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17  structures 8474  species 0  interactions 16674  sequences 139  architectures

Clan: YqgF (CL0580)

Summary

YqgF-like family Add an annotation

This clain contains the bacterial YqgF family [1-2] and homologous domains in bacterial Tex proteins [3], involved in transcriptional processes, and eukaryotic transcription elongation factor SPT6 [4-5].

This clan contains 3 families and the total number of domains in the clan is 16674. The clan was built by RY Eberhardt.

Literature references

  1. Liu D, Wang YS, Wyss DF;, J Biomol NMR. 2003;27:389-392.: Solution structure of the hypothetical protein YqgF from Escherichia coli reveals an RNAse H fold. PUBMED:14512736 EPMC:14512736
  2. Aravind L, Makarova KS, Koonin EV; , Nucleic Acids Res. 2000;28:3417-3432.: Holliday junction resolvases and related nucleases: identification of new families, phyletic distribution and evolutionary trajectories. PUBMED:10982859 EPMC:10982859
  3. Johnson SJ, Close D, Robinson H, Vallet-Gely I, Dove SL, Hill CP;, J Mol Biol. 2008;377:1460-1473.: Crystal structure and RNA binding of the Tex protein from Pseudomonas aeruginosa. PUBMED:18321528 EPMC:18321528
  4. McDonald SM, Close D, Xin H, Formosa T, Hill CP;, Mol Cell. 2010;40:725-735.: Structure and biological importance of the Spn1-Spt6 interaction, and its regulatory role in nucleosome binding. PUBMED:21094070 EPMC:21094070
  5. Close D, Johnson SJ, Sdano MA, McDonald SM, Robinson H, Formosa T, Hill CP;, J Mol Biol. 2011;408:697-713.: Crystal structures of the S. cerevisiae Spt6 core and C-terminal tandem SH2 domain. PUBMED:21419780 EPMC:21419780

Members

This clan contains the following 3 member families:

RuvX Tex_YqgF YqgF

Domain organisation

Below is a listing of the unique domain organisations or architectures from this clan. More...

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Alignments

The table below shows the number of occurrences of each domain throughout the sequence database. More...

Pfam family Num. domains Alignment
RuvX (PF03652) 8451 (50.7%) View
Tex_YqgF (PF16921) 6317 (37.9%) View
YqgF (PF14639) 1906 (11.4%) View
Total: 3 Total: 16674 Clan alignment
 

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Family relationships

This diagram shows the relationships between members of this clan. More...

Species distribution

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This tree shows the occurrence of the domains in this clan across different species. More...

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Structures

For those sequences which have a structure in the Protein DataBank, we use the mapping between UniProt, PDB and Pfam coordinate systems from the MSD group, to allow us to map Pfam domains onto UniProt three-dimensional structures. The table below shows the mapping between the Pfam families in this clan, the corresponding UniProt entries, and the region of the three-dimensional structures that are available for that sequence.

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