double-stranded DNA-binding family protein [Arabidopsis thaliana (thale cress)] - Gene

Summary

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Official Full Name: double-stranded DNA-binding family protein
Primary source: TAIR:AT1G29850
Locus tag: AT1G29850
See related: Araport:AT1G29850
Gene type: protein coding
RefSeq status: REVIEWED
Organism: Arabidopsis thaliana (ecotype: Columbia)
Lineage: Eukaryota; Viridiplantae; Streptophyta; Embryophyta; Tracheophyta; Spermatophyta; Magnoliopsida; eudicotyledons; Gunneridae; Pentapetalae; rosids; malvids; Brassicales; Brassicaceae; Camelineae; Arabidopsis
Also known as: F1N18.11; F1N18_11
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Genomic context

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See in Genome Data Viewer

Location:: chromosome: 1

Exon count:: 7

Sequence:: Chromosome: 1; NC_003070.9 (10447347..10449969)

Chromosome 1 - NC_003070.9 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:: NC_003070.9

Go to nucleotide: Graphics FASTA GenBank

Bibliography

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

AtPDCD5 not only plays an important role during DNA damage responses induced by UV-B radiation, but also takes part in programmed cell death programs such as dark-induced senescence in Arabidopsis.[AtPDCD5]
Title: AtPDCD5 plays a role during dark-senescence in Arabidopsis.
AtPDCD5 plays an important role during DNA damage responses induced by UV-B radiation in Arabidopsis and also participates in programmed cell death programs.
Title: AtPDCD5 Plays a Role in Programmed Cell Death after UV-B Exposure in Arabidopsis.

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Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Homology

Orthologs from OrthoDB

NM_001332876.1

Supported by ESTs:

NM_102725.5

Supported by ESTs:

NM_179397.2

Supported by ESTs:

Gene Ontology Provided by TAIR

Function	Evidence Code	Pubs
enables damaged DNA binding	IMP Inferred from Mutant Phenotype more info	PubMed
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed

Process	Evidence Code	Pubs
acts_upstream_of_or_within DNA repair	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in biological_process	ND No biological Data available more info
acts_upstream_of_or_within programmed cell death	IMP Inferred from Mutant Phenotype more info	PubMed

Component	Evidence Code	Pubs
located_in cytosol	HDA more info	PubMed
located_in cytosol	IDA Inferred from Direct Assay more info	PubMed
located_in nucleus	HDA more info	PubMed
located_in nucleus	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: double-stranded DNA-binding family protein

NP_001319109.1

double-stranded DNA-binding family protein; FUNCTIONS IN: double-stranded DNA binding, DNA binding; INVOLVED IN: biological_process unknown; LOCATED IN: cellular_component unknown; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: DNA-binding TFAR19-related protein (InterPro:IPR002836); Has 679 Blast hits to 679 proteins in 318 species: Archae - 256; Bacteria - 0; Metazoa - 134; Fungi - 121; Plants - 56; Viruses - 0; Other Eukaryotes - 112 (source: NCBI BLink).

NP_564336.1

double-stranded DNA-binding family protein; FUNCTIONS IN: double-stranded DNA binding, DNA binding; INVOLVED IN: biological_process unknown; LOCATED IN: cellular_component unknown; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: DNA-binding TFAR19-related protein (InterPro:IPR002836); Has 689 Blast hits to 689 proteins in 324 species: Archae - 253; Bacteria - 2; Metazoa - 140; Fungi - 128; Plants - 54; Viruses - 0; Other Eukaryotes - 112 (source: NCBI BLink).

NP_849728.1

double-stranded DNA-binding family protein; FUNCTIONS IN: double-stranded DNA binding, DNA binding; INVOLVED IN: biological_process unknown; LOCATED IN: cellular_component unknown; EXPRESSED IN: 24 plant structures; EXPRESSED DURING: 15 growth stages; CONTAINS InterPro DOMAIN/s: DNA-binding TFAR19-related protein (InterPro:IPR002836); Has 693 Blast hits to 693 proteins in 323 species: Archae - 253; Bacteria - 0; Metazoa - 146; Fungi - 128; Plants - 52; Viruses - 0; Other Eukaryotes - 114 (source: NCBI BLink).

NCBI Reference Sequences (RefSeq)

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Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

NC_003070.9 Reference assembly

Range

10447347..10449969

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GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

NM_102725.5 → NP_564336.1 double-stranded DNA-binding family protein [Arabidopsis thaliana]

See identical proteins and their annotated locations for NP_564336.1

Status: REVIEWED

UniProtKB/TrEMBL

A0A178W2K7, Q8LBF6, Q9FXG0

Conserved Domains (1) summary

pfam01984
Location:9 → 123

dsDNA_bind; Double-stranded DNA-binding domain
NM_001332876.1 → NP_001319109.1 double-stranded DNA-binding family protein [Arabidopsis thaliana]

Status: REVIEWED

UniProtKB/TrEMBL

F4I354
NM_179397.2 → NP_849728.1 double-stranded DNA-binding family protein [Arabidopsis thaliana]

See identical proteins and their annotated locations for NP_849728.1

Status: REVIEWED

UniProtKB/TrEMBL

A0A178W4B8, F4I355

Conserved Domains (1) summary

pfam01984
Location:9 → 111

dsDNA_bind; Double-stranded DNA-binding domain