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91  structures 5866  species 0  interactions 19121  sequences 46  architectures

Family: OsmC (PF02566)

Summary: OsmC-like protein

Pfam includes annotations and additional family information from a range of different sources. These sources can be accessed via the tabs below.

The Pfam group coordinates the annotation of Pfam families in Wikipedia, but we have not yet assigned a Wikipedia article to this family. If you think that a particular Wikipedia article provides good annotation, please let us know.

This tab holds the annotation information that is stored in the Pfam database. As we move to using Wikipedia as our main source of annotation, the contents of this tab will be gradually replaced by the Wikipedia tab.

OsmC-like protein Provide feedback

Osmotically inducible protein C (OsmC) (P23929) is a stress -induced protein found in E. Coli. This family also contains a organic hydroperoxide detoxification protein (O68390) that has a novel pattern of oxidative stress regulation [1].

Literature references

  1. Mongkolsuk S, Praituan W, Loprasert S, Fuangthong M, Chamnongpol S; , J Bacteriol 1998;180:2636-2643.: Identification and characterization of a new organic hydroperoxide resistance (ohr) gene with a novel pattern of oxidative stress regulation from Xanthomonas campestris pv. phaseoli. PUBMED:9573147 EPMC:9573147


Internal database links

External database links

This tab holds annotation information from the InterPro database.

InterPro entry IPR003718

The transcription of the osmC gene of E. coli is regulated as a function of the phase of growth and is induced during the late exponential phase when the growth rate slows before entry into stationary phase. The transcription is initiated by two overlapping promoters, osmCp1 and osmCp2 [ PUBMED:8820643 ].

Ohr from Xanthomonas campestris pv. phaseoli is highly induced by organic hydroperoxides, weakly induced by H2O2, and not induced at all by a superoxide generator. OHR may be a new type of organic hydroperoxide detoxification protein [ PUBMED:9573147 , PUBMED:18084893 ].

This family of peroxiredoxins includes osmotically inducible protein C (OsmC), a stress-induced protein found in Escherichia coli. This family also contains organic hydroperoxide resistance protein (Ohr), that has a novel pattern of oxidative stress regulation.

Domain organisation

Below is a listing of the unique domain organisations or architectures in which this domain is found. More...

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Alignments

We store a range of different sequence alignments for families. As well as the seed alignment from which the family is built, we provide the full alignment, generated by searching the sequence database (reference proteomes) using the family HMM. We also generate alignments using four representative proteomes (RP) sets and the UniProtKB sequence database. More...

View options

We make a range of alignments for each Pfam-A family. You can see a description of each above. You can view these alignments in various ways but please note that some types of alignment are never generated while others may not be available for all families, most commonly because the alignments are too large to handle.

  Seed
(103)
Full
(19121)
Representative proteomes UniProt
(91107)
RP15
(1942)
RP35
(8166)
RP55
(19972)
RP75
(38188)
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HTML View             
PP/heatmap 1            

1Cannot generate PP/Heatmap alignments for seeds; no PP data available

Key: ✓ available, x not generated, not available.

Format an alignment

  Seed
(103)
Full
(19121)
Representative proteomes UniProt
(91107)
RP15
(1942)
RP35
(8166)
RP55
(19972)
RP75
(38188)
Alignment:
Format:
Order:
Sequence:
Gaps:
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Download options

We make all of our alignments available in Stockholm format. You can download them here as raw, plain text files or as gzip-compressed files.

  Seed
(103)
Full
(19121)
Representative proteomes UniProt
(91107)
RP15
(1942)
RP35
(8166)
RP55
(19972)
RP75
(38188)
Raw Stockholm Download   Download   Download   Download   Download   Download   Download  
Gzipped Download   Download   Download   Download   Download   Download   Download  

You can also download a FASTA format file containing the full-length sequences for all sequences in the full alignment.

HMM logo

HMM logos is one way of visualising profile HMMs. Logos provide a quick overview of the properties of an HMM in a graphical form. You can see a more detailed description of HMM logos and find out how you can interpret them here. More...

Trees

This page displays the phylogenetic tree for this family's seed alignment. We use FastTree to calculate neighbour join trees with a local bootstrap based on 100 resamples (shown next to the tree nodes). FastTree calculates approximately-maximum-likelihood phylogenetic trees from our seed alignment.

Note: You can also download the data file for the tree.

Curation and family details

This section shows the detailed information about the Pfam family. You can see the definitions of many of the terms in this section in the glossary and a fuller explanation of the scoring system that we use in the scores section of the help pages.

Curation View help on the curation process

Seed source: Pfam-B_2694 (release 7.0)
Previous IDs: none
Type: Family
Sequence Ontology: SO:0100021
Author: Mian N , Bateman A , Finn RD
Number in seed: 103
Number in full: 19121
Average length of the domain: 100.5 aa
Average identity of full alignment: 20 %
Average coverage of the sequence by the domain: 59.33 %

HMM information View help on HMM parameters

HMM build commands:
build method: hmmbuild -o /dev/null HMM SEED
search method: hmmsearch -Z 61295632 -E 1000 --cpu 4 HMM pfamseq
Model details:
Parameter Sequence Domain
Gathering cut-off 27.5 27.5
Trusted cut-off 27.5 27.5
Noise cut-off 27.4 27.4
Model length: 100
Family (HMM) version: 22
Download: download the raw HMM for this family

Species distribution

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Archea Archea Eukaryota Eukaryota
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Viroids Viroids Unclassified sequence Unclassified sequence

Selections

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This visualisation provides a simple graphical representation of the distribution of this family across species. You can find the original interactive tree in the adjacent tab. 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 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 OsmC domain has been found. There are 91 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 sequence.

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AlphaFold Structure Predictions

The list of proteins below match this family and have AlphaFold predicted structures. Click on the protein accession to view the predicted structure.

Protein Predicted structure External Information
A0A077ZAA7 View 3D Structure Click here
A0A0D2F3G0 View 3D Structure Click here
A0A0D2GSN6 View 3D Structure Click here
A0A0H3GQ84 View 3D Structure Click here
A0A0H3GZC9 View 3D Structure Click here
A0A1C1CDM0 View 3D Structure Click here
A0A1C1D1Y0 View 3D Structure Click here
A4I9U3 View 3D Structure Click here
D4GXC5 View 3D Structure Click here
G3XDA4 View 3D Structure Click here
K0ELX4 View 3D Structure Click here
K0ENW7 View 3D Structure Click here
K0ERT8 View 3D Structure Click here
K0EXV2 View 3D Structure Click here
K0F3E5 View 3D Structure Click here
O31790 View 3D Structure Click here
O34762 View 3D Structure Click here
P0ADX1 View 3D Structure Click here
P0ADX3 View 3D Structure Click here
P0ADX4 View 3D Structure Click here
P0C0L2 View 3D Structure Click here
P0C0L3 View 3D Structure Click here
P47666 View 3D Structure Click here
P47692 View 3D Structure Click here
P70736 View 3D Structure Click here
P75123 View 3D Structure Click here
P75170 View 3D Structure Click here
P80242 View 3D Structure Click here
P9WL19 View 3D Structure Click here
Q2FXK3 View 3D Structure Click here
Q2G1T3 View 3D Structure Click here
Q32B10 View 3D Structure Click here
Q32G19 View 3D Structure Click here
Q49W40 View 3D Structure Click here
Q49WG0 View 3D Structure Click here
Q4CNT0 View 3D Structure Click here
Q4CTI9 View 3D Structure Click here
Q4L4R0 View 3D Structure Click here
Q55E30 View 3D Structure Click here
Q55EI4 View 3D Structure Click here