4L5G | pdb_00004l5g

Crystal structure of Thermus thermophilus CarD

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)
B	CarD_CdnL_TRCF	e4l5gB1	A: beta barrels	X: SH3	H: SH3	T: SH3	F: CarD_CdnL_TRCF	ECOD (1.6)
B	CdnL	e4l5gB2	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: CdnL	ECOD (1.6)
A	CarD_CdnL_TRCF	e4l5gA1	A: beta barrels	X: SH3	H: SH3	T: SH3	F: CarD_CdnL_TRCF	ECOD (1.6)
A	CdnL	e4l5gA2	A: alpha arrays	X: HTH	H: HTH	T: tri-helical	F: CdnL	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
B	2.40.10.170	Mainly Beta	Beta Barrel	Thrombin, subunit H		CATH (4.3.0)
B	1.20.58.1290	Mainly Alpha	Up-down Bundle	Methane Monooxygenase Hydroxylase	Chain G, domain 1	CATH (4.3.0)
A	2.40.10.170	Mainly Beta	Beta Barrel	Thrombin, subunit H		CATH (4.3.0)
A	1.20.58.1290	Mainly Alpha	Up-down Bundle	Methane Monooxygenase Hydroxylase	Chain G, domain 1	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B	PF02559	CarD-like/TRCF RID domain (CarD_TRCF_RID)	CarD-like/TRCF RID domain	This is the RNA polymerase interacting domain (RID) of transcription-repair-coupling factor (TRCF), CarD and CarD homologue in Myxococcus xanthus, called CdnL. In Myxococcus xanthus, CdnL is a protein required for the activation of light- and starvat ...	This is the RNA polymerase interacting domain (RID) of transcription-repair-coupling factor (TRCF), CarD and CarD homologue in Myxococcus xanthus, called CdnL. In Myxococcus xanthus, CdnL is a protein required for the activation of light- and starvation-inducible genes [1]. It interacts with the zinc-binding protein CarG to form a complex that regulates multiple processes in Myxococcus xanthus [4]. CarD is widely distributed among bacteria and represents a distinct class of RNAP binding proteins that regulate transcription and essential processes [4-8]. TRCF displaces RNA polymerase stalled at a lesion, binds to the damage recognition protein UvrA, and increases the template strand repair rate during transcription [3].	Domain
A, B	PF21095	CarD, C-terminal domain (CarD_C)	CarD, C-terminal domain	This entry represents the C-terminal helical domain of CarD from Mycobacterium tuberculosis, a RNAP-binding protein that regulates transcription and essential processes [1-3]. This domain binds DNA in a non-specific manner [4].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B	CarD	-	RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process DNA-templated transcription nucleic acid biosynthetic process biosynthetic process rRNA transcription metabolic process cellular process RNA metabolic process primary metabolic process nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process DNA-templated transcription nucleic acid biosynthetic process biosynthetic process rRNA transcription metabolic process cellular process macromolecule metabolic process rRNA metabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B	IPR042215	CarD-like, C-terminal domain	Homologous Superfamily
A, B	IPR048792	CarD, C-terminal domain	Domain
A, B	IPR052531	CarD-like transcription regulator	Family
A, B	IPR036101	CarD-like/TRCF, RNAP-interacting domain superfamily	Homologous Superfamily
A, B	IPR003711	CarD-like/TRCF, RNAP-interacting 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.