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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.
Knot K 41 41
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
Subchain analysis 

Knotoid cutoff: 0.5


Knotoid matrix content: 1

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
missing residues 104-106, 129-134, 398, 428-430, 455-459
publication title Signal amplification and transduction in phytochrome photosensors
pubmed doi rcsb
structure length 485
molecule tags Transferase
source organism Deinococcus radiodurans
sequence length 503
total genus Genus: 108
molecule keywords Bacteriophytochrome
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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