5JIRA

Crystal structure of treponema pallidum protein tp0624
Total Genus 129
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The genus trace: a function that shows values of genus (vertical axis) for subchains spanned between the first residue, and all other residues (shown on horizontal axis). The number of the latter residue and the genus of a given subchain are shown interactively.

Total Genus
129
Knots found
sequence length
413
structure length
413
Chain Sequence
AVHTDAVQDWKNGTINAQLTLDLARARMRLPADRTAASQFLRYKAPAQLKDVYLSVLVDSQNRVGDCLAHEKIRLADITALVDAGHHAVTTLSPSVRSLQLSHQTPLTALARLFVTHETAYVPAIPPTSAVSRPYTGILIDARGSLPVHGEYVSEPLSACLFPKIWSTDMDLIYEKNMVHPDRAKAWGVVRYGSVWDEKMYRDRIGTTPLKIIARGVFGQQRTDPIIASKDAAQILARPENLRLLAEGNVIILCDEAALRVHVPYPLVDEHFYFAYHDVKRFLTDERSPGVGVRSGINTLKITVYDVRFVANSPEILASEKDRVDVIATALKKMGPYTRFLIEGHTADLHRPQEEAALSVARAQRMAQELSRRGIEMTRITTAGHGATKPIAPSDTHANKAKNRRVEITILRD
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The genus matrix. At position (x,y) a genus value for a subchain spanned between x’th and y’th residue is shown. Values of the genus are represented by color, according to the scale given on the right.

Structure visualization

After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

Chord Diagram
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molecule keywords OOP family OmpA-OmpF porin
publication title The Structure of Treponema pallidum Tp0624 Reveals a Modular Assembly of Divergently Functionalized and Previously Uncharacterized Domains.
pubmed doi rcsb
source organism Treponema pallidum (strain nichols)
molecule tags Unknown function
total genus 129
structure length 413
sequence length 413
chains with identical sequence B
other databases KnotProt 2.0: K +31
ec nomenclature
pdb deposition date 2016-04-22

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00691 OmpA OmpA family
Image from the rcsb pdb (www.rcsb.org)
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similar chains in the Genus database (?% sequence similarity)
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similar chains in the pdb database (?% sequence similarity)

 
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