7D85

Crystal structure of anti-ErbB3 Fab ISU104 in complex with human ErbB3 extracellular domain 3

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
SAbDab Antibody Annotation
Thera-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	d7d85b_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	(Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
E	d7d85e_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	(Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C	d7d85c2	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	C1 set domains (antibody constant domain-like)	automated matches	(Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C	d7d85c1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	(Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
F	d7d85f2	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	C1 set domains (antibody constant domain-like)	automated matches	(Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
F	d7d85f1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	automated matches	automated matches	(Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	L domain-like	8041641	3001010	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	L domain-like	8041641	3001010	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	Recep_L_domain	e7d85A1	A: beta duplicates or obligate multimers	X: Single-stranded right-handed beta-helix	H: Leucine-rich repeats (From Topology)	T: Leucine-rich repeats	F: Recep_L_domain	ECOD (1.6)
D	Recep_L_domain	e7d85D1	A: beta duplicates or obligate multimers	X: Single-stranded right-handed beta-helix	H: Leucine-rich repeats (From Topology)	T: Leucine-rich repeats	F: Recep_L_domain	ECOD (1.6)
B	C1-set_1	e7d85B1	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	V-set_12	e7d85B2	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)
E	C1-set_1	e7d85E1	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)
E	V-set_12	e7d85E2	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	C1-set	e7d85C2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set	ECOD (1.6)
C	V-set_3	e7d85C1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_3	ECOD (1.6)
F	C1-set	e7d85F1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set	ECOD (1.6)
F	V-set_3	e7d85F2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_3	ECOD (1.6)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
B, E	Heavy Chain	IGHV3	-	receptor tyrosine-protein kinase erbb-3	SAbDab (2024-11-15)
C, F	Light Chain	IGLV1	Lambda	receptor tyrosine-protein kinase erbb-3	SAbDab (2024-11-15)

Thera-SAbDab Antibody Annotation Thera-SAbDab Database Homepage

Chain	Name	Target	Provenance Source
B, E	Barecetamab	ERBB3/HER3	Therapeutic SAbDab (2024-11-15)
C, F	Barecetamab	ERBB3/HER3	Therapeutic SAbDab (2024-11-15)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, D	PF01030	Receptor L domain (Recep_L_domain)	Receptor L domain	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, D	Receptor tyrosine-protein kinase erbB-3	protein tyrosine kinase activator activity enzyme regulator 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 neuregulin binding protein binding binding growth factor binding molecular transducer activity protein tyrosine kinase activator activity enzyme regulator 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 neuregulin binding protein binding binding growth factor binding molecular transducer activity transmembrane signaling receptor activity signaling receptor activity neuregulin receptor activity adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding organic cyclic compound binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding ubiquitin protein ligase binding ubiquitin-like protein ligase binding enzyme binding identical protein binding protein heterodimerization activity protein dimerization activity signaling receptor binding ErbB-3 class receptor binding	cellular response to stimulus regulation of signaling regulation of biological process regulation of cellular process response to stimulus negative regulation of signaling signaling negative regulation of response to stimulus biological regulation negative regulation of biological process regulation of signal transduction negative regulation of signal transduction negative regulation of cell communication cell communication regulation of response to stimulus cellular response to stimulus regulation of signaling regulation of biological process regulation of cellular process response to stimulus negative regulation of signaling signaling negative regulation of response to stimulus biological regulation negative regulation of biological process regulation of signal transduction negative regulation of signal transduction negative regulation of cell communication cell communication regulation of response to stimulus negative regulation of cellular process regulation of cell communication cellular process signal transduction developmental process heart development multicellular organism development multicellular organismal process anatomical structure development animal organ development circulatory system development system development 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 regulation of localization regulation of transport transport secretion negative regulation of transport establishment of localization regulation of secretion localization negative regulation of secretion ERBB2 signaling pathway cell surface receptor signaling pathway ERBB2-ERBB3 signaling pathway cell surface receptor protein tyrosine kinase signaling pathway ERBB signaling pathway ERBB3 signaling pathway enzyme-linked receptor protein signaling pathway signal transduction in absence of ligand cell death extrinsic apoptotic signaling pathway apoptotic signaling pathway extrinsic apoptotic signaling pathway in absence of ligand apoptotic process programmed cell death mesenchyme development tissue development endocardial cushion development cell adhesion regulation of cell adhesion negative regulation of cell adhesion neurogenesis cellular developmental process cell differentiation nervous system development intracellular signal transduction intracellular signaling cassette phosphatidylinositol 3-kinase/protein kinase B signal transduction neuron apoptotic process motor neuron apoptotic process negative regulation of programmed cell death regulation of apoptotic process regulation of programmed cell death negative regulation of apoptotic process regulation of muscle tissue development regulation of developmental process striated muscle tissue development muscle structure development positive regulation of developmental process positive regulation of muscle organ development regulation of cardiac muscle tissue development regulation of multicellular organismal process muscle tissue development muscle organ development positive regulation of cardiac muscle tissue development cardiac muscle tissue development positive regulation of striated muscle tissue development regulation of striated muscle tissue development positive regulation of muscle tissue development regulation of muscle organ development positive regulation of multicellular organismal process peripheral nervous system development cell development glial cell development Schwann cell development gliogenesis glial cell differentiation Schwann cell differentiation calcineurin-NFAT signaling cascade positive regulation of cell communication positive regulation of signal transduction positive regulation of response to stimulus regulation of intracellular signal transduction regulation of calcineurin-mediated signaling positive regulation of calcineurin-NFAT signaling cascade regulation of calcium-mediated signaling positive regulation of calcium-mediated signaling regulation of calcineurin-NFAT signaling cascade positive regulation of calcineurin-mediated signaling positive regulation of intracellular signal transduction calcium-mediated signaling calcineurin-mediated signaling positive regulation of signaling regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction negative regulation of neuron apoptotic process regulation of neuron apoptotic process cell population proliferation positive regulation of cell population proliferation regulation of cell population proliferation nerve development cranial nerve development wound healing response to stress response to wounding myelination axon ensheathment ensheathment of neurons regulation of motor neuron apoptotic process negative regulation of motor neuron apoptotic process	cell periphery protein-containing complex cellular anatomical structure plasma membrane protein complex membrane plasma membrane plasma membrane signaling receptor complex membrane protein complex ERBB3:ERBB2 complex receptor complex basal part of cell basal plasma membrane plasma membrane region basolateral plasma membrane cell periphery protein-containing complex cellular anatomical structure plasma membrane protein complex membrane plasma membrane plasma membrane signaling receptor complex membrane protein complex ERBB3:ERBB2 complex receptor complex basal part of cell basal plasma membrane plasma membrane region basolateral plasma membrane extracellular region extracellular space apical part of cell apical plasma membrane lateral plasma membrane
B, E	Anti-ErbB3 Fab heavy chain	-	-	-
C, F	Anti-ErbB3 Fab light chain	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, D	IPR016245	Tyrosine protein kinase, EGF/ERB/XmrK receptor	Family
A, D	IPR000719	Protein kinase domain	Domain
A, D	IPR036941	Receptor L-domain superfamily	Homologous Superfamily
A, D	IPR032778	Growth factor receptor domain 4	Domain
A, D	IPR006212	Furin-like repeat	Repeat
A, D	IPR000494	Receptor L-domain	Domain
A, D	IPR001245	Serine-threonine/tyrosine-protein kinase, catalytic domain	Domain
A, D	IPR011009	Protein kinase-like domain superfamily	Homologous Superfamily
A, D	IPR006211	Furin-like cysteine-rich domain	Domain
A, D	IPR009030	Growth factor receptor cysteine-rich domain superfamily	Homologous Superfamily
A, D	IPR050122	Receptor Tyrosine Kinase	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, D	Pharos: P21860	lethal congenital contracture syndrome 2 breast cancer nasopharyngeal carcinoma Neoplasm Metastasis prostate cancer gallbladder cancer breast carcinoma alopecia areata cutaneous lupus erythematosus urinary bladder neoplasm ductal breast carcinoma in situ osteosarcoma gastric adenocarcinoma pancreatic ductal adenocarcinoma acute erythroleukemia, familial lethal congenital contracture syndrome 2 breast cancer nasopharyngeal carcinoma Neoplasm Metastasis prostate cancer gallbladder cancer breast carcinoma alopecia areata cutaneous lupus erythematosus urinary bladder neoplasm ductal breast carcinoma in situ osteosarcoma gastric adenocarcinoma pancreatic ductal adenocarcinoma acute erythroleukemia, familial glioblastoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia anorexia nervosa head and neck carcinoma pituitary cancer attention deficit hyperactivity disorder, inattentive type invasive ductal breast carcinoma lung adenocarcinoma bipolar disorder rheumatoid arthritis malignant glioma skin neoplasm cancer subependymal giant cell astrocytoma cleft lip urinary bladder cancer cystic fibrosis vitiligo Down syndrome ovarian cancer gastric carcinoma pancreatic intraductal papillary-mucinous carcinoma allergic rhinitis Hashimoto thyroiditis Pick disease arthrogryposis head and neck neoplasm large cell medulloblastoma polycystic ovary syndrome atypical teratoid rhabdoid tumor lung benign neoplasm bladder benign neoplasm major depressive disorder schizophrenia spina bifida carcinoma malignant pancreatic neoplasm ulcerative colitis colon carcinoma medulloblastoma urinary bladder carcinoma Duchenne muscular dystrophy gallbladder neoplasm ovarian mucinous adenocarcinoma gastric neoplasm pancreatic intraductal papillary-mucinous neoplasm head and neck cancer pilocytic astrocytoma asthma interstitial cystitis progressive supranuclear palsy benign neoplasm of stomach lung cancer bladder carcinoma in situ malignant ependymoma skin cancer breast fibroadenoma stomach carcinoma in situ cholangiocarcinoma

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.