3CM8A

A rna polymerase subunit structure from virus
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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.
Slipknot S -31
Knot core range Knot core length Knot tails range Slipknot tails range Slipknot loops range N-end length C-end length Type
view details
-31 25-299 275 1-22, 302-460 23-24, 300-301 22 159 slipknot
Chain Sequence
IEPFLKTTPRPLRLPDGPPCSQRSKFLLMDALKLSIE--------IPLYDAIKCMKTFFGWKEPNIVKPHEKGINPNYLLAWKQVLAELQDIENEEKIPKTKNMRKTSQLKWALGENMAPEKVDFEDCKDVSEPKPRSLA--------SWIQSEFNKACELTDSSWIELDEIIASMRRNYFTAEVSHC---------RATEYIMKGVYINTALLNASCAAMDDFQLIPMISKCRTKEGRRKTNLYGFIIKGRSHLRNDTDVVNFVSMEFSLTDPRLEPHKWEKYCVLEIGDMLLRTAIGQVSRPMFLYVRTNGTSKIKMKWGMEMRRCLLQSLQQIESMIEAESSVKEKDMTKEFFENKSETWPIGESPKGMEEGSIGKVCRTLLAKSVFNSLYASPQLEGFSAESRKLLLIVQALRDNLEPGTFDLGGLYEAIEECLINDPWVLLNASWFNSFLTHALK
Whole chain analysis
Subchain analysis 

Knotoid cutoff: 0.5


Knotoid matrix content: 1

Knot core range Knot core length Knot tails range Slipknot tails range Slipknot loops range N-end length C-end length Type
view details
2.1m 31-263 233 1-18, 281-435 19-30, 264-280 18 155 slipknot
view details
2.1m 28-245 218 1-20, 256-435 21-27, 246-255 20 180 slipknot
view details
1.1m 26-241 216 1-21, 246-435 22-25, 242-245 21 190 slipknot
missing residues 38-45, 133-140, 173-181
publication title Crystal structure of the polymerase PAC-PB1N complex from an avian influenza H5N1 virus
pubmed doi rcsb
structure length 435
molecule tags Rna binding protein/transferase
source organism Influenza a virus
sequence length 460
total genus Genus: 130
molecule keywords Polymerase acidic protein
ec nomenclature
pdb deposition date 2008-03-21
KnotProt deposition date 2014-07-31

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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