphatase complex cellular anatomical structure endomembrane system anchoring junction cell junction focal adhesion cell-substrate junction membrane phosphatase complex protein-containing complex protein phosphatase type 1 complex intracellular anatomical structure catalytic complex cytoplasm protein serine/threonine phosphatase complex cytosol cell periphery plasma membrane membrane-bounded organelle organelle subcompartment intracellular membrane-bounded organelle endoplasmic reticulum subcompartment intracellular organelle organelle nuclear outer membrane-endoplasmic reticulum membrane network endoplasmic reticulum organelle membrane endoplasmic reticulum membrane Golgi membrane Golgi apparatus bounding membrane of organelle GTPase complex protein kinase complex transferase complex, transferring phosphorus-containing groups serine/threonine protein kinase complex transferase complex mitochondrial membrane mitochondrion organelle outer membrane organelle envelope mitochondrial envelope mitochondrial outer membrane outer membrane cytoplasmic side of plasma membrane cytoplasmic side of membrane side of membrane
B [auth C]	Nanobody75	-	-	-
A [auth AAZA]	Son of sevenless homolog 1	protein heterodimerization activity protein binding binding protein dimerization activity molecular condensate scaffold activity protein-macromolecule adaptor activity molecular adaptor 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 protein heterodimerization activity protein binding binding protein dimerization activity molecular condensate scaffold activity protein-macromolecule adaptor activity molecular adaptor 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 domain specific binding kinase binding enzyme binding protein kinase binding guanyl-nucleotide exchange factor activity epidermal growth factor receptor binding signaling receptor binding growth factor receptor binding	cellular response to stimulus positive regulation of cell communication small GTPase-mediated signal transduction regulation of cellular process positive regulation of signal transduction response to stimulus signaling regulation of small GTPase mediated signal transduction positive regulation of biological process regulation of signal transduction intracellular signal transduction cell communication positive regulation of response to stimulus regulation of intracellular signal transduction intracellular signaling cassette cellular response to stimulus positive regulation of cell communication small GTPase-mediated signal transduction regulation of cellular process positive regulation of signal transduction response to stimulus signaling regulation of small GTPase mediated signal transduction positive regulation of biological process regulation of signal transduction intracellular signal transduction cell communication positive regulation of response to stimulus regulation of intracellular signal transduction intracellular signaling cassette signal transduction positive regulation of cellular process regulation of biological process regulation of signaling Rac protein signal transduction biological regulation positive regulation of intracellular signal transduction regulation of Rac protein signal transduction positive regulation of Rac protein signal transduction regulation of response to stimulus regulation of cell communication cellular process positive regulation of small GTPase mediated signal transduction positive regulation of signaling cell surface receptor signaling pathway response to cytokine cytokine-mediated signaling pathway response to peptide response to chemical cellular response to cytokine stimulus immune response-regulating cell surface receptor signaling pathway immune response-activating signaling pathway immune response-regulating signaling pathway positive regulation of immune response regulation of immune system process positive regulation of immune system process immune response-activating cell surface receptor signaling pathway immune response B cell receptor signaling pathway immune system process regulation of immune response antigen receptor-mediated signaling pathway activation of immune response response to stress response to ischemia developmental process multicellular organismal process cellular developmental process peripheral nervous system development cell development nervous system development glial cell development multicellular organism development neurogenesis Schwann cell development gliogenesis glial cell differentiation cell differentiation anatomical structure development animal gross anatomical part developmental process Schwann cell differentiation system development insulin-like growth factor receptor signaling pathway cell surface receptor protein tyrosine kinase signaling pathway enzyme-linked receptor protein signaling pathway positive regulation of ERBB signaling pathway regulation of epidermal growth factor receptor signaling pathway epidermal growth factor receptor signaling pathway positive regulation of epidermal growth factor receptor signaling pathway regulation of ERBB signaling pathway ERBB signaling pathway Ras protein signal transduction T cell activation cell activation lymphocyte activation leukocyte activation cellular response to nitrogen compound response to peptide hormone insulin receptor signaling pathway cellular response to endogenous stimulus response to hormone cellular response to hormone stimulus response to endogenous stimulus response to oxygen-containing compound cellular response to peptide hormone stimulus response to nitrogen compound cellular response to oxygen-containing compound cellular response to chemical stimulus response to insulin cellular response to insulin stimulus axonogenesis cell projection organization plasma membrane bounded cell projection morphogenesis neuron projection development cell morphogenesis cellular component organization cell projection morphogenesis neuron differentiation neuron projection morphogenesis cellular component organization or biogenesis plasma membrane bounded cell projection organization axon guidance axon development cell morphogenesis involved in neuron differentiation generation of neurons anatomical structure morphogenesis neuron projection guidance neuron development Fc receptor signaling pathway Fc-epsilon receptor signaling pathway leukocyte migration cell migration cell motility cellular response to growth factor stimulus neurotrophin TRK receptor signaling pathway neurotrophin signaling pathway response to growth factor cell population proliferation regulation of cell population proliferation myelination axon ensheathment ensheathment of neurons RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process transcription by RNA polymerase II regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of transcription by RNA polymerase II regulation of biosynthetic process primary metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of gene expression biosynthetic process metabolic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol cell periphery plasma membrane membrane synapse cell junction glutamatergic synapse protein-containing complex catalytic complex GTPase complex postsynaptic density cellular anatomical structure intracellular anatomical structure cytoplasm cytosol cell periphery plasma membrane membrane synapse cell junction glutamatergic synapse protein-containing complex catalytic complex GTPase complex postsynaptic density postsynapse neuron to neuron synapse postsynaptic specialization organelle asymmetric synapse somatodendritic compartment cell body neuronal cell body

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C [auth R]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
C [auth R]	IPR005225	Small GTP-binding domain	Domain
C [auth R]	IPR020849	Small GTPase, Ras-type	Family
C [auth R]	IPR001806	Small GTPase	Family
A [auth AAZA]	IPR001849	Pleckstrin homology 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]	IPR000651	Ras-like guanine nucleotide exchange factor, N-terminal	Domain
A [auth AAZA]	IPR000219	Dbl homology domain	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
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]	IPR055251	SOS1/NGEF-like, PH domain	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
C [auth R]	: P01116	Noonan syndrome juvenile myelomonocytic leukemia cardiofaciocutaneous syndrome acute myeloid leukemia gastric cancer cancer Noonan syndrome 3 cholangiocarcinoma Costello syndrome nasopharyngeal carcinoma subependymal giant cell astrocytoma angiosarcoma urinary bladder cancer astrocytic tumor neuroblastoma Noonan syndrome juvenile myelomonocytic leukemia cardiofaciocutaneous syndrome acute myeloid leukemia gastric cancer cancer Noonan syndrome 3 cholangiocarcinoma Costello syndrome nasopharyngeal carcinoma subependymal giant cell astrocytoma angiosarcoma urinary bladder cancer astrocytic tumor neuroblastoma squamous cell carcinoma adenoma cardiofaciocutaneous syndrome 2 ovarian cancer pilocytic astrocytoma non-small cell lung carcinoma endometriosis exocrine pancreatic carcinoma pancreatic ductal adenocarcinoma uterine cancer myelodysplastic syndrome gastric carcinoma papillary adenoma liver cancer colorectal cancer gemistocytic astrocytoma penile neoplasm granular cell carcinoma plasma cell myeloma breast adenocarcinoma nevus, epidermal hereditary diffuse gastric adenocarcinoma adenocarcinoma carcinoma Splenomegaly cecal neoplasm thyroid gland carcinoma anaplastic astrocytoma childhood cerebral astrocytoma autoimmune lymphoproliferative syndrome lung cancer breast cancer protoplasmic astrocytoma malignant colon neoplasm thyroid adenoma cecum cancer fibrillary astrocytoma juvenile pilocytic astrocytoma Toriello-Lacassie-Droste syndrome gallbladder cancer arteriovenous malformations of the brain autoimmune lymphoproliferative syndrome type 4 lung adenocarcinoma prostate cancer breast carcinoma lymphoma sarcomatoid carcinoma intellectual disability intrahepatic cholangiocarcinoma cardiomyopathy malignant pancreatic neoplasm familial pancreatic carcinoma juvenile idiopathic arthritis tubular adenocarcinoma follicular thyroid adenoma anemia microcystic adenoma atypical teratoid rhabdoid tumor congenital anemia uterine disease B-cell chronic lymphocytic leukemia liver neoplasm craniosynostosis benign neoplasm of pancreas lung benign neoplasm hepatocellular carcinoma lung disease digestive system disease breast disease Lynch syndrome encephalocraniocutaneous lipomatosis hydrops fetalis epidermal nevus syndrome oral cavity neoplasm cardiofaciocutaneous syndrome 1 osteosarcoma ovarian disease cerebral astrocytoma medullary thyroid gland carcinoma pancreatic intraductal papillary-mucinous carcinoma pancreatic neoplasm linear nevus sebaceus syndrome colonic neoplasm colorectal carcinoma myopathy gastric neoplasm Parkinson disease glioblastoma benign colon neoplasm Pick disease cribriform carcinoma hematologic disease bile duct cancer dermatomyositis rheumatoid arthritis inflammatory linear verrucous epidermal nevus juvenile dermatomyositis thyroid gland follicular carcinoma ovarian neoplasm cervical carcinoma ulcerative colitis medulloblastoma pancreatic intraductal papillary-mucinous neoplasm large cell medulloblastoma urinary bladder neoplasm astrocytoma (excluding glioblastoma) pancreatitis colorectal adenocarcinoma uterine cervix carcinoma in situ gastrointestinal stromal tumor penile cancer verrucous nevus benign neoplasm cribriform carcinoma of breast bladder transitional cell carcinoma lung carcinoma diffuse astrocytoma psoriasis malignant ependymoma Emery-Dreifuss muscular dystrophy oligodendroglioma squamous cell lung carcinoma osteogenesis imperfecta thyroid cancer amyotrophic lateral sclerosis ovarian carcinoma thyroid gland papillary carcinoma Charcot-Marie-Tooth disease undifferentiated carcinoma gallbladder neoplasm pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia chronic myelomonocytic leukemia
A [auth AAZA]	: 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