3S7QA

Crystal structure of a monomeric infrared fluorescent deinococcus radiodurans bacteriophytochrome chromophore binding domain
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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.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: 81
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 28-267 240 1-27, 268-317 27 50 knot
Chain Sequence
PFFPPLYLGGPEITTENCEREPIHIPGSIQPHGALLTADGHSGEVLQMSLNAATFLGQEPTVLRGQTLAALLPEQWPALQAALPPGCPDALQYRATLDWPAAGHLSLTVHRVGELLILEFEPTE-------HALRNAMSALESAPNLRALAEVATQTVRELTGFDRVMLYKFAPDATGEVIAEARREGLHAFLGHRFPASHIPAQARALYTRHLLRLTADTRAAAVPLDPVLNPQTNAPTPLGGAVLRATSPMHMQFLRNMGVGSSLSVSVVVGGQLWGLIACHHQTPYVLPPDLRTTLEYLGRELSEQVQVKEALE
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 27-257 231 1-26 270-310 258-269 26 41 slipknot
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3.2m 7-269 263 1-1, 271-310 2-6, 270-270 1 40 slipknot
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3.2m 26-270 245 1-25 280-310 271-279 25 31 slipknot
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3.2m 26-282 257 1-25 303-310 283-302 25 8 slipknot
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3.2m 26-302 277 303-310 1-2 3-25 2 7 slipknot
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3.2 30-297 268 298-310 1-25 26-29 25 12 slipknot
sequence length 317
structure length 310
publication title Structure-guided engineering enhances a phytochrome-based infrared fluorescent protein.
pubmed doi rcsb
molecule tags Fluorescent protein
molecule keywords Bacteriophytochrome
source organism Deinococcus radiodurans
missing residues 125-131
total genus Genus: 81
ec nomenclature ec 2.7.13.3: Histidine kinase.
pdb deposition date 2011-05-26
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)

  
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#similar chains, but unknotted
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How to cite
KnotProt | Interdisciplinary Laboratory of Biological Systems Modelling