8CXC

Novel Anti-Mesothelin Antibodies Enable Crystallography of the Intact Mesothelin Ectodo- main and Engineering of Potent, T cell-engaging Bispecific Therapeutics

External Resource: Annotation

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: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
C [auth M]	SCOP2B Superfamily	Mesothelin-like	8104137	3002829	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 L]	PF07654	e8cxcL2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07654	ECOD (1.6)
A [auth L]	PF07686	e8cxcL1	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)
B [auth H]	PF07654	e8cxcH2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: PF07654	ECOD (1.6)
B [auth H]	PF07686	e8cxcH1	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)
D [auth A]	PF07686	e8cxcA1	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
A [auth L]	Light Chain	IGKV1	Kappa	mesothelin, cleaved form	SAbDab (2024-05-31)
B [auth H]	Heavy Chain	IGHV3	-	mesothelin, cleaved form	SAbDab (2024-05-31)
D [auth A]	Light Chain	IGKV4	Kappa	mesothelin, cleaved form	SAbDab (2024-05-31)

Thera-SAbDab Antibody Annotation Thera-SAbDab Database Homepage

Chain	Name	Target	Provenance Source
D [auth A]	Amatuximab	MSLN	Therapeutic SAbDab (2024-05-31)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
C [auth M]	PF06060	Mesothelin (Mesothelin)	Mesothelin	-	Repeat

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth L]	3F2 Antibody light chain	-	-	-
B [auth H]	3F2 Antibody heavy chain	-	-	-
C [auth M]	Mesothelin, cleaved form	-	cell adhesion cell-matrix adhesion cell-substrate adhesion cellular process	cell surface cellular anatomical entity membrane side of membrane cell periphery plasma membrane membrane-bounded organelle intracellular organelle intracellular anatomical structure Golgi apparatus organelle cytoplasm intracellular membrane-bounded organelle endomembrane system cell surface cellular anatomical entity membrane side of membrane cell periphery plasma membrane membrane-bounded organelle intracellular organelle intracellular anatomical structure Golgi apparatus organelle cytoplasm intracellular membrane-bounded organelle endomembrane system membrane-enclosed lumen intracellular organelle lumen endoplasmic reticulum lumen organelle lumen endoplasmic reticulum extracellular region
D [auth A]	scFv Amatuximab	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C [auth M]	IPR026664	Stereocilin-related	Family
C [auth M]	IPR010335	Mesothelin	Family

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
C [auth M]	Pharos: Q13421	pleural disease cholangiocarcinoma malignant mesothelioma pancreatic ductal adenocarcinoma cancer Lymphatic Metastasis mesothelial neoplasm adenocarcinoma intrahepatic cholangiocarcinoma granular cell carcinoma malignant pancreatic neoplasm ovarian cancer tubular adenocarcinoma hereditary diffuse gastric adenocarcinoma ovarian disease pleural disease cholangiocarcinoma malignant mesothelioma pancreatic ductal adenocarcinoma cancer Lymphatic Metastasis mesothelial neoplasm adenocarcinoma intrahepatic cholangiocarcinoma granular cell carcinoma malignant pancreatic neoplasm ovarian cancer tubular adenocarcinoma hereditary diffuse gastric adenocarcinoma ovarian disease attention deficit hyperactivity disorder, inattentive type pancreatic intraductal papillary-mucinous neoplasm bile duct cancer cystic fibrosis esophageal adenocarcinoma gastric neoplasm mesothelioma non-small cell lung carcinoma ovarian neoplasm benign mesothelioma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia bone disease psoriasis cribriform carcinoma endometrial carcinoma lung carcinoma nasopharyngeal carcinoma benign neoplasm pancreatic neoplasm cribriform carcinoma of breast endometrioid adenocarcinoma gastric 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 R01GM133198.