5K5BA

Wild-type pas-gaf fragment from deinococcus radiodurans bphp
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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.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 28-267 240 1-27, 268-316 27 49 knot
Chain Sequence
PFFPPLYLGGPEITTENCEREPIHIPGSIQPHGALLTADGHSGEVLQMSLNAATFLGQEPTVLRGQTLAALLPEQWPALQAALPPGCPDALQYRATLDWPA--HLSLTVHRVGELLILEFEPTELR---------NAMFALESAPNLRALAEVATQTVRELTGFDRVMLYKFAPDATGEVIAEARREGLHAFLGHRFPASDIPAQARALYTRHLLRLTADTRAAAVPLDPVLNPQTNAPTPLGGAVLRATSPMHMQYLRNMGVGSSLSVSVVVGGQLWGLIACHHQTPYVLPPDLRTTLEYLGRLLSLQVQVKEAL
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 21-301 281 1-20, 302-305 20 4 knot
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3.2m 27-253 227 1-26 263-305 254-262 26 43 slipknot
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4.1 7-262 256 1-6 268-305 263-267 6 38 slipknot
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3.2m 27-276 250 1-26 302-305 277-301 26 4 slipknot
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3.2m 25-264 240 1-4, 275-305 5-24, 265-274 4 31 slipknot
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4.1 24-301 278 302-305 1-20 21-23 20 3 slipknot
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4.1 27-302 276 303-305 1-23 24-26 23 2 slipknot
missing residues 102-103, 125-133
publication title The room temperature crystal structure of a bacterial phytochrome determined by serial femtosecond crystallography.
pubmed doi rcsb
structure length 305
molecule tags Transferase
source organism Deinococcus radiodurans
sequence length 316
total genus Genus: 87
molecule keywords Bacteriophytochrome
ec nomenclature
pdb deposition date 2016-05-23
KnotProt deposition date 2016-11-06
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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