3OGO

Structure of the GFP:GFP-nanobody complex at 2.8 A resolution in spacegroup P21212

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

Domain Annotation: SCOP/SCOPe Classification SCOP Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d3ogoa_	Alpha and beta proteins (a+b)	GFP-like	GFP-like	Fluorescent proteins	Green fluorescent protein, GFP	Jellyfish (Aequorea victoria ) [TaxId: 6100 ],	SCOPe (2.08)
B	d3ogob_	Alpha and beta proteins (a+b)	GFP-like	GFP-like	Fluorescent proteins	Green fluorescent protein, GFP	Jellyfish (Aequorea victoria ) [TaxId: 6100 ],	SCOPe (2.08)
C	d3ogoc_	Alpha and beta proteins (a+b)	GFP-like	GFP-like	Fluorescent proteins	Green fluorescent protein, GFP	Jellyfish (Aequorea victoria ) [TaxId: 6100 ],	SCOPe (2.08)
D	d3ogod_	Alpha and beta proteins (a+b)	GFP-like	GFP-like	Fluorescent proteins	Green fluorescent protein, GFP	Jellyfish (Aequorea victoria ) [TaxId: 6100 ],	SCOPe (2.08)
E	d3ogoe_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	(Camelus dromedarius ) [TaxId: 9838 ],	SCOPe (2.08)
F	d3ogof_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	(Camelus dromedarius ) [TaxId: 9838 ],	SCOPe (2.08)
G	d3ogog_	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	(Camelus dromedarius ) [TaxId: 9838 ],	SCOPe (2.08)
H	d3ogoh1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	(Camelus dromedarius ) [TaxId: 9838 ],	SCOPe (2.08)
H	d3ogoh2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Camelus dromedarius ) [TaxId: 9838 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	GFP-like	8096046	3000576	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	GFP-like	8096046	3000576	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	GFP-like	8096046	3000576	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	GFP	e3ogoA1	A: beta barrels	X: GFP-like (From Topology)	H: GFP-like (From Topology)	T: GFP-like	F: GFP	ECOD (1.6)
B	GFP	e3ogoB1	A: beta barrels	X: GFP-like (From Topology)	H: GFP-like (From Topology)	T: GFP-like	F: GFP	ECOD (1.6)
C	GFP	e3ogoC1	A: beta barrels	X: GFP-like (From Topology)	H: GFP-like (From Topology)	T: GFP-like	F: GFP	ECOD (1.6)
D	GFP	e3ogoD1	A: beta barrels	X: GFP-like (From Topology)	H: GFP-like (From Topology)	T: GFP-like	F: GFP	ECOD (1.6)
E	V-set_8	e3ogoE1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_8	ECOD (1.6)
F	V-set_8	e3ogoF1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_8	ECOD (1.6)
G	V-set_8	e3ogoG1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_8	ECOD (1.6)
H	V-set_8	e3ogoH1	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: V-set_8	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.40.155.10	Mainly Beta	Beta Barrel	Green Fluorescent Protein	Green fluorescent protein	CATH (4.3.0)
B	2.40.155.10	Mainly Beta	Beta Barrel	Green Fluorescent Protein	Green fluorescent protein	CATH (4.3.0)
C	2.40.155.10	Mainly Beta	Beta Barrel	Green Fluorescent Protein	Green fluorescent protein	CATH (4.3.0)
D	2.40.155.10	Mainly Beta	Beta Barrel	Green Fluorescent Protein	Green fluorescent protein	CATH (4.3.0)
E	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
F	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
G	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
H	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
E, F, G, H	GFP-nanobody	VH	Camelus dromedarius (Arabian camel)	IGHV3S2601, IGHV3S5101, IGHJ5*01	V-DOMAIN VH	IG	(VH)	IMGT (202414-0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
E, F, G, H	Heavy Chain	IGHV1	-	green fluorescent protein	SAbDab (2024-04-12)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D	PF01353	Green fluorescent protein (GFP)	Green fluorescent protein	-	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	Green fluorescent protein	-	bioluminescence cellular metabolic process metabolic process cellular process generation of precursor metabolites and energy	-
E, F, G, H	GFP-nanobody	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR000786	Green fluorescent protein, GFP	Family
A, B, C, D	IPR011584	Green fluorescent protein-related	Family
A, B, C, D	IPR009017	Green fluorescent protein	Homologous Superfamily

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.