5NRK | pdb_00005nrk

Crystal structure of the sixth cohesin from Acetivibrio cellulolyticus' scaffoldin B in complex with Cel5 dockerin S15I, I16N mutant

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	d5nrkd_	All alpha proteins	Type I dockerin domain	Type I dockerin domain	automated matches	automated matches	(Acetivibrio cellulolyticus ) [TaxId: 35830 ],	SCOPe (2.08)
B	d5nrkb_	All alpha proteins	Type I dockerin domain	Type I dockerin domain	automated matches	automated matches	(Acetivibrio cellulolyticus ) [TaxId: 35830 ],	SCOPe (2.08)
C	d5nrkc1	All beta proteins	Common fold of diphtheria toxin/transcription factors/cytochrome f	Carbohydrate-binding domain	Cellulose-binding domain family III	automated matches	(Acetivibrio cellulolyticus ) [TaxId: 35830 ],	SCOPe (2.08)
C	d5nrkc2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Acetivibrio cellulolyticus ) [TaxId: 35830 ],	SCOPe (2.08)
A	d5nrka1	All beta proteins	Common fold of diphtheria toxin/transcription factors/cytochrome f	Carbohydrate-binding domain	Cellulose-binding domain family III	automated matches	(Acetivibrio cellulolyticus ) [TaxId: 35830 ],	SCOPe (2.08)
A	d5nrka2	Artifacts	Tags	Tags	Tags	C-terminal Tags	(Acetivibrio cellulolyticus ) [TaxId: 35830 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D	SCOP2B Superfamily	Type I dockerin domain	8096682	3001894	SCOP2B (2022-06-29)
B	SCOP2 Family	Type I dockerin domain	8096681	4002915	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	Type I dockerin domain	8096682	3001894	SCOP2 (2022-06-29)
C	SCOP2B Superfamily	Carbohydrate-binding domain	8084477	3000706	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Carbohydrate-binding domain	8084477	3000706	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	SBP_bac_1	e5nrkD1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: SBP_bac_1	ECOD (v294.1)
B	Pkinase	e5nrkB1	A: a/b three-layered sandwiches	X: Protein kinase/SAICAR synthase/ATP-grasp	H: Protein kinase/SAICAR synthase/ATP-grasp	T: Protein kinase	F: Pkinase	ECOD (v294.1)
C	SBP_bac_1	e5nrkC1	A: a/b three-layered sandwiches	X: Periplasmic binding protein-like II	H: Rubredoxin-related	T: Tetrapyrrole methylase C-terminal domain	F: SBP_bac_1	ECOD (v294.1)
A	Pkinase	e5nrkA1	A: a/b three-layered sandwiches	X: Protein kinase/SAICAR synthase/ATP-grasp	H: Protein kinase/SAICAR synthase/ATP-grasp	T: Protein kinase	F: Pkinase	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	1.10.1330.10	Mainly Alpha	Orthogonal Bundle	Type 1 dockerin domain	Dockerin domain	CATH (4.3.0)
B	1.10.1330.10	Mainly Alpha	Orthogonal Bundle	Type 1 dockerin domain	Dockerin domain	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B, D	DocCel5: Type I dockerin repeat domain from A. cellulolyticus family 5 endoglucanase WP_010249057 S15I, I16N mutant	hydrolase activity, acting on glycosyl bonds hydrolase activity, hydrolyzing O-glycosyl compounds hydrolase activity catalytic activity cation binding ion binding binding metal ion binding small molecule binding	carbohydrate metabolic process polysaccharide metabolic process catabolic process polysaccharide catabolic process carbohydrate catabolic process metabolic process cellular process primary metabolic process macromolecule metabolic process macromolecule catabolic process	-
A, C	Endoglucanase	hydrolase activity, acting on glycosyl bonds cellulase activity hydrolase activity, hydrolyzing O-glycosyl compounds hydrolase activity catalytic activity binding polysaccharide binding cellulose binding carbohydrate binding cation binding ion binding metal ion binding small molecule binding	carbohydrate metabolic process catabolic process glucan catabolic process beta-glucan metabolic process carbohydrate catabolic process primary metabolic process macromolecule catabolic process polysaccharide metabolic process glucan metabolic process beta-glucan catabolic process polysaccharide catabolic process metabolic process cellular process cellulose catabolic process carbohydrate metabolic process catabolic process glucan catabolic process beta-glucan metabolic process carbohydrate catabolic process primary metabolic process macromolecule catabolic process polysaccharide metabolic process glucan metabolic process beta-glucan catabolic process polysaccharide catabolic process metabolic process cellular process cellulose catabolic process macromolecule metabolic process cellulose metabolic process	cellular anatomical structure extracellular region

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B, D	IPR002105	Dockerin type I repeat	Repeat
B, D	IPR016134	Dockerin domain	Domain
B, D	IPR018247	EF-Hand 1, calcium-binding site	Binding Site
B, D	IPR036439	Dockerin domain superfamily	Homologous Superfamily
A, C	IPR036966	Carbohydrate-binding module 3 superfamily	Homologous Superfamily
A, C	IPR016134	Dockerin domain	Domain
A, C	IPR001956	Carbohydrate-binding module 3	Domain
A, C	IPR018247	EF-Hand 1, calcium-binding site	Binding Site
A, C	IPR008928	Six-hairpin glycosidase superfamily	Homologous Superfamily
A, C	IPR008965	CBM2/CBM3, carbohydrate-binding domain superfamily	Homologous Superfamily
A, C	IPR008969	Carboxypeptidase-like, regulatory domain superfamily	Homologous Superfamily
A, C	IPR002102	Cellulosome anchoring protein, cohesin domain	Domain
A, C	IPR012341	Six-hairpin glycosidase-like superfamily	Homologous Superfamily
A, C	IPR033126	Glycosyl hydrolases family 9, Asp/Glu active sites	Active Site
A, C	IPR001701	Glycoside hydrolase family 9	Domain
A, C	IPR036439	Dockerin domain superfamily	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.