5MG0A

Structure of pas-gaf fragment of deinococcus phytochrome by serial femtosecond crystallography
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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.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 30-271 242 1-29, 272-324 29 53 knot
Chain Sequence
DPLPFFPPLYLGGPEITTENCEREPIHIPGSIQPHGALLTADGHSGEVLQMSLNAATFLGQEPTVLRGQTLAALLPEQWPALQAALPPGCPDALQYRATLDWP--GHLSLTVHRVGELLILEFEPTEAWDSTGPHALRNAMFALESAPNLRALAEVATQTVRELTGFDRVMLYKFAPDATGEVIAEARREGLHAFLGHRFPASDIPAQARALYTRHLLRLTADTRAAAVPLDPVLNPQTNAPTPLGGAVLRATSPMHMQYLRNMGVGSSLSVSVVVGGQLWGLIACHHQTPYVLPPDLRTTLESLGRLLSLQVQVKEAHHHHHH
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 29-313 285 1-28, 314-324 28 11 knot
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3.2m 29-267 239 1-28 277-324 268-276 28 48 slipknot
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3.2m 30-277 248 1-29 289-324 278-288 29 36 slipknot
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3.2m 20-288 269 1-2, 290-324 3-19, 289-289 2 35 slipknot
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3.2m 29-290 262 1-28 314-324 291-313 28 11 slipknot
view details
3.2 34-309 276 310-324 1-28 29-33 28 14 slipknot
sequence length 324
structure length 322
publication title Drop-on-demand sample delivery for studying biocatalysts in action at X-ray free-electron lasers.
pubmed doi rcsb
molecule tags Transferase
molecule keywords Bacteriophytochrome
source organism Deinococcus radiodurans (strain atcc 13939 / dsm 20539 / jcm 16871 / lmg 4051 /
missing residues 104-105
total genus Genus: 96
ec nomenclature
pdb deposition date 2016-11-20
KnotProt deposition date 2018-09-12
Image from the rcsb pdb (www.rcsb.org)
1ZTUA 2O9CA 3S7NA 3S7OA 3S7PA 4Q0HA 4Q0IA 5K5BA 5MG0A
similar chains in the KnotProt database (40% sequence similarity)
None
similar chains in the pdb database (40% sequence similarity)

 
#similar chains in the KnotProt database (40% sequence similarity)
1ZTU A; 2O9C A; 3S7N A; 3S7O A; 3S7P A; 4Q0H A; 4Q0I A; 5K5B A; 5MG0 A; 
#similar chains, but unknotted

#similar chains in the pdb database (40% sequence similarity)


KnotProt | Interdisciplinary Laboratory of Biological Systems Modelling
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