4KL6 | pdb_00004kl6

Crystal structure of dimeric form of NpuDnaE intein

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family 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	d4kl6a1	All beta proteins	Hedgehog/intein (Hint) domain	Hedgehog/intein (Hint) domain	automated matches	automated matches	(Nostoc punctiforme PCC 73102 ) [TaxId: 63737 ], (Nostoc punctiforme PCC 73102 ) [TaxId: 63737 ],	SCOPe (2.08)
A	d4kl6a2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Nostoc punctiforme PCC 73102 ) [TaxId: 63737 ], (Nostoc punctiforme PCC 73102 ) [TaxId: 63737 ],	SCOPe (2.08)
B [auth D]	d4kl6d1	All beta proteins	Hedgehog/intein (Hint) domain	Hedgehog/intein (Hint) domain	automated matches	automated matches	(Nostoc punctiforme PCC 73102 ) [TaxId: 63737 ], (Nostoc punctiforme PCC 73102 ) [TaxId: 63737 ],	SCOPe (2.08)
B [auth D]	d4kl6d2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Nostoc punctiforme PCC 73102 ) [TaxId: 63737 ], (Nostoc punctiforme PCC 73102 ) [TaxId: 63737 ],	SCOPe (2.08)
C	d4kl6c1	All beta proteins	Hedgehog/intein (Hint) domain	Hedgehog/intein (Hint) domain	automated matches	automated matches	(Nostoc punctiforme PCC 73102 ) [TaxId: 63737 ], (Nostoc punctiforme PCC 73102 ) [TaxId: 63737 ],	SCOPe (2.08)
C	d4kl6c2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Nostoc punctiforme PCC 73102 ) [TaxId: 63737 ], (Nostoc punctiforme PCC 73102 ) [TaxId: 63737 ],	SCOPe (2.08)
D [auth B]	d4kl6b1	All beta proteins	Hedgehog/intein (Hint) domain	Hedgehog/intein (Hint) domain	automated matches	automated matches	(Nostoc punctiforme PCC 73102 ) [TaxId: 63737 ], (Nostoc punctiforme PCC 73102 ) [TaxId: 63737 ],	SCOPe (2.08)
D [auth B]	d4kl6b2	Artifacts	Tags	Tags	Tags	N-terminal Tags	(Nostoc punctiforme PCC 73102 ) [TaxId: 63737 ], (Nostoc punctiforme PCC 73102 ) [TaxId: 63737 ],	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	Intein_splicing	e4kl6A1	A: beta complex topology	X: Hedgehog/intein (From Homology)	H: Hedgehog/intein	T: Hint	F: Intein_splicing	ECOD (1.6)
B [auth D]	Intein_splicing	e4kl6D1	A: beta complex topology	X: Hedgehog/intein (From Homology)	H: Hedgehog/intein	T: Hint	F: Intein_splicing	ECOD (1.6)
C	Intein_splicing	e4kl6C1	A: beta complex topology	X: Hedgehog/intein (From Homology)	H: Hedgehog/intein	T: Hint	F: Intein_splicing	ECOD (1.6)
D [auth B]	Intein_splicing	e4kl6B1	A: beta complex topology	X: Hedgehog/intein (From Homology)	H: Hedgehog/intein	T: Hint	F: Intein_splicing	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.170.16.10	Mainly Beta	Beta Complex	Endonuclease - Pi-scei	Chain A, domain 1	CATH (4.3.0)
B [auth D]	2.170.16.10	Mainly Beta	Beta Complex	Endonuclease - Pi-scei	Chain A, domain 1	CATH (4.3.0)
C	2.170.16.10	Mainly Beta	Beta Complex	Endonuclease - Pi-scei	Chain A, domain 1	CATH (4.3.0)
D [auth B]	2.170.16.10	Mainly Beta	Beta Complex	Endonuclease - Pi-scei	Chain A, domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B [auth D], C, D [auth B]	PF14579	Helix-hairpin-helix motif (HHH_6)	Helix-hairpin-helix motif	The HHH domain is a short DNA-binding domain [1].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B [auth D], C, D [auth B]	DNA-directed DNA polymerase,Nucleic acid binding, OB-fold, tRNA/helicase-type	catalytic activity, acting on DNA DNA-directed DNA polymerase activity DNA polymerase activity catalytic activity, acting on a nucleic acid transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups nucleic acid conformation isomerase activity isomerase activity helicase activity macromolecular conformation isomerase activity ATP-dependent activity binding catalytic activity, acting on DNA DNA-directed DNA polymerase activity DNA polymerase activity catalytic activity, acting on a nucleic acid transferase activity nucleotidyltransferase activity catalytic activity transferase activity, transferring phosphorus-containing groups nucleic acid conformation isomerase activity isomerase activity helicase activity macromolecular conformation isomerase activity ATP-dependent activity binding nucleic acid binding hydrolase activity, acting on ester bonds nuclease activity 3'-5' exonuclease activity hydrolase activity exonuclease activity cation binding ion binding metal ion binding small molecule binding	nucleobase-containing compound metabolic process DNA replication metabolic process cellular process primary metabolic process DNA metabolic process macromolecule metabolic process nucleic acid metabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B [auth D], C, D [auth B]	IPR004365	OB-fold nucleic acid binding domain, AA-tRNA synthetase-type	Domain
A, B [auth D], C, D [auth B]	IPR030934	Intein C-terminal splicing region	Conserved Site
A, B [auth D], C, D [auth B]	IPR029460	DNA polymerase, helix-hairpin-helix motif	Domain
A, B [auth D], C, D [auth B]	IPR004805	Error-prone DNA polymerase/DNA polymerase III subunit alpha DnaE/PolC	Family

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.