Annotations: 8JG5

Cryo-EM structure of the GI.4 Chiba VLP complexed with the CV-1A1 Fv-clasp

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)
C	TcdA_TcdB_pore	e8jg5C01	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: TcdA_TcdB_pore	ECOD (v295)
E	V-set	e8jg5E1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: V-set	ECOD (v295)
F	V-set	e8jg5F1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: V-set	ECOD (v295)
D	TcdA_TcdB_pore	e8jg5D01	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: TcdA_TcdB_pore	ECOD (v295)
G	V-set	e8jg5G1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: V-set	ECOD (v295)
B	V-set	e8jg5B1	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: V-set	ECOD (v295)
A	TcdA_TcdB_pore	e8jg5A01	A: alpha arrays	X: HTH	H: HTH	T: Three-helical HTH	F: TcdA_TcdB_pore	ECOD (v295)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
C, E	Heavy Chain	IGHV1	-	vp1	SAbDab (2026-07-10)
D, F	Light Chain	IGLV2	Lambda	vp1	SAbDab (2026-07-10)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C, E	PF11629	C terminal SARAH domain of Mst1 (Mst1_SARAH)	C terminal SARAH domain of Mst1	-	Family
D, F	PF11629	C terminal SARAH domain of Mst1 (Mst1_SARAH)	C terminal SARAH domain of Mst1	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C, E	VH,SARAH	transcription factor binding RNA polymerase II-specific DNA-binding transcription factor binding protein binding binding DNA-binding transcription factor binding catalytic activity, acting on a protein kinase activity protein kinase activity transferase activity catalytic activity protein serine kinase activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups cation binding transcription factor binding RNA polymerase II-specific DNA-binding transcription factor binding protein binding binding DNA-binding transcription factor binding catalytic activity, acting on a protein kinase activity protein kinase activity transferase activity catalytic activity protein serine kinase activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups cation binding magnesium ion binding ion binding metal ion binding small molecule binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding identical protein binding protein homodimerization activity protein dimerization activity protein serine/threonine kinase activity enzyme regulator activity protein serine/threonine kinase activator activity kinase activator activity enzyme activator activity molecular function activator activity molecular function regulator activity protein kinase activator activity protein kinase regulator activity kinase regulator activity	regulation of protein stability biological regulation regulation of biological quality protein stabilization positive regulation of locomotion regulation of cellular process regulation of cell motility regulation of substrate-dependent cell migration, cell attachment to substrate positive regulation of biological process positive regulation of cell migration cell adhesion positive regulation of cell-substrate adhesion positive regulation of cell motility regulation of cell migration regulation of protein stability biological regulation regulation of biological quality protein stabilization positive regulation of locomotion regulation of cellular process regulation of cell motility regulation of substrate-dependent cell migration, cell attachment to substrate positive regulation of biological process positive regulation of cell migration cell adhesion positive regulation of cell-substrate adhesion positive regulation of cell motility regulation of cell migration cell migration cell motility locomotion positive regulation of cellular process regulation of biological process regulation of cell-substrate adhesion positive regulation of cell adhesion regulation of cell adhesion cell-substrate adhesion regulation of locomotion substrate-dependent cell migration substrate-dependent cell migration, cell attachment to substrate cellular process positive regulation of substrate-dependent cell migration, cell attachment to substrate cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein complex oligomerization protein tetramerization protein-containing complex assembly cellular component organization or biogenesis apoptotic process cell death programmed cell death cellular response to stimulus response to stimulus signaling negative regulation of signaling regulation of canonical Wnt signaling pathway canonical Wnt signaling pathway negative regulation of biological process regulation of signal transduction negative regulation of cell communication cell communication negative regulation of Wnt signaling pathway negative regulation of cellular process signal transduction Wnt signaling pathway regulation of signaling cell surface receptor signaling pathway regulation of Wnt signaling pathway negative regulation of response to stimulus negative regulation of signal transduction negative regulation of canonical Wnt signaling pathway regulation of response to stimulus regulation of cell communication positive regulation of programmed cell death regulation of apoptotic process regulation of programmed cell death positive regulation of apoptotic process regulation of MAPK cascade intracellular signal transduction regulation of intracellular signal transduction intracellular signaling cassette MAPK cascade positive regulation of phosphorylation regulation of protein modification process regulation of protein phosphorylation positive regulation of protein metabolic process regulation of peptidyl-serine phosphorylation positive regulation of phosphate metabolic process peptidyl-serine modification regulation of primary metabolic process positive regulation of metabolic process positive regulation of protein modification process peptidyl-serine phosphorylation phosphate-containing compound metabolic process peptidyl-amino acid modification positive regulation of macromolecule metabolic process protein metabolic process positive regulation of protein phosphorylation protein modification process protein phosphorylation phosphorylation regulation of protein metabolic process primary metabolic process regulation of macromolecule metabolic process positive regulation of peptidyl-serine phosphorylation macromolecule modification metabolic process regulation of phosphorylation macromolecule metabolic process regulation of metabolic process establishment of protein localization cellular localization nucleocytoplasmic transport transport nuclear transport intracellular transport protein localization to nucleus establishment of localization localization intercellular transport import into nucleus establishment of protein localization to organelle protein transport establishment of localization in cell macromolecule localization protein localization to organelle protein import into nucleus intracellular protein localization intracellular protein transport hippo signaling positive regulation of cell communication positive regulation of signal transduction positive regulation of response to stimulus positive regulation of intracellular signal transduction positive regulation of hippo signaling regulation of hippo signaling positive regulation of signaling protein autophosphorylation developmental process anatomical structure morphogenesis anatomical structure development cell morphogenesis	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen protein-containing complex intracellular membraneless organelle nuclear body membraneless organelle
D, F	VL,SARAH	transcription factor binding RNA polymerase II-specific DNA-binding transcription factor binding protein binding binding DNA-binding transcription factor binding catalytic activity, acting on a protein kinase activity protein kinase activity transferase activity catalytic activity protein serine kinase activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups cation binding transcription factor binding RNA polymerase II-specific DNA-binding transcription factor binding protein binding binding DNA-binding transcription factor binding catalytic activity, acting on a protein kinase activity protein kinase activity transferase activity catalytic activity protein serine kinase activity phosphotransferase activity, alcohol group as acceptor transferase activity, transferring phosphorus-containing groups cation binding magnesium ion binding ion binding metal ion binding small molecule binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding identical protein binding protein homodimerization activity protein dimerization activity protein serine/threonine kinase activity enzyme regulator activity protein serine/threonine kinase activator activity kinase activator activity enzyme activator activity molecular function activator activity molecular function regulator activity protein kinase activator activity protein kinase regulator activity kinase regulator activity	regulation of protein stability biological regulation regulation of biological quality protein stabilization positive regulation of locomotion regulation of cellular process regulation of cell motility regulation of substrate-dependent cell migration, cell attachment to substrate positive regulation of biological process positive regulation of cell migration cell adhesion positive regulation of cell-substrate adhesion positive regulation of cell motility regulation of cell migration regulation of protein stability biological regulation regulation of biological quality protein stabilization positive regulation of locomotion regulation of cellular process regulation of cell motility regulation of substrate-dependent cell migration, cell attachment to substrate positive regulation of biological process positive regulation of cell migration cell adhesion positive regulation of cell-substrate adhesion positive regulation of cell motility regulation of cell migration cell migration cell motility locomotion positive regulation of cellular process regulation of biological process regulation of cell-substrate adhesion positive regulation of cell adhesion regulation of cell adhesion cell-substrate adhesion regulation of locomotion substrate-dependent cell migration substrate-dependent cell migration, cell attachment to substrate cellular process positive regulation of substrate-dependent cell migration, cell attachment to substrate cellular component organization cellular component biogenesis cellular component assembly protein-containing complex organization protein complex oligomerization protein tetramerization protein-containing complex assembly cellular component organization or biogenesis apoptotic process cell death programmed cell death cellular response to stimulus response to stimulus signaling negative regulation of signaling regulation of canonical Wnt signaling pathway canonical Wnt signaling pathway negative regulation of biological process regulation of signal transduction negative regulation of cell communication cell communication negative regulation of Wnt signaling pathway negative regulation of cellular process signal transduction Wnt signaling pathway regulation of signaling cell surface receptor signaling pathway regulation of Wnt signaling pathway negative regulation of response to stimulus negative regulation of signal transduction negative regulation of canonical Wnt signaling pathway regulation of response to stimulus regulation of cell communication positive regulation of programmed cell death regulation of apoptotic process regulation of programmed cell death positive regulation of apoptotic process regulation of MAPK cascade intracellular signal transduction regulation of intracellular signal transduction intracellular signaling cassette MAPK cascade positive regulation of phosphorylation regulation of protein modification process regulation of protein phosphorylation positive regulation of protein metabolic process regulation of peptidyl-serine phosphorylation positive regulation of phosphate metabolic process peptidyl-serine modification regulation of primary metabolic process positive regulation of metabolic process positive regulation of protein modification process peptidyl-serine phosphorylation phosphate-containing compound metabolic process peptidyl-amino acid modification positive regulation of macromolecule metabolic process protein metabolic process positive regulation of protein phosphorylation protein modification process protein phosphorylation phosphorylation regulation of protein metabolic process primary metabolic process regulation of macromolecule metabolic process positive regulation of peptidyl-serine phosphorylation macromolecule modification metabolic process regulation of phosphorylation macromolecule metabolic process regulation of metabolic process establishment of protein localization cellular localization nucleocytoplasmic transport transport nuclear transport intracellular transport protein localization to nucleus establishment of localization localization intercellular transport import into nucleus establishment of protein localization to organelle protein transport establishment of localization in cell macromolecule localization protein localization to organelle protein import into nucleus intracellular protein localization intracellular protein transport hippo signaling positive regulation of cell communication positive regulation of signal transduction positive regulation of response to stimulus positive regulation of intracellular signal transduction positive regulation of hippo signaling regulation of hippo signaling positive regulation of signaling protein autophosphorylation developmental process anatomical structure morphogenesis anatomical structure development cell morphogenesis	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen cellular anatomical structure intracellular anatomical structure cytoplasm cytosol membrane-bounded organelle nucleus membrane-enclosed lumen intracellular membrane-bounded organelle intracellular organelle lumen intracellular organelle nucleoplasm organelle lumen organelle nuclear lumen protein-containing complex intracellular membraneless organelle nuclear body membraneless organelle
A, B, G	VP1	-	-	virion component host cellular component host intracellular part cellular anatomical structure host cell cytoplasm host cell part host intracellular region other organism part

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C, E	IPR017441	Protein kinase, ATP binding site	Binding Site
C, E	IPR011524	SARAH domain	Domain
C, E	IPR036674	p53-like tetramerisation domain superfamily	Homologous Superfamily
C, E	IPR000719	Protein kinase domain	Domain
C, E	IPR024205	Mst1/2 SARAH domain	Domain
C, E	IPR050629	STE20/SPS1-related Proline-Alanine-rich Kinase	Family
C, E	IPR011009	Protein kinase-like domain superfamily	Homologous Superfamily
D, F	IPR017441	Protein kinase, ATP binding site	Binding Site
D, F	IPR011524	SARAH domain	Domain
D, F	IPR036674	p53-like tetramerisation domain superfamily	Homologous Superfamily
D, F	IPR000719	Protein kinase domain	Domain
D, F	IPR024205	Mst1/2 SARAH domain	Domain
D, F	IPR050629	STE20/SPS1-related Proline-Alanine-rich Kinase	Family
D, F	IPR011009	Protein kinase-like domain superfamily	Homologous Superfamily
A, B, G	IPR029053	Viral coat protein subunit	Homologous Superfamily
A, B, G	IPR004005	Calicivirus coat protein	Domain
A, B, G	IPR013643	Calicivirus coat protein C-terminal	Domain
A, B, G	IPR033703	Picornavirus/Calicivirus coat protein	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
C, E	: Q13043	combined immunodeficiency due to STK4 deficiency pancreatic intraductal papillary-mucinous carcinoma Pancreatic Neuroendocrine Tumor acute myeloid leukemia gastrointestinal stromal tumor large cell medulloblastoma mast cell leukemia ovarian cancer pancreatic intraductal papillary-mucinous neoplasm psoriasis aggressive systemic mastocytosis cutaneous lupus erythematosus idiopathic pulmonary fibrosis interstitial lung disease lung carcinoma combined immunodeficiency due to STK4 deficiency pancreatic intraductal papillary-mucinous carcinoma Pancreatic Neuroendocrine Tumor acute myeloid leukemia gastrointestinal stromal tumor large cell medulloblastoma mast cell leukemia ovarian cancer pancreatic intraductal papillary-mucinous neoplasm psoriasis aggressive systemic mastocytosis cutaneous lupus erythematosus idiopathic pulmonary fibrosis interstitial lung disease lung carcinoma non-small cell lung carcinoma pancreatic ductal adenocarcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia renal cell carcinoma bipolar disorder endogenous depression interstitial cystitis invasive ductal breast carcinoma malignant pancreatic neoplasm osteosarcoma
D, F	: Q13043	combined immunodeficiency due to STK4 deficiency pancreatic intraductal papillary-mucinous carcinoma Pancreatic Neuroendocrine Tumor acute myeloid leukemia gastrointestinal stromal tumor large cell medulloblastoma mast cell leukemia ovarian cancer pancreatic intraductal papillary-mucinous neoplasm psoriasis aggressive systemic mastocytosis cutaneous lupus erythematosus idiopathic pulmonary fibrosis interstitial lung disease lung carcinoma combined immunodeficiency due to STK4 deficiency pancreatic intraductal papillary-mucinous carcinoma Pancreatic Neuroendocrine Tumor acute myeloid leukemia gastrointestinal stromal tumor large cell medulloblastoma mast cell leukemia ovarian cancer pancreatic intraductal papillary-mucinous neoplasm psoriasis aggressive systemic mastocytosis cutaneous lupus erythematosus idiopathic pulmonary fibrosis interstitial lung disease lung carcinoma non-small cell lung carcinoma pancreatic ductal adenocarcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia renal cell carcinoma bipolar disorder endogenous depression interstitial cystitis invasive ductal breast carcinoma malignant pancreatic neoplasm osteosarcoma

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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.