Summary: WhiA LAGLIDADG-like domain
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WhiA LAGLIDADG-like domain Provide feedback
This domain is found within the sporulation regulator WhiA. It is a LAGLIDADG superfamily like domain [1-2].
Knizewski L, Ginalski K; , Cell Cycle. 2007;6:1666-1670.: Bacterial DUF199/COG1481 Proteins Including Sporulation Regulator WhiA are Distant Homologs of LAGLIDADG Homing Endonucleases That Retained Only DNA Binding. PUBMED:17603302 EPMC:17603302
Internal database links
|Similarity to PfamA using HHSearch:||LAGLIDADG_3|
External database links
This tab holds annotation information from the InterPro database.
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This superfamily includes a variety of LAGLIDADG-like homing endonuclease like families.
The clan contains the following 7 members:Endonuc_subdom Hom_end LAGLIDADG_1 LAGLIDADG_2 LAGLIDADG_3 LAGLIDADG_WhiA WhiA_N
We make a range of alignments for each Pfam-A family:
- the curated alignment from which the HMM for the family is built
- the alignment generated by searching the sequence database using the HMM
- Representative Proteomes (RPs) at 15%, 35%, 55% and 75% co-membership thresholds
- alignment generated by searching the NCBI sequence database using the family HMM
- alignment generated by searching the metagenomics sequence database using the family HMM
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1Cannot generate PP/Heatmap alignments for seeds; no PP data available
Key: available, not generated, — not available.
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Curation and family details
This family is new in this Pfam release.
|Number in seed:||23|
|Number in full:||1981|
|Average length of the domain:||93.00 aa|
|Average identity of full alignment:||42 %|
|Average coverage of the sequence by the domain:||29.70 %|
|HMM build commands:||
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 23193494 -E 1000 --cpu 4 HMM pfamseq
|Family (HMM) version:||1|
|Download:||download the raw HMM for this family|
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For those sequences which have a structure in the Protein DataBank, we use the mapping between UniProt, PDB and Pfam coordinate systems from the PDBe group, to allow us to map Pfam domains onto UniProt sequences and three-dimensional protein structures. The table below shows the structures on which the LAGLIDADG_WhiA domain has been found. There are 3 instances of this domain found in the PDB. Note that there may be multiple copies of the domain in a single PDB structure, since many structures contain multiple copies of the same protein seqence.
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