3S7PA

Crystal structure of the infrared fluorescent d207h variant of deinococcus bacteriophytochrome chromophore binding domain at 1.72 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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.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: 84
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 30-270 241 1-29, 271-319 29 49 knot
Chain Sequence
PLPFFPPLYLGGPEITTENCEREPIHIPGSIQPHGALLTADGHSGEVLQMSLNAATFLGQEPTVLRGQTLAALLPEQWPALQAALPPGCPDALQYRATLDWPAAGHLSLTVHRVGELLILEFEPTE----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 28-306 279 1-27, 307-315 27 9 knot
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3.2m 27-262 236 1-26 272-315 263-271 26 44 slipknot
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3.2m 28-286 259 1-27 305-315 287-304 27 11 slipknot
sequence length 319
structure length 315
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 127-130
total genus Genus: 84
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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How to cite
KnotProt | Interdisciplinary Laboratory of Biological Systems Modelling