4IJGA

Crystal structure of monomeric bacteriophytochrome
Warning
  • Chain breaks within knot 41 (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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.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: 89
Knot K 41 41

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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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41 28-268 241 1-27, 269-317 27 49 knot
Chain Sequence
PFFPPLYLGGPEITTENCEREPIHIPGSIQPHGALLTADGHSGEVLQMSLNAATFLGQEPTVLRGQTLAALLPEQWPALQAALPPGCPDALQYRATLDWPAAGHLSLTVHRVGELLILEFEPTE------PHALRNAMSALESAPNLRALAEVATQTVRELTGFDRVMLYKFAPDATGEVIAEARREGLHAFLGHRFPASDIPAQARALYTRHLLRLTADTRAAAVPLDPVLNPQTNAPTPLGGAVLRATSPMHMQYLRNMGVGSSLSVSVVVGGQLWGLIACHHQTPYVLPPDLRTTLEYLGRELSEQVQVKEALE
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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3.2m 24-258 235 1-23 267-311 259-266 23 45 slipknot
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3.2m 7-267 261 1-6 270-311 268-269 6 42 slipknot
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3.2m 8-269 262 1-7 271-311 270-270 7 41 slipknot
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3.2m 27-269 243 1-26 301-311 270-300 26 11 slipknot
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3.2m 27-300 274 301-311 1-2 3-26 2 10 slipknot
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3.2 29-300 272 301-311 1-26 27-28 26 10 slipknot
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3.2m 30-264 235 1-24, 273-311 25-29, 265-272 24 39 slipknot
sequence length 317
structure length 311
publication title Crystal structure of monomeric bacteriophytochrome
rcsb
molecule tags Signaling protein
molecule keywords Bacteriophytochrome
source organism Deinococcus radiodurans
missing residues 125-130
total genus Genus: 89
ec nomenclature ec 2.7.13.3: Histidine kinase.
pdb deposition date 2012-12-21
KnotProt deposition date 2014-07-31

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF01590 GAF GAF domain
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)

  
#similar chains in the KnotProt database (?% sequence similarity)
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#similar chains, but unknotted
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How to cite
KnotProt | Interdisciplinary Laboratory of Biological Systems Modelling