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


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