4ZFG

Dual-specificity Fab 5A12 in complex with Angiopoietin 2

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
IMGT Antibody Annotation
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 [auth H]	d4zfgh_	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 [auth L]	d4zfgl2	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 [auth L]	d4zfgl1	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	Fibrinogen C-terminal domain-like	8070784	3001395	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	Fibrinogen_C	e4zfgA1	A: a+b complex topology	X: Fibrinogen C-terminal domain-like (From Topology)	H: Fibrinogen C-terminal domain-like (From Topology)	T: Fibrinogen C-terminal domain-like	F: Fibrinogen_C	ECOD (1.6)
B [auth H]	C1-set_1	e4zfgH1	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 [auth H]	V-set_12	e4zfgH2	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 [auth L]	C1-set_4	e4zfgL1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: C1-set_4	ECOD (1.6)
C [auth L]	V-set	e4zfgL2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.90.215.10	Alpha Beta	Alpha-Beta Complex	Gamma Fibrinogen	Chain A, domain 1	CATH (4.3.0)
A	4.10.530.10	Few Secondary Structures	Irregular	Gamma-fibrinogen Carboxyl Terminal Fragment	domain 2	CATH (4.3.0)
B [auth H]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
C [auth L]	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)

IMGT Antibody Annotation IMGT Database Homepage

Chain	Protein Name	Description	Organism Name	Gene Allele Name(s)	Domain Name(s)	Receptor Type	Receptor Description	Provenance Source
B [auth H]	5A12 Fab	VH-CH1	Homo sapiens (human)	IGHV3-2304, IGHJ601, IGHJ602, IGHG101, IGHG102, IGHG104, IGHG1*05	V-DOMAIN VH, C-DOMAIN CH1	IG	FAB-GAMMA-1_KAPPA	IMGT (202415-0)
C [auth L]	5A12 Fab	L-KAPPA	Homo sapiens (human)	IGKV1-1201, IGKV1D-1201, IGKV1-1202, IGKV1D-1202, IGKJ101, IGKC01	V-DOMAIN V-KAPPA, C-DOMAIN C-KAPPA	IG	FAB-GAMMA-1_KAPPA	IMGT (202415-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
B [auth H]	Heavy Chain	IGHV3	-	angiopoietin-2	SAbDab (2024-04-19)
C [auth L]	Light Chain	IGKV1	Kappa	angiopoietin-2	SAbDab (2024-04-19)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00147	Fibrinogen beta and gamma chains, C-terminal globular domain (Fibrinogen_C)	Fibrinogen beta and gamma chains, C-terminal globular domain	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Angiopoietin-2	protein binding binding signaling receptor binding protein tyrosine kinase binding kinase binding receptor tyrosine kinase binding enzyme binding protein kinase binding cation binding ion binding metal ion binding small molecule binding	developmental process multicellular organismal process blood vessel morphogenesis tube development angiogenesis vasculature development circulatory system development multicellular organism development anatomical structure morphogenesis tube morphogenesis anatomical structure development anatomical structure formation involved in morphogenesis blood vessel development system development developmental process multicellular organismal process blood vessel morphogenesis tube development angiogenesis vasculature development circulatory system development multicellular organism development anatomical structure morphogenesis tube morphogenesis anatomical structure development anatomical structure formation involved in morphogenesis blood vessel development system development sexual reproduction cellular developmental process reproductive process multicellular organismal reproductive process cell development cellular process involved in reproduction in multicellular organism developmental process involved in reproduction gamete generation cell differentiation germ cell development cellular process multi-multicellular organism process maternal process involved in female pregnancy female pregnancy multi-organism reproductive process response to stimulus response to activity animal organ development renal system development kidney vasculature development glomerulus development renal system vasculature development glomerulus vasculature development nephron development kidney development negative regulation of positive chemotaxis positive chemotaxis chemotaxis negative regulation of locomotion regulation of biological process regulation of response to external stimulus negative regulation of response to stimulus biological regulation negative regulation of biological process response to external stimulus negative regulation of chemotaxis regulation of chemotaxis regulation of positive chemotaxis taxis regulation of response to stimulus response to chemical regulation of locomotion negative regulation of response to external stimulus locomotion cellular response to stimulus regulation of cellular process cell surface receptor signaling pathway signaling Tie signaling pathway cell surface receptor protein tyrosine kinase signaling pathway cell communication signal transduction enzyme-linked receptor protein signaling pathway response to hexose response to organic substance response to monosaccharide response to carbohydrate response to glucose response to oxygen-containing compound regulation of cell motility regulation of blood vessel endothelial cell migration endothelial cell migration negative regulation of endothelial cell migration negative regulation of blood vessel endothelial cell migration tissue migration negative regulation of epithelial cell migration ameboidal-type cell migration regulation of cell migration negative regulation of cellular process blood vessel endothelial cell migration regulation of endothelial cell migration epithelial cell migration cell migration regulation of multicellular organismal process cell motility regulation of epithelial cell migration negative regulation of cell migration epithelium migration negative regulation of cell motility negative regulation of multicellular organismal process response to mechanical stimulus response to abiotic stimulus organic substance metabolic process biosynthetic process cellular biosynthetic process cellular metabolic process organic substance biosynthetic process metabolic process macromolecule metabolic process gene expression macromolecule biosynthetic process cellular response to endogenous stimulus cellular response to growth factor stimulus response to endogenous stimulus response to growth factor regulation of developmental process positive regulation of biological process regulation of vasculature development positive regulation of developmental process regulation of anatomical structure morphogenesis regulation of multicellular organismal development positive regulation of angiogenesis positive regulation of vasculature development regulation of angiogenesis positive regulation of multicellular organismal process regulation of cell-substrate adhesion regulation of cell adhesion cell-substrate adhesion negative regulation of cell adhesion cell adhesion negative regulation of cell-substrate adhesion response to decreased oxygen levels response to hypoxia response to stress response to oxygen levels animal organ regeneration regeneration negative regulation of blood vessel morphogenesis negative regulation of developmental process negative regulation of angiogenesis negative regulation of vasculature development response to organic cyclic compound	cell periphery extracellular matrix external encapsulating structure collagen-containing extracellular matrix cellular anatomical entity extracellular region extracellular space cell projection
B [auth H]	Fragment antigen binding 5A12 heavy chain	-	-	-
C [auth L]	Fragment antigen binding 5A12 light chain	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR020837	Fibrinogen, conserved site	Conserved Site
A	IPR014716	Fibrinogen, alpha/beta/gamma chain, C-terminal globular, subdomain 1	Homologous Superfamily
A	IPR002181	Fibrinogen, alpha/beta/gamma chain, C-terminal globular domain	Domain
A	IPR036056	Fibrinogen-like, C-terminal	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: O15123	angiosarcoma wet macular degeneration adrenal cortex carcinoma cutaneous lupus erythematosus glioblastoma lung cancer medulloblastoma oligodendroglioma pilocytic astrocytoma dermatomyositis interstitial cystitis malignant ependymoma microcephaly 1, primary, autosomal recessive osteosarcoma transitional cell carcinoma angiosarcoma wet macular degeneration adrenal cortex carcinoma cutaneous lupus erythematosus glioblastoma lung cancer medulloblastoma oligodendroglioma pilocytic astrocytoma dermatomyositis interstitial cystitis malignant ependymoma microcephaly 1, primary, autosomal recessive osteosarcoma transitional cell carcinoma breast cancer diabetic macular edema leukopenia malignant glioma nasopharyngeal carcinoma ovarian cancer

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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.