6KUVA

Structure of influenza d virus polymerase bound to crna promoter in class 2
Warning
  • Chain breaks within knot 31 (displayed as a gray area on the plot and as '-' on the sequence). The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.
Genus: 153
Slipknot S -31

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Knot core range Knot core length Knot tails range Slipknot tails range Slipknot loops range N-end length C-end length Type
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-31 262-524 263 1-259, 538-707 260-261, 525-537 259 170 slipknot
Chain Sequence
VIREIAKRFLEQATINIAEEVVREYGDHERTMISVGVHFQACCLISDEYTLEDETTPRYVLLEGLKRQEAISKQNNICSTLGLEPLRNLADIFDRKTRRFLEVGITKRESDEYYQEKFNKIGNDMDIHVFTYEGKYFSNNPNGLEDIQKTRIFTFLSFVSDELRKENMFTEMYVT-----ELEMYKSKLFIAMRDESVPLPYINYEHLRTRCETFKRNQAECEAKVADVASRLKIKLEHLEENKLRPLEIPKEKEAPYTHKFLMKDAWFFAKPHDSERAQPQQILYDFFEAANMGFMTTSPKPIFGKQGLMYHSLWGQTKRAIKDKRNELEPSEQRDFLCGIGRASKKIQEDKWQESREEEFKQEETKGAAKRGFPTWFNEEWLWAMRDSKIGDW-----IPMAEMPPCKNEMEDYAKKMCEELESKIQGTNCAREMSKLIHTIGSLHTECRNFPGKVKIVPIYCRGTLRGESTDCLFGIAIKGKSHLNKDDGMYTVVTFEFSTEEPNPSKHEKYTVFEAGTVPVEAKEKKLFLYCR-----------TTGMSKLKNDWFSKCRRCLIPTMETVEQIVLKECALKEENRVSEMLENKRAWIAHENGENLTRLVSTKLKDLCRMLIVTQFYYCIYNDNQLEGFCNEQKKFLMFLQADKDSKSAFTFNQKGLYEKIEECIVSNPLCIFLADRLNKLFLVAKSNGAKYFE
Whole chain analysis

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Subchain analysis 

Knotoid cutoff: 0.5


Knotoid matrix content: 1


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Knot core range Knot core length Knot tails range Slipknot tails range Slipknot loops range N-end length C-end length Type
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1.1m 263-495 233 1-256, 503-707 257-262, 496-502 256 205 slipknot
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2.1m 263-503 241 1-257, 514-707 258-262, 504-513 257 194 slipknot
sequence length 707
structure length 686
publication title Structure of influenza D virus polymerase bound to cRNA promoter in Mode B conformation
rcsb
molecule tags Viral protein/rna
molecule keywords Polymerase 3
source organism Influenza d virus (d/swine/oklahoma/1334/2011)
missing residues 176-180, 391-395, 528-538
total genus Genus: 153
ec nomenclature
pdb deposition date 2019-09-02
KnotProt deposition date 2019-10-17

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00603 Flu_PA Influenza RNA-dependent RNA polymerase subunit PA
Image from the rcsb pdb (www.rcsb.org)
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similar chains in the KnotProt database (?% sequence similarity)
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similar chains in the pdb database (?% sequence similarity)

  
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How to cite
KnotProt | Interdisciplinary Laboratory of Biological Systems Modelling