3S7NA

Crystal structure of the alternate his 207 conformation of the infrared fluorescent d207h variant of deinococcus bacteriophytochrome chromophore binding domain at 2.45 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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.
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 27-268 242 1-26, 269-317 26 49 knot
Chain Sequence
PFFPPLYLGGPEITTENCEREPIHIPGSIQPHGALLTADGHSGEVLQMSLNAATFLGQEPTVLRGQTLAALLPEQWPALQAALPPGCPDALQYRATLDWPAAGHLSLTVHRVGELLILEFEPTE----TGPHALRNAMFALESAPNLRALAEVATQTVRELTGFDRVMLYKFAPDATGEVIAEARREGLHAFLGHRFPASHIPAQARALYTRHLLRLTADTRAAAVPLDPVLNPQTNAPTPLGGAVLRATSPMHMQYLRNMGVGSSLSVSVVVGGQLWGLIACHHQTPYVLPPDLRTTLESLGRLLSLQVQVKEALE
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 27-300 274 1-26, 301-313 26 13 knot
view details
4.1 27-268 242 1-26 281-313 269-280 26 33 slipknot
view details
4.1 10-267 258 1-3, 269-313 4-9, 268-268 3 45 slipknot
view details
3.2m 18-267 250 1-10, 269-313 11-17, 268-268 10 45 slipknot
view details
3.2 30-268 239 1-26, 275-313 27-29, 269-274 26 39 slipknot
view details
3.2 30-304 275 305-313 1-26 27-29 26 8 slipknot
missing residues 125-128
publication title Structure-guided engineering enhances a phytochrome-based infrared fluorescent protein.
pubmed doi rcsb
structure length 313
molecule tags Fluorescent protein
source organism Deinococcus radiodurans
sequence length 317
total genus Genus: 78
molecule keywords Bacteriophytochrome
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)
...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