6KML | pdb_00006kml

2.09 Angstrom resolution crystal structure of tetrameric HigBA toxin-antitoxin complex from E.coli

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	HTH_3_1	e6kmlD1	A: alpha arrays	X: HTH	H: HTH	T: tetra-helical, lambda repressor-like	F: HTH_3_1	ECOD (1.6)
D	F_UNCLASSIFIED	e6kmlD2	A: alpha bundles	X: Bromodomain-like	H: PMT helical bundle domain-like	T: N-terminal domain of antitoxin HigA	F: F_UNCLASSIFIED	ECOD (1.6)
B	HTH_3_1	e6kmlB1	A: alpha arrays	X: HTH	H: HTH	T: tetra-helical, lambda repressor-like	F: HTH_3_1	ECOD (1.6)
B	F_UNCLASSIFIED	e6kmlB2	A: alpha bundles	X: Bromodomain-like	H: PMT helical bundle domain-like	T: N-terminal domain of antitoxin HigA	F: F_UNCLASSIFIED	ECOD (1.6)
C	HigB_toxin	e6kmlC1	A: a+b two layers	X: RelE-like	H: RelE-like (From Topology)	T: RelE-like	F: HigB_toxin	ECOD (1.6)
A	HigB_toxin	e6kmlA1	A: a+b two layers	X: RelE-like	H: RelE-like (From Topology)	T: RelE-like	F: HigB_toxin	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B, D	PF01381	Helix-turn-helix (HTH_3)	Helix-turn-helix	This large family of DNA binding helix-turn helix proteins includes Cro Swiss:P03036 and CI Swiss:P03034. Within the protein Swiss:Q5F9C2, the full protein fold incorporates a helix-turn-helix motif, but the function of this member is unlikely to be ...	This large family of DNA binding helix-turn helix proteins includes Cro Swiss:P03036 and CI Swiss:P03034. Within the protein Swiss:Q5F9C2, the full protein fold incorporates a helix-turn-helix motif, but the function of this member is unlikely to be that of a DNA-binding regulator, the function of most other members, so is not necessarily characteristic of the whole family [1].	Domain
A, C	PF09907	HigB_toxin, RelE-like toxic component of a toxin-antitoxin system (HigB_toxin)	HigB_toxin, RelE-like toxic component of a toxin-antitoxin system	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B, D	Antitoxin HigA	DNA binding sequence-specific DNA binding sequence-specific double-stranded DNA binding transcription cis-regulatory region binding binding double-stranded DNA binding core promoter sequence-specific DNA binding nucleic acid binding transcription regulatory region nucleic acid binding identical protein binding protein binding protein homodimerization activity protein dimerization activity	regulation of growth regulation of biological process biological regulation growth 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 growth regulation of biological process biological regulation growth 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 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	protein-containing complex transcription regulator complex toxin-antitoxin complex transcription repressor complex
A, C	mRNA interferase toxin HigB	endonuclease activity nuclease activity catalytic activity, acting on RNA RNA endonuclease activity catalytic activity, acting on a nucleic acid RNA nuclease activity catalytic activity RNA binding binding nucleic acid binding	regulation of growth regulation of biological process biological regulation growth regulation of cellular process negative regulation of biological process protein biosynthetic process regulation of primary metabolic process post-transcriptional regulation of gene expression negative regulation of translation negative regulation of cellular process protein metabolic process negative regulation of protein metabolic process negative regulation of macromolecule metabolic process regulation of growth regulation of biological process biological regulation growth regulation of cellular process negative regulation of biological process protein biosynthetic process regulation of primary metabolic process post-transcriptional regulation of gene expression negative regulation of translation negative regulation of cellular process protein metabolic process negative regulation of protein metabolic process negative regulation of macromolecule metabolic process regulation of biosynthetic process regulation of protein metabolic process negative regulation of metabolic process primary metabolic process regulation of macromolecule metabolic process gene expression translation macromolecule biosynthetic process regulation of gene expression negative regulation of gene expression biosynthetic process negative regulation of biosynthetic process regulation of translation negative regulation of macromolecule biosynthetic process regulation of macromolecule biosynthetic process metabolic process cellular process macromolecule metabolic process regulation of metabolic process catabolic process RNA metabolic process macromolecule catabolic process nucleobase-containing compound metabolic process regulation of RNA metabolic process regulation of mRNA catabolic process regulation of nucleobase-containing compound metabolic process regulation of biological quality RNA catabolic process mRNA catabolic process regulation of catabolic process mRNA metabolic process nucleic acid metabolic process nucleobase-containing compound catabolic process regulation of mRNA stability regulation of RNA stability nucleic acid catabolic process regulation of mRNA metabolic process 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	protein-containing complex transcription regulator complex toxin-antitoxin complex transcription repressor complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B, D	IPR039060	Antitoxin HigA	Family
B, D	IPR001387	Cro/C1-type, helix-turn-helix domain	Domain
B, D	IPR010982	Lambda repressor-like, DNA-binding domain superfamily	Homologous Superfamily
A, C	IPR018669	Toxin-antitoxin system, mRNA interferase HigB	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.