4YVKA

Crystal structure of h. influenzae trmd in complex with sinefungin and trna variant (g36c)
Knot K +31
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 89-132 44 1-88, 133-248 88 116 knot
Chain Sequence
SHMWIGVISLFPEMFKAITEFGVTGRAVKHNLLKVECWNPRDFTFDKHKTVDDRPYGGGPGMLMMVQPLRDAIHTAKAAAGEGAKVIYLSPQGRKLDQGGVTELAQNQKLILVCGRYEGIDERLIQTEIDEEWSIGDYVLTGGELPAMTLIDAVARFIPGV---------DSFADGLLDCPHYTRPEVLEGLTVPPVLMSGHHEEIRKWRLKQSLQRTWLRRPELLEGLALTDEQRKLLKEAQAEHNS
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
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3.1 88-133 46 1-87, 134-239 87 106 knot
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2.1 86-131 46 1-85 137-239 132-136 85 103 slipknot
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2.1 90-212 123 1-87, 219-239 88-89, 213-218 87 21 slipknot
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2.1 90-218 129 1-87, 237-239 88-89, 219-236 87 3 slipknot
missing residues 162-170
publication title Structural basis for methyl-donor-dependent and sequence-specific binding to tRNA substrates by knotted methyltransferase TrmD.
pubmed doi rcsb
structure length 239
molecule tags Transferase/rna
source organism Haemophilus influenzae (strain atcc 51907 / dsm 11121 / kw20 / rd)
sequence length 248
molecule keywords tRNA (guanine-N(1)-)-methyltransferase
ec nomenclature ec 2.1.1.228: tRNA (guanine(37)-N(1))-methyltransferase.
pdb deposition date 2015-03-20
KnotProt deposition date 2015-12-25

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF01746 tRNA_m1G_MT tRNA (Guanine-1)-methyltransferase
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)

 
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