3PIB | pdb_00003pib

Crystal structure of red fluorescent protein eqFP578 crystallized at pH 5.5

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Protein Modification Annotation

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d3piba1	Alpha and beta proteins (a+b)	GFP-like	GFP-like	Fluorescent proteins	automated matches	sea anemones (Entacmaea quadricolor ) [TaxId: 6118 ],	SCOPe (2.08)
A	d3piba2	Artifacts	Tags	Tags	Tags	N-terminal Tags	sea anemones (Entacmaea quadricolor ) [TaxId: 6118 ],	SCOPe (2.08)
B	d3pibb1	Alpha and beta proteins (a+b)	GFP-like	GFP-like	Fluorescent proteins	automated matches	sea anemones (Entacmaea quadricolor ) [TaxId: 6118 ],	SCOPe (2.08)
B	d3pibb2	Artifacts	Tags	Tags	Tags	N-terminal Tags	sea anemones (Entacmaea quadricolor ) [TaxId: 6118 ],	SCOPe (2.08)
C	d3pibc_	Alpha and beta proteins (a+b)	GFP-like	GFP-like	Fluorescent proteins	automated matches	sea anemones (Entacmaea quadricolor ) [TaxId: 6118 ],	SCOPe (2.08)
D	d3pibd_	Alpha and beta proteins (a+b)	GFP-like	GFP-like	Fluorescent proteins	automated matches	sea anemones (Entacmaea quadricolor ) [TaxId: 6118 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Fluorescent proteins	8083501	4001049	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	GFP-like	8083502	3000576	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	GFP-like	8083502	3000576	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	GFP-like	8083502	3000576	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	GFP-like	8083502	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	Rubrerythrin	e3pibA1	A: alpha bundles	X: Thioredoxin-like	H: Thioredoxin-like	T: Thioredoxin-like	F: Rubrerythrin	ECOD (develop294)
B	PQQ_2	e3pibB1	A: alpha bundles	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: PQQ_2	ECOD (develop294)
C	PQQ_2	e3pibC1	A: alpha bundles	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: PQQ_2	ECOD (develop294)
D	PQQ_2	e3pibD1	A: alpha bundles	X: Lipocalins/Streptavidin	H: Zn-dependent exopeptidases	T: Zn-dependent exopeptidases	F: PQQ_2	ECOD (develop294)

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)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	eqFP578 fluorescent protein	-	bioluminescence metabolic process cellular process	-

InterPro: Protein Family Classification InterPro Database Homepage

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

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
A, B, C, D	NRQ	Parent Component: MET, TYR, GLY RESID: AA0379 PSI-MOD : 2-imino-methionine 5-imidazolinone glycine MOD:00384

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.