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
1NS5A 1UAJA 3KTYA 1ZJRA 3QUVA 3L8UA 3KNUA 1UAKA 3AI9X 4CNEB 1NXZA 3DCMX 4CNGB 3ONPA 2HA8A 3N4KA 4IG6A 3N4JA 3ILKA 1VHKA 3IC6A 1VH0A 3AXZA 1V2XA 1O6DA 1TO0A 1K3RA 1X7PA 1GZ0A 3AIAA 2CX8A 3GYQA 2I6DA 3IEFA 3NK6A 1J85A 1P9PA 1X7OA 4H3ZA 4FAKA 3NK7A 4H3YA 2YY8A 3KY7A 2O3AA 1V6ZA 1UAMA 2QWVA 4CNFB 4E8BA 1VHYA 2QMMA 1UALA 2Z0YA 3E5YA 1MXIA
chains in the KnotProt database with same CATH superfamily
1NS5A 1UAJA 3KTYA 1ZJRA 3QUVA 3L8UA 3KNUA 1UAKA 3AI9X 4CNEB 1NXZA 3DCMX 4CNGB 3ONPA 2HA8A 3N4KA 4IG6A 3N4JA 3ILKA 1VHKA 3IC6A 1VH0A 3AXZA 1V2XA 1O6DA 1TO0A 1K3RA 1X7PA 1GZ0A 3AIAA 1TWHB 2CX8A 3GYQA 2I6DA 3IEFA 3NK6A 1J85A 1TWGB 1P9PA 1X7OA 4H3ZA 4FAKA 3NK7A 4H3YA 2YY8A 3KY7A 2O3AA 1V6ZA 1UAMA 2QWVA 4CNFB 4E8BA 1VHYA 2QMMA 1UALA 2Z0YA 3E5YA 1MXIA
chains in the KnotProt database with same CATH topology
1NS5A 1UAJA 3KTYA 1ZJRA 3QUVA 3L8UA 3KNUA 1UAKA 3AI9X 4CNEB 1NXZA 3DCMX 4CNGB 3ONPA 2HA8A 3N4KA 4IG6A 3N4JA 3ILKA 1VHKA 3IC6A 1VH0A 3AXZA 1V2XA 1O6DA 1TO0A 1K3RA 1X7PA 1GZ0A 3AIAA 2CX8A 3GYQA 2I6DA 3IEFA 3NK6A 1J85A 1P9PA 1X7OA 4H3ZA 4FAKA 3NK7A 4H3YA 2YY8A 3KY7A 2O3AA 1V6ZA 1UAMA 2QWVA 4CNFB 4E8BA 1VHYA 2QMMA 1UALA 2Z0YA 3E5YA 1MXIA
chains in the KnotProt database with same CATH homology


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