3KY7A

2.35 angstrom resolution crystal structure of a putative trna (guanine-7-)-methyltransferase (trmd) from staphylococcus aureus subsp. aureus mrsa252
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
view details
+31 84-128 45 1-83, 129-243 83 115 knot
Chain Sequence
MKIDYLTLFPEMFDGVLNHSIMKRAQENNKLQINTVNFRDYA-NKHNQVDDYPYGGGQGMVLKPEPVFNAMEDLDVTEQARVILMCPQGEPFSHQKAVELSKADHIVFICGHYEGYDERIRTHLVTDEISMGDYVLTGGELPAMTMTDAIVRLIPGS-------------DGLLEFPQYTRPREFKGLTVPDVLLSGNHANIDAWRHEQKLIRTYNKRPDLIEKYPLTNADKQILERYKIGLK
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
3.1 82-128 47 1-81, 129-229 81 101 knot
view details
2.1 80-125 46 1-79 132-229 126-131 79 98 slipknot
view details
3.1 83-131 49 132-229 1-81 82-82 81 97 slipknot
sequence length 243
structure length 229
publication title 2.35 Angstrom resolution crystal structure of a putative tRNA (guanine-7-)-methyltransferase (trmD) from Staphylococcus aureus subsp. aureus MRSA252
rcsb
molecule tags Transferase
molecule keywords tRNA (guanine-N(1)-)-methyltransferase
source organism Staphylococcus aureus subsp. aureus
missing residues 43, 157-169
total genus Genus: 61
ec nomenclature ec 2.1.1.228: tRNA (guanine(37)-N(1))-methyltransferase.
pdb deposition date 2009-12-04
KnotProt deposition date 2014-07-31

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)
cath code
ClassArchitectureTopologyHomologyDomain
1.10.1270.20 Mainly Alpha Orthogonal Bundle Trp Operon Repressor; Chain A tRNA(m1g37)methyltransferase, domain 2 3ky7A02
3.40.1280.10 Alpha Beta 3-Layer(aba) Sandwich Alpha/beta knot Alpha/beta knot 3ky7A01
1O6DA 1VHKA 3AXZA 2YY8A 1VH0A 4E8BA 2QWVA 1V2XA 1GZ0A 2HA8A 2CX8A 1VHYA 1X7OA 1UAKA 1UALA 3QUVA 1NS5A 4CNFB 1V6ZA 1X7PA 3GYQA 1UAMA 1K3RA 3KY7A 3ILKA 4H3ZA 3AI9X 1P9PA 3DCMX 3N4JA 2QMMA 3NK6A 1UAJA 1NXZA 1TO0A 3NK7A 3ONPA 3N4KA 2O3AA 4FAKA 4H3YA 1ZJRA 2Z0YA 1MXIA 3IEFA 1J85A 4CNGB 3E5YA 3KNUA 4CNEB 3KTYA 2I6DA 3AIAA 3L8UA 4IG6A 3IC6A
chains in the KnotProt database with same CATH superfamily
1O6DA 1VHKA 3AXZA 2YY8A 1VH0A 4E8BA 2QWVA 1V2XA 1GZ0A 2HA8A 2CX8A 1VHYA 1X7OA 1UAKA 1UALA 3QUVA 1NS5A 4CNFB 1V6ZA 1X7PA 3GYQA 1UAMA 1K3RA 3KY7A 3ILKA 4H3ZA 3AI9X 1P9PA 3DCMX 3N4JA 2QMMA 3NK6A 1UAJA 1NXZA 1TO0A 3NK7A 3ONPA 3N4KA 2O3AA 4FAKA 4H3YA 1ZJRA 2Z0YA 1MXIA 3IEFA 1J85A 4CNGB 3E5YA 3KNUA 4CNEB 3KTYA 2I6DA 3AIAA 3L8UA 4IG6A 3IC6A
chains in the KnotProt database with same CATH topology
1O6DA 1VHKA 3AXZA 2YY8A 1VH0A 4E8BA 2QWVA 1V2XA 1GZ0A 2HA8A 2CX8A 1VHYA 1X7OA 1UAKA 1UALA 3QUVA 1NS5A 4CNFB 1V6ZA 1X7PA 3GYQA 1UAMA 1K3RA 3KY7A 3ILKA 4H3ZA 3AI9X 1P9PA 3DCMX 3N4JA 2QMMA 3NK6A 1UAJA 1NXZA 1TO0A 3NK7A 3ONPA 3N4KA 2O3AA 4FAKA 4H3YA 1ZJRA 2Z0YA 1MXIA 3IEFA 1J85A 4CNGB 3E5YA 3KNUA 4CNEB 3KTYA 2I6DA 3AIAA 3L8UA 4IG6A 3IC6A
chains in the KnotProt database with same CATH homology


 
#chains in the KnotProt database with same CATH superfamily
 1O6D A;  1VHK A;  3AXZ A;  2YY8 A;  1VH0 A;  4E8B A;  2QWV A;  1V2X A;  1GZ0 A;  2HA8 A;  2CX8 A;  1VHY A;  1X7O A;  1UAK A;  1UAL A;  3QUV A;  1NS5 A;  4CNF B;  1V6Z A;  1X7P A;  3GYQ A;  1UAM A;  1K3R A;  3KY7 A;  3ILK A;  4H3Z A;  3AI9 X;  1P9P A;  3DCM X;  3N4J A;  2QMM A;  3NK6 A;  1UAJ A;  1NXZ A;  1TO0 A;  3NK7 A;  3ONP A;  3N4K A;  2O3A A;  4FAK A;  4H3Y A;  1ZJR A;  2Z0Y A;  1MXI A;  3IEF A;  1J85 A;  4CNG B;  3E5Y A;  3KNU A;  4CNE B;  3KTY A;  2I6D A;  3AIA A;  3L8U A;  4IG6 A;  3IC6 A; 
#chains in the KnotProt database with same CATH topology
 1O6D A;  1VHK A;  3AXZ A;  2YY8 A;  1VH0 A;  4E8B A;  2QWV A;  1V2X A;  1GZ0 A;  2HA8 A;  2CX8 A;  1VHY A;  1X7O A;  1UAK A;  1UAL A;  3QUV A;  1NS5 A;  4CNF B;  1V6Z A;  1X7P A;  3GYQ A;  1UAM A;  1K3R A;  3KY7 A;  3ILK A;  4H3Z A;  3AI9 X;  1P9P A;  3DCM X;  3N4J A;  2QMM A;  3NK6 A;  1UAJ A;  1NXZ A;  1TO0 A;  3NK7 A;  3ONP A;  3N4K A;  2O3A A;  4FAK A;  4H3Y A;  1ZJR A;  2Z0Y A;  1MXI A;  3IEF A;  1J85 A;  4CNG B;  3E5Y A;  3KNU A;  4CNE B;  3KTY A;  2I6D A;  3AIA A;  3L8U A;  4IG6 A;  3IC6 A; 
#chains in the KnotProt database with same CATH homology
 1O6D A;  1VHK A;  3AXZ A;  2YY8 A;  1VH0 A;  4E8B A;  2QWV A;  1V2X A;  1GZ0 A;  2HA8 A;  2CX8 A;  1VHY A;  1X7O A;  1UAK A;  1UAL A;  3QUV A;  1NS5 A;  4CNF B;  1V6Z A;  1X7P A;  3GYQ A;  1UAM A;  1K3R A;  3KY7 A;  3ILK A;  4H3Z A;  3AI9 X;  1P9P A;  3DCM X;  3N4J A;  2QMM A;  3NK6 A;  1UAJ A;  1NXZ A;  1TO0 A;  3NK7 A;  3ONP A;  3N4K A;  2O3A A;  4FAK A;  4H3Y A;  1ZJR A;  2Z0Y A;  1MXI A;  3IEF A;  1J85 A;  4CNG B;  3E5Y A;  3KNU A;  4CNE B;  3KTY A;  2I6D A;  3AIA A;  3L8U A;  4IG6 A;  3IC6 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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