Summary: O-Antigen ligase
O-Antigen ligase Provide feedback
This group of bacterial proteins is involved in the synthesis of O-antigen, a lipopolysaccharide found in the outer membrane in gram-negative bacteria. This family includes O-antigen ligases such as E. coli RfaL .
Klena JD, Pradel E, Schnaitman CA; , J Bacteriol. 1992;174:4746-4752.: Comparison of lipopolysaccharide biosynthesis genes rfaK, rfaL, rfaY, and rfaZ of Escherichia coli K-12 and Salmonella typhimurium. PUBMED:1624462 EPMC:1624462
External database links
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This example describes an architecture with one
Gladomain, followed by two consecutive
EGFdomains, and finally a single
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This superfamily is characterised by a group of bacterial proteins that are membrane proteins, and include O-antigen ligases and putative hydrogen carbonate transporters .
The clan contains the following 2 members:O-antigen_lig Wzy_C
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
You can see the alignments as HTML or in three different sequence viewers:
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- an HTML-based viewer that uses DAS to retrieve alignment fragments on request
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Curation and family details
|Seed source:||Pfam-B_5033 (release 7.6)|
|Author:||Moxon SJ, Bateman A|
|Number in seed:||81|
|Number in full:||1431|
|Average length of the domain:||165.80 aa|
|Average identity of full alignment:||18 %|
|Average coverage of the sequence by the domain:||32.83 %|
|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:||10|
|Download:||download the raw HMM for this family|
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