Please note: this site relies heavily on the use of javascript. Without a javascript-enabled browser, this site will not function correctly. Please enable javascript and reload the page, or switch to a different browser.
13  structures 4814  species 3  interactions 8063  sequences 79  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 8063. 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...

Loading domain graphics...

Alignments

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

Pfam family Num. domains Alignment
RuvX (PF03652) 4323 (53.6%) View
Tex_YqgF (PF16921) 2924 (36.3%) View
YqgF (PF14639) 816 (10.1%) View
Total: 3 Total: 8063 Clan alignment
 

Please note: Clan alignments can be very large and can cause problems for some browsers. Read the note above before viewing.

Family relationships

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

Species distribution

Tree controls

Hide

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

Loading...

Interactions

There are 3 interactions for this clan. More...

Interacting families
A B
RuvX RuvX
YqgF DLD
HHH_7

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.

Loading structure mapping...