InterPro : IPR009061

Name  DNA binding domain, putative Short Name  DNA-bd_dom_put
Type  Domain Description  A putative DNA-binding domain with a conserved structure is found in several different protein families. The core structure of the domain consists of a three-helical fold that is architecturally similar to that of the "winged-helix" fold, but is topologically distinct. Representatives of this domain can be found in domains B1 and B5 from the beta subunit of phenylalanine-tRNA synthetases [], the C-terminal region of the DNA/RPA-binding domain of the DNA excision repair factor XPA [], the N-terminal domain of the transcriptional activators BmrR and MtaN [], the most conserved domain of the retinal development protein Dachshund [], and the DNA-binding domain of the gpNU1 subunit from the bacteriophage lambda viral packing protein terminase [].

Sequence Features

GO Displayer


InterPro protein domain ID --> Contigs



7 Child Features

Id Name Short Name Type
IPR003380 Transforming protein Ski Transform_Ski Domain
IPR022656 XPA C- terminal XPA_C Domain
IPR005147 tRNA synthetase, B5-domain tRNA_synthase_B5-dom Domain
IPR000551 MerR-type HTH domain MerR-type_HTH_dom Domain
IPR010093 SinI-like, DNA-binding domain SinI_DNA-bd Domain
IPR012884 Excisionase-like Excisionase-like Domain
IPR003314 Transposase MuA/Repressor CI, DNA-binding MuA/CI_DNA-bd Domain

1 Contains

Id Name Short Name Type
IPR022658 XPA, conserved site XPA_CS Conserved_site

5 Found In

Id Name Short Name Type
IPR000465 XPA XPA Family
IPR004531 Phenylalanyl-tRNA synthetase, class IIc, beta subunit, archae/euk cytosolic Phe-tRNA-synth_IIc_bsu_arc Family
IPR010906 Bacteriophage lambda, Nu1, terminase small subunit Phage_lambda_Nu1_terminase-ssu Family
IPR004532 Phenylalanine-tRNA ligase, class IIc, beta subunit Phe-tRNA-ligase_IIc_bsu Family
IPR010749 Protein of unknown function DUF1323 DUF1323 Family

0 Parent Features

5 Publications

First Author Title Year Journal Volume Pages
Fishman R Structure at 2.6 A resolution of phenylalanyl-tRNA synthetase complexed with phenylalanyl-adenylate in the presence of manganese. 2001 Acta Crystallogr D Biol Crystallogr 57 1534-44
Buchko GW Interactions of human nucleotide excision repair protein XPA with DNA and RPA70 Delta C327: chemical shift mapping and 15N NMR relaxation studies. 1999 Biochemistry 38 15116-28
Heldwein EE Crystal structure of the transcription activator BmrR bound to DNA and a drug. 2001 Nature 409 378-82
Kim SS Structure of the retinal determination protein Dachshund reveals a DNA binding motif. 2002 Structure 10 787-95
de Beer T Insights into specific DNA recognition during the assembly of a viral genome packaging machine. 2002 Mol Cell 9 981-91

To cite PlanMine, please refer to the following publication:

Rozanski, A., Moon, H., Brandl, H., Martín-Durán, J. M., Grohme, M., Hüttner, K., Bartscherer, K., Henry, I., & Rink, J. C.
PlanMine 3.0—improvements to a mineable resource of flatworm biology and biodiversity
Nucleic Acids Research, gky1070. doi:10.1093/nar/gky1070 (2018)