1K3RA

Crystal structure of the methyltransferase with a knot from methanobacterium thermoautotrophicum
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
+31 187-232 46 1-186, 233-262 186 30 knot
Chain Sequence
MNRVDLSLFIPDSLTAETGDLKIKTYKVVLIARAASIFGVKRIVIYHDDADGEARFIRDILTYMDTPQYLRRKVFPIMRELKHVGILPPLRTPHHPTGKPVTGEYRQGLTVKRVKKGTLVDIGADKLALCREKLTVNRIMSFRVVRLGKEILIEPDEPEDRYWGYEVLDTRRNLAESLKTVGADVVVATSRNASPITSILDEVKTRMRGAREAAILFGGPYKGLPEIDADIWVNTLPGQCTETVRTEEAVLATLSVFNMLTQ
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
3.1 187-234 48 1-186, 235-262 186 28 knot
view details
2.1 186-229 44 1-185 236-262 230-235 185 27 slipknot
view details
2.1 189-242 54 1-186, 255-262 187-188, 243-254 186 8 slipknot
view details
3.1 189-239 51 1-186, 243-262 187-188, 240-242 186 20 slipknot
sequence length 262
structure length 262
publication title Deep trefoil knot implicated in RNA binding found in an archaebacterial protein.
pubmed doi rcsb
molecule tags Structural genomics, unknown function
molecule keywords conserved protein MT0001
source organism Methanothermobacter thermautotrophicus
total genus Genus: 73
ec nomenclature
pdb deposition date 2001-10-03
KnotProt deposition date 2014-07-31

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF02598 Methyltrn_RNA_3 Putative RNA methyltransferase
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
2.40.50.140 Mainly Beta Beta Barrel OB fold (Dihydrolipoamide Acetyltransferase, E2P) Nucleic acid-binding proteins 1k3rA02
3.40.1280.10 Alpha Beta 3-Layer(aba) Sandwich Alpha/beta knot Alpha/beta knot 1k3rA01
3E5YA 4E8BA 2O3AA 3AI9X 3IEFA 3KY7A 1V6ZA 3N4KA 1UAMA 1O6DA 1ZJRA 1UAKA 3L8UA 3NK7A 3KNUA 1TO0A 1V2XA 4CNFB 1VHYA 1X7OA 1NXZA 1VH0A 1P9PA 1VHKA 3IC6A 3AXZA 3ILKA 1NS5A 3ONPA 1X7PA 2QMMA 3DCMX 2I6DA 3NK6A 1GZ0A 2HA8A 4FAKA 4IG6A 1UALA 1J85A 4H3YA 3KTYA 2CX8A 3GYQA 3N4JA 3QUVA 1K3RA 2YY8A 3AIAA 2QWVA 4H3ZA 4CNGB 2Z0YA 4CNEB 1UAJA 1MXIA
chains in the KnotProt database with same CATH superfamily
3E5YA 4E8BA 2O3AA 3AI9X 3IEFA 3KY7A 1V6ZA 3N4KA 1TWGB 1UAMA 1O6DA 1ZJRA 1UAKA 3L8UA 3NK7A 3KNUA 1TO0A 1V2XA 4CNFB 1VHYA 1X7OA 1NXZA 1TWHB 1P9PA 1VH0A 1VHKA 3IC6A 3AXZA 3ILKA 1NS5A 3ONPA 1X7PA 2QMMA 3DCMX 2I6DA 3NK6A 1GZ0A 2HA8A 4FAKA 4IG6A 1UALA 1J85A 4H3YA 3KTYA 2CX8A 3GYQA 3N4JA 3QUVA 1K3RA 2YY8A 3AIAA 2QWVA 4H3ZA 4CNGB 2Z0YA 4CNEB 1UAJA 1MXIA
chains in the KnotProt database with same CATH topology
3E5YA 4E8BA 2O3AA 3AI9X 3IEFA 3KY7A 1V6ZA 3N4KA 1UAMA 1O6DA 1ZJRA 1UAKA 3L8UA 3NK7A 3KNUA 1TO0A 1V2XA 4CNFB 1VHYA 1X7OA 1NXZA 1VH0A 1P9PA 1VHKA 3IC6A 3AXZA 3ILKA 1NS5A 3ONPA 1X7PA 2QMMA 3DCMX 2I6DA 3NK6A 1GZ0A 2HA8A 4FAKA 4IG6A 1UALA 1J85A 4H3YA 3KTYA 2CX8A 3GYQA 3N4JA 3QUVA 1K3RA 2YY8A 3AIAA 2QWVA 4H3ZA 4CNGB 2Z0YA 4CNEB 1UAJA 1MXIA
chains in the KnotProt database with same CATH homology


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