6KUKA

Structure of influenza d virus polymerase bound to vrna promoter in mode a conformation (class a1)
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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.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: 109
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 84-349 266 1-79, 360-527 80-83, 350-359 79 168 slipknot
Chain Sequence
ELEMYKSKLFIAMRDESVPLPYINYEHLRTRCETFKRNQAECEAKVADVASRLKIKLEHLEENKLRPLEIPKEKEAPYTHKFLMKDAWFFAKPHDSERAQPQQILYDFFEAANMGFMTTSPKPIFGKQGLMYHSLWGQTKRAIKDKRNELEPSEQRDFLCGIGRASKKIQEDKWQESREEEFKQEETKGAAKRGFPTWFNEEWLWAMRDS-----KIGDWIPMAEMPPCKNEMEDYAKKMCEELESKIQGTNCAREMSKLIHTIGSLHTECRNFPGKVKIVPIYCRGTLRGESTDCLFGIAIKGKSHLNKDDGMYTVVTFEFSTEEPNPSKHEKYTVFEAGTVPVEAKEKKL-----------FLYCRTTGMSKLKNDWFSKCRRCLIPTMETVEQIVLKECALKEENRVSEMLENKRAWIAHENGENLTRLVSTKLKDLCRMLIVTQFYYCIYNDNQLEGFCNEQKKFLMFLQADKDSKSAFTFNQKGLYEKIEECIVSNPLCIFLADRLNKLFLVAKSNGAKYFE
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 83-315 233 1-75, 324-527 76-82, 316-323 75 204 slipknot
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1.1m 86-338 253 1-75, 364-527 76-85, 339-363 75 164 slipknot
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2.1m 84-323 240 1-77, 332-527 78-83, 324-331 77 196 slipknot
sequence length 527
structure length 511
publication title Structure of influenza D virus polymerase bound to vRNA promoter in mode A conformation (class A1)
rcsb
molecule tags Viral protein/rna
molecule keywords Polymerase 3
source organism Influenza d virus (d/swine/oklahoma/1334/2011)
missing residues 211-215, 348-358
total genus Genus: 109
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 pdb database (?% sequence similarity)

  
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How to cite
KnotProt | Interdisciplinary Laboratory of Biological Systems Modelling