3S7NA

Crystal structure of the alternate his 207 conformation of the infrared fluorescent d207h variant of deinococcus bacteriophytochrome chromophore binding domain at 2.45 angstrom resolution
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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.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: 78
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 27-268 242 1-26, 269-317 26 49 knot
Chain Sequence
PFFPPLYLGGPEITTENCEREPIHIPGSIQPHGALLTADGHSGEVLQMSLNAATFLGQEPTVLRGQTLAALLPEQWPALQAALPPGCPDALQYRATLDWPAAGHLSLTVHRVGELLILEFEPTE----TGPHALRNAMFALESAPNLRALAEVATQTVRELTGFDRVMLYKFAPDATGEVIAEARREGLHAFLGHRFPASHIPAQARALYTRHLLRLTADTRAAAVPLDPVLNPQTNAPTPLGGAVLRATSPMHMQYLRNMGVGSSLSVSVVVGGQLWGLIACHHQTPYVLPPDLRTTLESLGRLLSLQVQVKEALE
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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4.1 27-300 274 1-26, 301-313 26 13 knot
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4.1 27-268 242 1-26 281-313 269-280 26 33 slipknot
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4.1 10-267 258 1-3, 269-313 4-9, 268-268 3 45 slipknot
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3.2m 18-267 250 1-10, 269-313 11-17, 268-268 10 45 slipknot
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3.2 30-268 239 1-26, 275-313 27-29, 269-274 26 39 slipknot
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3.2 30-304 275 305-313 1-26 27-29 26 8 slipknot
sequence length 317
structure length 313
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 125-128
total genus Genus: 78
ec nomenclature ec 2.7.13.3: Histidine kinase.
pdb deposition date 2011-05-26
KnotProt deposition date 2014-08-18

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