8BVH | pdb_00008bvh

Cryo-EM structure of the Hfq-Crc-amiE translation repression assembly.

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
S [auth Q]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8032703	3000419	SCOP2B (2022-06-29)
R [auth O]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8032703	3000419	SCOP2B (2022-06-29)
Q [auth M]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8032703	3000419	SCOP2B (2022-06-29)
P [auth K]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8032703	3000419	SCOP2B (2022-06-29)
O [auth U]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8032703	3000419	SCOP2B (2022-06-29)
N [auth S]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8032703	3000419	SCOP2B (2022-06-29)
L [auth P]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8032703	3000419	SCOP2B (2022-06-29)
K [auth N]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8032703	3000419	SCOP2B (2022-06-29)
J [auth L]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8032703	3000419	SCOP2B (2022-06-29)
I [auth J]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8032703	3000419	SCOP2B (2022-06-29)
H [auth T]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8032703	3000419	SCOP2B (2022-06-29)
G [auth R]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8032703	3000419	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Sm-like ribonucleoproteins	8032703	3000419	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Sm-like ribonucleoproteins	8032703	3000419	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Sm-like ribonucleoproteins	8032703	3000419	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Sm-like ribonucleoproteins	8032703	3000419	SCOP2B (2022-06-29)
B [auth x]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8032703	3000419	SCOP2B (2022-06-29)
A [auth w]	SCOP2B Superfamily	Sm-like ribonucleoproteins	8032703	3000419	SCOP2B (2022-06-29)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
M [auth H], T [auth I], V [auth B], W [auth G]	PF03372	Endonuclease/Exonuclease/phosphatase family (Exo_endo_phos)	Endonuclease/Exonuclease/phosphatase family	This large family of proteins includes magnesium dependent endonucleases and a large number of phosphatases involved in intracellular signalling [1]. This family includes: AP endonuclease proteins EC:4.2.99.18 e.g Swiss:P27695, DNase I proteins EC:3. ...	This large family of proteins includes magnesium dependent endonucleases and a large number of phosphatases involved in intracellular signalling [1]. This family includes: AP endonuclease proteins EC:4.2.99.18 e.g Swiss:P27695, DNase I proteins EC:3.1.21.1 e.g. Swiss:P24855, Synaptojanin an inositol-1,4,5-trisphosphate phosphatase EC:3.1.3.56 Swiss:O43426, Sphingomyelinase EC:3.1.4.12 Swiss:P11889 and Nocturnin Swiss:O35710.	Domain
A [auth w], B [auth x], C, D, E, A [auth w], B [auth x], C, D, E, F, G [auth R], H [auth T], I [auth J], J [auth L], K [auth N], L [auth P], N [auth S], O [auth U], P [auth K], Q [auth M], R [auth O], S [auth Q]	PF17209	Hfq protein (Hfq)	Hfq protein		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
M [auth H], T [auth I], V [auth B], W [auth G]	Catabolite repression control protein	DNA-(apurinic or apyrimidinic site) endonuclease activity DNA endonuclease activity endonuclease activity catalytic activity, acting on DNA nuclease activity catalytic activity, acting on a nucleic acid catalytic activity DNA nuclease activity double-stranded DNA 3'-5' DNA exonuclease activity DNA exonuclease activity 3'-5' exonuclease activity double-stranded DNA exodeoxyribonuclease activity hydrolase activity DNA exonuclease activity, producing 5'-phosphomonoesters DNA-(apurinic or apyrimidinic site) endonuclease activity DNA endonuclease activity endonuclease activity catalytic activity, acting on DNA nuclease activity catalytic activity, acting on a nucleic acid catalytic activity DNA nuclease activity double-stranded DNA 3'-5' DNA exonuclease activity DNA exonuclease activity 3'-5' exonuclease activity double-stranded DNA exodeoxyribonuclease activity hydrolase activity DNA exonuclease activity, producing 5'-phosphomonoesters hydrolase activity, acting on ester bonds 3'-5'-DNA exonuclease activity exonuclease activity phosphoric ester hydrolase activity phosphoric diester hydrolase activity cation binding ion binding binding metal ion binding small molecule binding	response to nutrient levels carbon utilization regulation of response to nutrient levels regulation of biological process response to stimulus regulation of response to stimulus regulation of carbon utilization biological regulation cell aggregation regulation of cellular process biofilm formation regulation of single-species biofilm formation biological process involved in intraspecies interaction between organisms cellular process response to nutrient levels carbon utilization regulation of response to nutrient levels regulation of biological process response to stimulus regulation of response to stimulus regulation of carbon utilization biological regulation cell aggregation regulation of cellular process biofilm formation regulation of single-species biofilm formation biological process involved in intraspecies interaction between organisms cellular process single-species biofilm formation aggregation of unicellular organisms cellular response to stimulus primary metabolic process DNA metabolic process nucleic acid metabolic process nucleobase-containing compound metabolic process base-excision repair cellular response to stress DNA damage response response to stress metabolic process macromolecule metabolic process DNA repair signaling quorum sensing cell-cell signaling detection of cell density detection of biotic stimulus response to biotic stimulus cell communication detection of stimulus	-
U [auth A]	amiE	-	-	-
A [auth w], B [auth x], C, D, E, A [auth w], B [auth x], C, D, E, F, G [auth R], H [auth T], I [auth J], J [auth L], K [auth N], L [auth P], N [auth S], O [auth U], P [auth K], Q [auth M], R [auth O], S [auth Q]	RNA-binding protein Hfq	RNA binding binding nucleic acid binding	regulation of cellular process catabolic process RNA metabolic process macromolecule catabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process post-transcriptional regulation of gene expression regulation of RNA metabolic process regulation of biological quality regulation of nucleobase-containing compound metabolic process RNA catabolic process regulation of biosynthetic process regulation of biological process biological regulation regulation of cellular process catabolic process RNA metabolic process macromolecule catabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process post-transcriptional regulation of gene expression regulation of RNA metabolic process regulation of biological quality regulation of nucleobase-containing compound metabolic process RNA catabolic process regulation of biosynthetic process regulation of biological process biological regulation primary metabolic process regulation of macromolecule metabolic process regulation of catabolic process gene expression macromolecule biosynthetic process nucleic acid metabolic process nucleobase-containing compound catabolic process regulation of gene expression biosynthetic process regulation of RNA stability nucleic acid catabolic process regulation of macromolecule biosynthetic process metabolic process cellular process macromolecule metabolic process regulation of metabolic process regulation of protein metabolic process translation protein biosynthetic process regulation of translation protein metabolic process regulation of translation, ncRNA-mediated RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA biosynthetic process nucleobase-containing compound biosynthetic process regulation of DNA-templated transcription response to nutrient levels carbon utilization regulation of response to nutrient levels response to stimulus regulation of response to stimulus regulation of carbon utilization signaling quorum sensing cell-cell signaling detection of cell density detection of biotic stimulus response to biotic stimulus cell communication detection of stimulus	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
M [auth H], T [auth I], V [auth B], W [auth G]	IPR005135	Endonuclease/exonuclease/phosphatase	Domain
M [auth H], T [auth I], V [auth B], W [auth G]	IPR037493	Exodeoxyribonuclease III-like	Family
M [auth H], T [auth I], V [auth B], W [auth G]	IPR004808	AP endonuclease 1	Family
M [auth H], T [auth I], V [auth B], W [auth G]	IPR036691	Endonuclease/exonuclease/phosphatase superfamily	Homologous Superfamily
A [auth w], B [auth x], C, D, E, A [auth w], B [auth x], C, D, E, F, G [auth R], H [auth T], I [auth J], J [auth L], K [auth N], L [auth P], N [auth S], O [auth U], P [auth K], Q [auth M], R [auth O], S [auth Q]	IPR010920	LSM domain superfamily	Homologous Superfamily
A [auth w], B [auth x], C, D, E, A [auth w], B [auth x], C, D, E, F, G [auth R], H [auth T], I [auth J], J [auth L], K [auth N], L [auth P], N [auth S], O [auth U], P [auth K], Q [auth M], R [auth O], S [auth Q]	IPR005001	RNA-binding protein Hfq	Family
A [auth w], B [auth x], C, D, E, A [auth w], B [auth x], C, D, E, F, G [auth R], H [auth T], I [auth J], J [auth L], K [auth N], L [auth P], N [auth S], O [auth U], P [auth K], Q [auth M], R [auth O], S [auth Q]	IPR047575	Sm domain	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.