8B0I | pdb_00008b0i

CryoEM structure of bacterial RapZ.GlmZ complex central to the control of cell envelope biogenesis

External Resource: Annotation

Domain Annotation: ECOD Classification
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)
D [auth C]	DUF5630	e8b0iC1	A: a/b three-layered sandwiches	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: DUF5630	ECOD (v294.1)
C [auth D]	Gp23	e8b0iD1	A: a/b three-layered sandwiches	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: Gp23	ECOD (v294.1)
B	Gp23	e8b0iB1	A: a/b three-layered sandwiches	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: Gp23	ECOD (v294.1)
A	DUF5630	e8b0iA1	A: a/b three-layered sandwiches	X: RNase A-like	H: Cytochrome P450	T: Cytochrome P450	F: DUF5630	ECOD (v294.1)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C [auth D], D [auth C]	PF22740	RapZ C-terminal domain (PapZ_C)	RapZ C-terminal domain	This entry represents the C-terminal domain of RapZ which belongs to the Rhodanese-Phosphatase superfamily. It has been shown to bind multiple ligands as part of the regulation of glucosamine-6-phosphate (GlcN6P) levels, which is a precursor to the b ...	This entry represents the C-terminal domain of RapZ which belongs to the Rhodanese-Phosphatase superfamily. It has been shown to bind multiple ligands as part of the regulation of glucosamine-6-phosphate (GlcN6P) levels, which is a precursor to the bacterial cell wall polymer peptidoglycan. Assignment to the greater Rhodanese-Phosphatase superfamily has led to the prediction that, as part of this regulation, it functions as a sugar phosphorylation-dephosphorylation switch [1].	Domain
A, B, C [auth D], D [auth C]	PF03668	RapZ-like N-terminal domain (RapZ-like_N)	RapZ-like N-terminal domain	This entry represents the N-terminal P-loop kinase domain of RNase adapter protein RapZ and related proteins. RapZ plays a central role in RNA-mediated regulation of amino-sugar metabolism [1-3]. It is a RNA-binding protein that recruits the major en ...	This entry represents the N-terminal P-loop kinase domain of RNase adapter protein RapZ and related proteins. RapZ plays a central role in RNA-mediated regulation of amino-sugar metabolism [1-3]. It is a RNA-binding protein that recruits the major endoribonuclease RNase E to sRNAs GlmZ [1,2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
E [auth K]	GlmZ small regulatory RNA	-	-	-
A, B, C [auth D], D [auth C]	RNase adapter protein RapZ	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding molecular adaptor activity RNA binding nucleic acid binding guanyl nucleotide binding GTP binding guanyl ribonucleotide binding identical protein binding protein binding	regulation of cellular process catabolic process positive regulation of biological process RNA metabolic process macromolecule catabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process positive regulation of metabolic process post-transcriptional regulation of gene expression regulation of RNA metabolic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process regulation of biological quality positive regulation of cellular process regulation of cellular process catabolic process positive regulation of biological process RNA metabolic process macromolecule catabolic process regulation of primary metabolic process nucleobase-containing compound metabolic process positive regulation of metabolic process post-transcriptional regulation of gene expression regulation of RNA metabolic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process regulation of biological quality positive regulation of cellular process RNA catabolic process regulation of biosynthetic process RNA destabilization 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 positive regulation of RNA metabolic process positive regulation of catabolic process regulation of gene expression biosynthetic process regulation of RNA stability nucleic acid catabolic process metabolic process cellular process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of metabolic process protein-containing complex organization protein homotetramerization cellular component organization cellular component biogenesis cellular component assembly protein complex oligomerization protein tetramerization protein-containing complex assembly protein homooligomerization cellular component organization or biogenesis	protein-containing complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C [auth D], D [auth C]	IPR053930	RapZ-like, N-terminal domain	Domain
A, B, C [auth D], D [auth C]	IPR053931	RapZ, C-terminal domain	Domain
A, B, C [auth D], D [auth C]	IPR005337	RapZ-like family	Family
A, B, C [auth D], D [auth C]	IPR027417	P-loop containing nucleoside triphosphate hydrolase	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.