Annotations: 2QTX

Crystal structure of an Hfq-like protein from Methanococcus jannaschii

External Resource: Annotation

Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
L	Pyr_redox_2	e2qtxL1	A: beta barrels	X: HTH	H: Nudix	T: Nudix	F: Pyr_redox_2	ECOD (v294.2)
K	Pyr_redox_2	e2qtxK1	A: beta barrels	X: HTH	H: Nudix	T: Nudix	F: Pyr_redox_2	ECOD (v294.2)
J	Pyr_redox_2	e2qtxJ1	A: beta barrels	X: HTH	H: Nudix	T: Nudix	F: Pyr_redox_2	ECOD (v294.2)
I	Pyr_redox_2	e2qtxI1	A: beta barrels	X: HTH	H: Nudix	T: Nudix	F: Pyr_redox_2	ECOD (v294.2)
H	Pyr_redox_2	e2qtxH1	A: beta barrels	X: HTH	H: Nudix	T: Nudix	F: Pyr_redox_2	ECOD (v294.2)
G	Pyr_redox_2	e2qtxG1	A: beta barrels	X: HTH	H: Nudix	T: Nudix	F: Pyr_redox_2	ECOD (v294.2)
F	Pyr_redox_2	e2qtxF1	A: beta barrels	X: HTH	H: Nudix	T: Nudix	F: Pyr_redox_2	ECOD (v294.2)
E	Pyr_redox_2	e2qtxE1	A: beta barrels	X: HTH	H: Nudix	T: Nudix	F: Pyr_redox_2	ECOD (v294.2)
D	Pyr_redox_2	e2qtxD1	A: beta barrels	X: HTH	H: Nudix	T: Nudix	F: Pyr_redox_2	ECOD (v294.2)
C	Pyr_redox_2	e2qtxC1	A: beta barrels	X: HTH	H: Nudix	T: Nudix	F: Pyr_redox_2	ECOD (v294.2)
B	Pyr_redox_2	e2qtxB1	A: beta barrels	X: HTH	H: Nudix	T: Nudix	F: Pyr_redox_2	ECOD (v294.2)
A	RNase_H	e2qtxA1	A: beta barrels	X: Profilin-like	H: sensor domains	T: sensor domains	F: RNase_H	ECOD (v294.2)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
L	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.		CATH (4.3.0)
K	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.		CATH (4.3.0)
J	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.		CATH (4.3.0)
I	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.		CATH (4.3.0)
H	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.		CATH (4.3.0)
G	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.		CATH (4.3.0)
F	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.		CATH (4.3.0)
E	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.		CATH (4.3.0)
D	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.		CATH (4.3.0)
C	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.		CATH (4.3.0)
B	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.		CATH (4.3.0)
A	2.30.30.100	Mainly Beta	Roll	SH3 type barrels.		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	PF17209	Hfq protein (Hfq)	Hfq protein	This entry represents the RNA-binding pleiotropic regulator Hfq, a small, Sm-like protein of bacteria [1]. It helps pair regulatory non-coding RNAs with complementary mRNA target regions. It enhances the elongation of poly(A) tails on mRNA [2]. It ap ...	This entry represents the RNA-binding pleiotropic regulator Hfq, a small, Sm-like protein of bacteria [1]. It helps pair regulatory non-coding RNAs with complementary mRNA target regions. It enhances the elongation of poly(A) tails on mRNA [2]. It appears also to protect RNase E recognition sites (A/U-rich sequences with adjacent stem-loop structures) from cleavage [3]. Being pleiotropic, it differs in some of its activities in different species. Hfq binds the non-coding regulatory RNA DsrA (see Rfam:RF00014) in the few species known to have it: Escherichia coli, Shigella flexneri, Salmonella spp. In Azorhizobium caulinodans, an hfq mutant is unable to express nifA, and Hfq is called NrfA, for nif regulatory factor [4]. The name Hfq reflects phenomenology as a host factor for phage Q-beta RNA replication.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	Uncharacterized protein MJ1435	RNA binding binding nucleic acid binding	regulation of cellular process RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of biological process biological regulation primary metabolic process regulation of cellular process RNA metabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process DNA-templated transcription regulation of RNA metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of biological process biological regulation primary metabolic process regulation of macromolecule metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process regulation of gene expression biosynthetic process cellular process metabolic process regulation of macromolecule biosynthetic process regulation of DNA-templated transcription macromolecule metabolic process regulation of metabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR010920	LSM domain superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR005001	RNA-binding protein Hfq	Family
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR047575	Sm domain	Domain

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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.