4X7C | pdb_00004x7c

Crystal structure of Saga-2006 GII.4 P domain in complex with Nano-85

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
SAbDab Antibody Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d4x7ca1	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Positive stranded ssRNA viruses	automated matches	automated matches	(Norovirus Hu/GII-4/Saga1/2006/JP ) [TaxId: 546980 ],	SCOPe (2.08)
A	d4x7ca2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Norovirus Hu/GII-4/Saga1/2006/JP ) [TaxId: 546980 ],	SCOPe (2.08)
B	d4x7cb1	All beta proteins	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Positive stranded ssRNA viruses	automated matches	automated matches	(Norovirus Hu/GII-4/Saga1/2006/JP ) [TaxId: 546980 ],	SCOPe (2.08)
B	d4x7cb2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Norovirus Hu/GII-4/Saga1/2006/JP ) [TaxId: 546980 ],	SCOPe (2.08)
C	d4x7cc1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	(Vicugna pacos ) [TaxId: 30538 ],	SCOPe (2.08)
C	d4x7cc2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Vicugna pacos ) [TaxId: 30538 ],	SCOPe (2.08)
D	d4x7cd1	All beta proteins	Immunoglobulin-like beta-sandwich	Immunoglobulin	V set domains (antibody variable domain-like)	automated matches	(Vicugna pacos ) [TaxId: 30538 ],	SCOPe (2.08)
D	d4x7cd2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Vicugna pacos ) [TaxId: 30538 ],	SCOPe (2.08)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	Calici_coat_C	e4x7cA1	A: a/b three-layered sandwiches	X: C-terminal additional helical subdomain in reovirus polymerase lambda3	H: C-terminal additional helical subdomain in reovirus polymerase lambda3	T: C-terminal additional helical subdomain in reovirus polymerase lambda3	F: Calici_coat_C	ECOD (v294.1)
B	Calici_coat_C	e4x7cB1	A: a/b three-layered sandwiches	X: C-terminal additional helical subdomain in reovirus polymerase lambda3	H: C-terminal additional helical subdomain in reovirus polymerase lambda3	T: C-terminal additional helical subdomain in reovirus polymerase lambda3	F: Calici_coat_C	ECOD (v294.1)
C	Ank, Ank_2, Ank_3, Ank_4	e4x7cC1	A: a/b three-layered sandwiches	X: CCHC-type 1 zinc finger	H: Retrovirus zinc finger-related domains	T: Retrovirus zinc finger-related domains	F: Ank, Ank_2, Ank_3, Ank_4	ECOD (v294.1)
D	Ank, Ank_2, Ank_3, Ank_4	e4x7cD1	A: a/b three-layered sandwiches	X: CCHC-type 1 zinc finger	H: Retrovirus zinc finger-related domains	T: Retrovirus zinc finger-related domains	F: Ank, Ank_2, Ank_3, Ank_4	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.40.510.10	Mainly Beta	Beta Barrel	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Positive stranded ssRNA viruses	CATH (4.3.0)
A	2.40.30.120	Mainly Beta	Beta Barrel	Elongation Factor Tu (Ef-tu)	domain 3	CATH (4.3.0)
B	2.40.510.10	Mainly Beta	Beta Barrel	Nucleoplasmin-like/VP (viral coat and capsid proteins)	Positive stranded ssRNA viruses	CATH (4.3.0)
B	2.40.30.120	Mainly Beta	Beta Barrel	Elongation Factor Tu (Ef-tu)	domain 3	CATH (4.3.0)
C	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)
D	2.60.40.10	Mainly Beta	Sandwich	Immunoglobulin-like	Immunoglobulins	CATH (4.3.0)

SAbDab Antibody Annotation SAbDab Database Homepage

Chain	Chain Class	Chain Subclass	Chain Type	Antigen Name(s)	Provenance Source
C, D	Heavy Chain	IGHV1	-	vp1	SAbDab (2026-04-24)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	VP1	-	-	virion component host cellular component host intracellular part cellular anatomical structure host cell cytoplasm host cell part host intracellular region other organism part
C, D	Nano-85 Nanobody	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR029053	Viral coat protein subunit	Homologous Superfamily
A, B	IPR004005	Calicivirus coat protein	Domain
A, B	IPR013643	Calicivirus coat protein C-terminal	Domain
A, B	IPR033703	Picornavirus/Calicivirus coat protein	Domain

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.