3KW2A

Crystal structure of probable rrna-methyltransferase from porphyromonas gingivalis
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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.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: 70
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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+31 162-214 53 1-161, 215-245 161 31 knot
Chain Sequence
LPLFYAPDIEQSDRLPDDEAGHILRVLRMQAGDRLRLTDGRGSFFDAVIETADRKSCYVSVCGQESWQKPWRDRITIAIAPTKQSERMEWMLEKLVEIGVDEVVFIESEHSERRRIKAERLERIAISAMKQSLKASFPVIRVNIPIQTVIADTPKAAVRLIAYVDEAVR-----GRGYPSDFYHVGQDVLILIGPEGDFSPSEVESALLAGFAPVSLGESRLRTETAGLVACQWIHTLQACYRIG
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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3.1 159-210 52 1-158, 211-240 158 30 knot
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2.1 40-206 167 1-39 213-240 207-212 39 28 slipknot
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2.1 157-206 50 1-40, 211-240 41-156, 207-210 40 30 slipknot
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2.1 163-212 50 213-240 1-158 159-162 158 27 slipknot
sequence length 245
structure length 240
publication title Crystal structure of probable rRNA-methyltransferase from Porphyromonas gingivalis
rcsb
molecule tags Transferase
molecule keywords Probable r-RNA methyltransferase
source organism Porphyromonas gingivalis atcc 33277
missing residues 170-174
total genus Genus: 70
ec nomenclature
pdb deposition date 2009-11-30
KnotProt deposition date 2014-07-31

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF04452 Methyltrans_RNA RNA methyltransferase
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
2.40.240.20 Mainly Beta Beta Barrel Ribosomal Protein L25; Chain P Hypothetical PUA domain-like; domain 1 3kw2A01
1VHYA 1NXZA 2Z0YA 1V6ZA 1VHKA 3KW2A 2CX8A 4E8BA
chains in the KnotProt database with same CATH superfamily
1VHYA 1NXZA 2Z0YA 1V6ZA 1VHKA 3KW2A 2CX8A 4E8BA
chains in the KnotProt database with same CATH topology
1VHYA 1NXZA 2Z0YA 1V6ZA 1VHKA 3KW2A 2CX8A 4E8BA
chains in the KnotProt database with same CATH homology

  
#chains in the KnotProt database with same CATH superfamily
 1VHY A;  1NXZ A;  2Z0Y A;  1V6Z A;  1VHK A;  3KW2 A;  2CX8 A;  4E8B A; 
#chains in the KnotProt database with same CATH topology
 1VHY A;  1NXZ A;  2Z0Y A;  1V6Z A;  1VHK A;  3KW2 A;  2CX8 A;  4E8B A; 
#chains in the KnotProt database with same CATH homology
 1VHY A;  1NXZ A;  2Z0Y A;  1V6Z A;  1VHK A;  3KW2 A;  2CX8 A;  4E8B 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