4O01C

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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.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
Knot core range Knot core length Knot tails range Slipknot tails range Slipknot loops range N-end length C-end length Type
view details
41 30-270 241 1-29, 271-501 29 231 knot
Chain Sequence
LPFFPPLYLGGPEITTENCEREPIHIPGSIQPHGALLTADGHSGEVLQMSLNAATFLGQEPTVLRGQTLAALLPEQWPALQAALPPGCPDALQYRATLDW--AGHLSLTVHRVGELLILEFEPTEGP-----HALRNAMFALESAPNLRALAEVATQTVRELTGFDRVMLYKFAPDATGEVIAEARREGLHAFLGHRFPASDIPAQARALYTRHLLRLTADTRAAAVPLDPVLNPQTNAPTPLGGAVLRATSPMHMQYLRNMGVGSSLSVSVVVGGQLWGLIACHHQTPYVLPPDLRTTLEYLGRLLSLQVQVKEAADVAAFRQSLREHHARVALAAAHSLSPHDTLSDPALDLLGLMRAGGLILRFEGRWQTLGEVPPAPAVDALLAWLETQPGALVQTDALGQLWPAGADLAPSAAGLLAISVGEGWSECLVWLRPELRLEVADLGPRHS-----------FDTYLEEKRGYAEPWHPGEIEEAQDLRDTLTGALEHHH
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
view details
4.1 28-301 274 1-27, 302-483 27 182 knot
view details
3.2m 28-258 231 1-27 268-483 259-267 27 216 slipknot
view details
4.1 13-267 255 1-12 272-483 268-271 12 212 slipknot
view details
3.2m 28-269 242 1-27 280-483 270-279 27 204 slipknot
view details
3.2m 28-279 252 1-27 299-483 280-298 27 185 slipknot
view details
4.1 24-267 244 1-15, 270-483 16-23, 268-269 15 214 slipknot
view details
3.2 32-443 412 444-483 1-27 28-31 27 39 slipknot
view details
3.2 33-300 268 1-25, 443-483 26-32, 301-442 25 41 slipknot
missing residues 101-102, 126-130, 446-456
publication title Signal amplification and transduction in phytochrome photosensors
pubmed doi rcsb
structure length 483
molecule tags Transferase
source organism Deinococcus radiodurans r1
sequence length 501
molecule keywords Bacteriophytochrome
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
C PF00360 PHY Phytochrome region
Image from the rcsb pdb (www.rcsb.org)
...loading similar chains, please wait...
similar chains in the KnotProt database (?% sequence similarity)
...loading similar chains, please wait...
similar chains in the pdb database (?% sequence similarity)

 
#similar chains in the KnotProt database (?% sequence similarity)
...loading similar chains, please wait...
#similar chains, but unknotted
...loading similar chains, please wait...
#similar chains in the pdb database (?% sequence similarity)
...loading similar chains, please wait...

KnotProt | Interdisciplinary Laboratory of Biological Systems Modelling