4O01D

Crystal structure of d. radiodurans bacteriophytochrome photosensory core module in its illuminated 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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.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

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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 30-269 240 1-29, 270-501 29 232 knot
Chain Sequence
LPFFPPLYLGGPEITTENCEREPIHIPGSIQPHGALLTADGHSGEVLQMSLNAATFLGQEPTVLRGQTLAALLPEQWPALQAALPPGCPDALQYRATLDW--AGHLSLTVHRVGELLILEFEPTEGP-----HALRNAMFALESAPNLRALAEVATQTVRELTGFDRVMLYKFAPDATGEVIAEARREGLHAFLGHRFPASDIPAQARALYTRHLLRLTADTRAAAVPLDPVLNPQTNAPTPLGGAVLRATSPMHMQYLRNMGVGSSLSVSVVVGGQLWGLIACHHQTPYVLPPDLRTTLEYLGRLLSLQVQVKEAADVAAFRQSLREHHARVALAAAHSLSPHDTLSDPALDLLGLMRAGGLILRFEGRWQTLGEVPPAPAVDALLAWLETQPGALVQTDALGQLWPAGADLAPSAAGLLAISVGEGWSECLVWLRPELRLEVALGPRHSF------------DTYLEEKRGYAEPWHPGEIEEAQDLRDTLTGALEHHH
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 28-301 274 1-27, 302-482 27 181 knot
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3.2m 27-258 232 1-26 269-482 259-268 26 214 slipknot
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4.1 6-268 263 1-5 273-482 269-272 5 210 slipknot
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3.2m 27-272 246 1-26 301-482 273-300 26 182 slipknot
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4.1 19-268 250 1-12, 272-482 13-18, 269-271 12 211 slipknot
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4.1 19-271 253 1-12, 273-482 13-18, 272-272 12 210 slipknot
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4.1 31-302 272 303-482 1-27 28-30 27 179 slipknot
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3.2 32-300 269 1-25, 314-482 26-31, 301-313 25 169 slipknot
sequence length 501
structure length 482
publication title Signal amplification and transduction in phytochrome photosensors
pubmed doi rcsb
molecule tags Transferase
molecule keywords Bacteriophytochrome
source organism Deinococcus radiodurans r1
missing residues 101-102, 126-130, 446-457
ec nomenclature ec 2.7.13.3: Histidine kinase.
pdb deposition date 2013-12-13
KnotProt deposition date 2014-08-13

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
D 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