1ZTUA

Structure of the chromophore binding domain of bacterial phytochrome
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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.
Genus: 81
Knot K 41 41

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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 30-270 241 1-29, 271-321 29 51 knot
Chain Sequence
PLPFFPPLYLGGPEITTENCEREPIHIPGSIQPHGALLTADGHSGEVLQMSLNAATFLGQEPTVLRGQTLAALLPEQWPALQAALPPGCPDALQYRATLDWP--GHLSLTVHRVGELLILEFEPTEPH------ALRNAMFALESAPNLRALAEVATQTVRELTGFDRVMLYKFAPDATGEVIAEARREGLHAFLGHRFPASDIPAQARALYTRHLLRLTADTRAAAVPLDPVLNTQTNAPTPLGGAVLRATSPMHMQYLRNMGVGSSLSVSVVVGGQLWGLIACHHQTPYVLPPDLRTTLEYLGRLLSLQVQVKEAHHHH
Whole chain analysis

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Subchain analysis 

Knotoid cutoff: 0.5


Knotoid matrix content: 1


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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 29-303 275 1-28, 304-313 28 10 knot
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4.1 27-258 232 1-26 268-313 259-267 26 46 slipknot
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4.1 22-267 246 1-21 273-313 268-272 21 41 slipknot
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3.2m 29-268 240 1-28 280-313 269-279 28 34 slipknot
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3.2m 28-279 252 1-27 281-313 280-280 27 33 slipknot
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3.2m 29-281 253 1-28 304-313 282-303 28 10 slipknot
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3.2 31-297 267 298-313 1-28 29-30 28 15 slipknot
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3.2 33-297 265 298-313 1-30 31-32 30 15 slipknot
sequence length 321
structure length 313
publication title A light-sensing knot revealed by the structure of the chromophore-binding domain of phytochrome.
pubmed doi rcsb
molecule tags Transferase
molecule keywords Bacteriophytochrome
source organism Deinococcus radiodurans
missing residues 103-104, 127-132
total genus Genus: 81
ec nomenclature ec 2.7.13.3: Histidine kinase.
pdb deposition date 2005-05-27
KnotProt deposition date 2014-07-31

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)
cath code
ClassArchitectureTopologyHomologyDomain
3.30.450.40 Alpha Beta 2-Layer Sandwich Beta-Lactamase Beta-Lactamase 1ztuA02
2O9BA 1ZTUA 2O9CA
chains in the KnotProt database with same CATH superfamily
2O9BA 1ZTUA 2O9CA
chains in the KnotProt database with same CATH topology
2O9BA 1ZTUA 2O9CA
chains in the KnotProt database with same CATH homology

  
#chains in the KnotProt database with same CATH superfamily
 2O9B A;  1ZTU A;  2O9C A; 
#chains in the KnotProt database with same CATH topology
 2O9B A;  1ZTU A;  2O9C A; 
#chains in the KnotProt database with same CATH homology
 2O9B A;  1ZTU A;  2O9C A;
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similar chains in the KnotProt database (?% sequence similarity)
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similar chains in the pdb database (?% sequence similarity)

  
#similar chains in the KnotProt database (?% sequence similarity)
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#similar chains, but unknotted
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#similar chains in the pdb database (?% sequence similarity)
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How to cite
KnotProt | Interdisciplinary Laboratory of Biological Systems Modelling