5LBRA

Wild-type pas-gaf fragment from deinococcus radiodurans bphp collected at sacla
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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.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 29-267 239 1-28, 268-316 28 49 knot
Chain Sequence
PFFPPLYLGGPEITTENCEREPIHIPGSIQPHGALLTADGHSGEVLQMSLNAATFLGQEPTVLRGQTLAALLPEQWPALQAALPPGCPDALQYRATLDWP---HLSLTVHRVGELLILEFEPTELRN---------AMFALESAPNLRALAEVATQTVRELTGFDRVMLYKFAPDATGEVIAEARREGLHAFLGHRFPASDIPAQARALYTRHLLRLTADTRAAAVPLDPVLNPQTNAPTPLGGAVLRATSPMHMQYLRNMGVGSSLSVSVVVGGQLWGLIACHHQTPYVLPPDLRTTLEYLGRLLSLQVQVKEAL
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 26-295 270 1-25, 296-304 25 9 knot
view details
3.2m 27-251 225 1-26 261-304 252-260 26 44 slipknot
view details
3.2m 28-263 236 1-27 296-304 264-295 27 9 slipknot
view details
4.1 24-260 237 1-12, 264-304 13-23, 261-263 12 41 slipknot
view details
3.2 30-292 263 293-304 1-25 26-29 25 11 slipknot
view details
3.2 31-294 264 295-304 1-29 30-30 29 9 slipknot
sequence length 316
structure length 304
publication title The room temperature crystal structure of a bacterial phytochrome determined by serial femtosecond crystallography.
pubmed doi rcsb
molecule tags Transferase
molecule keywords Bacteriophytochrome
source organism Deinococcus radiodurans
missing residues 101-103, 125-133
ec nomenclature
pdb deposition date 2016-06-17
KnotProt deposition date 2016-11-13
Image from the rcsb pdb (www.rcsb.org)
4CQHA 4Q0HA 3S7OA 4Z1WA 5NFXA 5K5BA 2O9CA 4ZRRA 4Y5FA 4O8GA 3S7PA 4Q0IA 4Y3IA 3S7QA 4IJGA 4E04A 5L8MA 2O9BA 5LBRA 2OOLA 3S7NA 1ZTUA
similar chains in the KnotProt database (40% sequence similarity)
5AJGA 6FTDA 6FTDB 5MG0A 4E04B 2OOLB 4RQ9A 4RPWA
similar chains in the pdb database (40% sequence similarity)

 
            
               
#similar chains in the KnotProt database (40% sequence similarity)
 4CQH A;  4Q0H A;  3S7O A;  4Z1W A;  5NFX A;  5K5B A;  2O9C A;  4ZRR A;  4Y5F A;  4O8G A;  3S7P A;  4Q0I A;  4Y3I A;  3S7Q A;  4IJG A;  4E04 A;  5L8M A;  2O9B A;  5LBR A;  2OOL A;  3S7N A;  1ZTU A; 
               
               
           
#similar chains in the pdb database (40% sequence similarity)
 5AJG A;  6FTD A;  6FTD B;  5MG0 A;  4E04 B;  2OOL B;  4RQ9 A;  4RPW A; 
           

KnotProt | Interdisciplinary Laboratory of Biological Systems Modelling