2AYB | pdb_00002ayb

Crystal structure of HPV6a E2 DNA Binding Domain bound to a 16 base pair DNA target

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

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
D [auth B]	d2aybb1	Alpha and beta proteins (a+b)	Ferredoxin-like	Viral DNA-binding domain	Viral DNA-binding domain	Papillomavirus-1 E2 protein	(Human papillomavirus type 6a ) [TaxId: 37122 ],	SCOPe (2.08)
C [auth A]	d2ayba1	Alpha and beta proteins (a+b)	Ferredoxin-like	Viral DNA-binding domain	Viral DNA-binding domain	Papillomavirus-1 E2 protein	(Human papillomavirus type 6a ) [TaxId: 37122 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D [auth B]	SCOP2B Superfamily	Viral DNA-binding domain	8040442	3001239	SCOP2B (2022-06-29)
C [auth A]	SCOP2B Superfamily	Viral DNA-binding domain	8040442	3001239	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)
D [auth B]		e2aybB1	A: C-terminal subdomain in Lon-related proteases catalytic domains	X: C-terminal subdomain in Lon-related proteases catalytic domains	H: C-terminal subdomain in Lon-related proteases catalytic domains	T: Fer4,DUF3470	F:	ECOD (20:10:01)
C [auth A]		e2aybA1	A: C-terminal subdomain in Lon-related proteases catalytic domains	X: C-terminal subdomain in Lon-related proteases catalytic domains	H: C-terminal subdomain in Lon-related proteases catalytic domains	T: Fer4,DUF3470	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D [auth B]	3.30.70.330	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	RRM (RNA recognition motif) domain	CATH (4.3.0)
C [auth A]	3.30.70.330	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits	RRM (RNA recognition motif) domain	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C [auth A], D [auth B]	Regulatory protein E2	DNA binding binding nucleic acid binding nucleoside phosphate binding nucleotide binding heterocyclic compound binding small molecule binding transcription regulator activity DNA-binding transcription factor activity	nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process viral DNA genome replication viral life cycle nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid biosynthetic process biosynthetic process nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process viral DNA genome replication viral life cycle nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid biosynthetic process biosynthetic process viral genome replication viral process DNA biosynthetic process regulation of biological process regulation of cellular process biological regulation regulation of macromolecule metabolic process regulation of primary metabolic process regulation of nucleobase-containing compound metabolic process regulation of metabolic process regulation of DNA replication regulation of DNA metabolic process RNA metabolic process gene expression RNA biosynthetic process DNA-templated transcription	host intracellular membrane-bounded organelle host cellular component host intracellular part cellular anatomical structure host cell part host intracellular region host cell nucleus other organism part host intracellular organelle
A [auth C], B [auth D]	5'-D(CPAPAPCPCPGPAPAPTPTPCPGPGPTPTPG)-3'	-	-	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C [auth A], D [auth B]	IPR033668	Regulatory protein E2	Family
C [auth A], D [auth B]	IPR042503	E2 regulatory, transactivation domain, subdomain 1	Homologous Superfamily
C [auth A], D [auth B]	IPR001866	Papillomavirus E2, N-terminal	Domain
C [auth A], D [auth B]	IPR036050	E2 regulatory, transactivation domain	Homologous Superfamily
C [auth A], D [auth B]	IPR042504	E2 regulatory, transactivation domain, subdomain 2	Homologous Superfamily
C [auth A], D [auth B]	IPR012677	Nucleotide-binding alpha-beta plait domain superfamily	Homologous Superfamily
C [auth A], D [auth B]	IPR000427	Papillomavirus E2, C-terminal	Domain
C [auth A], D [auth B]	IPR035975	E2/EBNA1, C-terminal	Homologous Superfamily

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.