4O0PA

Crystal structure of d. radiodurans bacteriophytochrome photosensory core module in its dark form
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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.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: 108
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 32-271 240 1-31, 272-503 31 232 knot
Chain Sequence
DPLPFFPPLYLGGPEITTENCEREPIHIPGSIQPHGALLTADGHSGEVLQMSLNAATFLGQEPTVLRGQTLAALLPEQWPALQAALPPGCPDALQYRATLDWP---HLSLTVHRVGELLILEFEPTEAHAL------RNAMFALESAPNLRALAEVATQTVRELTGFDRVMLYKFAPDATGEVIAEARREGLHAFLGHRFPASDIPAQARALYTRHLLRLTADTRAAAVPLDPVLNPQTNAPTPLGGAVLRATSPMHMQYLRNMGVGSSLSVSVVVGGQLWGLIACHHQTPYVLPPDLRTTLEYLGRLLSLQVQVKEAADVAAFRQSLREHHARVALAAAHSLSPHDTLSDPALDLLGLMRAGGLILRFEGRWQTLGEVPPAPAVDALLAWLETQPGLVQTDALGQ-LWPAGADLAPSAAGLLAISVWSECLVWLRP---ELRLEVAWGGATPDLGPRHSFDTYLEE-----KRGYAEPWHPGEIEEAQDLRDTLTGALEHHH
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 31-298 268 1-30, 299-485 30 187 knot
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3.2m 28-258 231 1-27 268-485 259-267 27 218 slipknot
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4.1 30-270 241 1-29 281-485 271-280 29 205 slipknot
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3.2m 29-282 254 1-28 303-485 283-302 28 183 slipknot
sequence length 503
structure length 485
publication title Signal amplification and transduction in phytochrome photosensors
pubmed doi rcsb
molecule tags Transferase
molecule keywords Bacteriophytochrome
source organism Deinococcus radiodurans
missing residues 104-106, 129-134, 398, 428-430, 455-459
total genus Genus: 108
ec nomenclature ec 2.7.13.3: Histidine kinase.
pdb deposition date 2013-12-14
KnotProt deposition date 2014-08-13

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF00360 PHY Phytochrome region
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