6EMSA

Crystal structure of dual specific trm10 construct from thermococcus kodakaraensis.
Warning
  • Chain breaks within knot 31 (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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.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 +31

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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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+31 180-232 53 1-179, 233-267 179 35 knot
Chain Sequence
HMKTLADVFREALKEKGISSIGTLSKRFRKSKNKLQDIAIEIVHGKGAVFRVPEKTAVAWDLNGNRVDGSYYAYAPLAMREKFEPVLTPEELREKLPDWPYFIIDLYHWDKHTQKEKGKIALQVNQSYGLLRDYFTGSELAVTWANEEFREMFHGPLDRITTYGGPTSEFLKENGINEVVLLDPWAEEVLSEKDFDVKAFIIGG--------------IGEELESAGIKVRRRKIVDRINRILGIILKMM---------VEGKSMDE
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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3.1 180-220 41 1-179, 221-244 179 24 knot
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2.1 179-217 39 1-178 223-244 218-222 178 22 slipknot
sequence length 267
structure length 244
publication title Structural and biochemical analysis of the dual-specificity Trm10 enzyme fromThermococcus kodakaraensisprompts reconsideration of its catalytic mechanism.
pubmed doi rcsb
molecule tags Rna binding protein
molecule keywords tRNA (guanine(9)-/adenine(9)-N1)-methyltransferase
source organism Thermococcus kodakarensis (strain atcc baa-918 / jcm 12380 / kod1)
missing residues 205-218, 237-245
total genus Genus: 81
ec nomenclature
pdb deposition date 2017-10-03
KnotProt deposition date 2018-09-14
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)

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