4CNFB

Crystal structure of sulfolobus acidocaldarius trmj
Warning
  • Chain breaks within knot 31 (displayed as a gray area on the plot and as '-' on the sequence). The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.
Knot K +31

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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 75-127 53 1-74, 128-156 74 29 knot
Chain Sequence
MTIRLVIVEPEGAYNLGFIARLVKNFLIDEFYVVNPKADINEAIKFSAKGSEVIEKMMKITNNFDDAIRDVDLKIATSSIADI-----RKSIRPIDLERLIKDKKVAFIFGRESVGLTREEIAKSDFLLFIPANPEYPVLNLSHAVGIVLYELWRN
Whole chain analysis

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Subchain analysis 

Knotoid cutoff: 0.5


Knotoid matrix content: 1


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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 76-124 49 1-75, 125-151 75 27 knot
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2.1 74-120 47 1-73 127-151 121-126 73 25 slipknot
sequence length 156
structure length 151
publication title Characterization of Two Homologous 2'-O-Methyltransferases Showing Different Specificities for Their tRNA Substrates.
pubmed doi rcsb
molecule tags Transferase
molecule keywords SPOU RRNA METHYLASE
source organism Sulfolobus acidocaldarius
missing residues 84-88
ec nomenclature ec 2.1.1.200: tRNA (cytidine(32)/uridine(32)-2'-O)-methyltransferase.
pdb deposition date 2014-01-22
KnotProt deposition date 2018-09-16

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
B PF00588 SpoU_methylase SpoU rRNA Methylase family
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.40.1280.10 Alpha Beta 3-Layer(aba) Sandwich Alpha/beta knot Alpha/beta knot 4cnfB00
1VH0A 4FAKA 4CNGB 3KTYA 3AIAA 2QWVA 2CX8A 1X7PA 3L8UA 2YY8A 4H3YA 2I6DA 4E8BA 4CNEB 3IC6A 4H3ZA 1J85A 1UAMA 3N4JA 2QMMA 3GYQA 3N4KA 1UAJA 3NK6A 3AI9X 1P9PA 1MXIA 1VHYA 1X7OA 1V6ZA 1K3RA 3IEFA 1UAKA 1O6DA 1UALA 2Z0YA 1GZ0A 3DCMX 3NK7A 4CNFB 1V2XA 1TO0A 1NS5A 3AXZA 3QUVA 3KY7A 3ILKA 1VHKA 1NXZA 3ONPA 2HA8A 2O3AA 1ZJRA 3E5YA 3KNUA 4IG6A
chains in the KnotProt database with same CATH superfamily
1VH0A 4FAKA 4CNGB 3KTYA 3AIAA 2QWVA 2CX8A 1X7PA 3L8UA 2YY8A 4H3YA 2I6DA 4E8BA 4CNEB 3IC6A 4H3ZA 1J85A 1UAMA 3N4JA 2QMMA 3GYQA 3N4KA 1UAJA 3NK6A 3AI9X 1P9PA 1MXIA 1VHYA 1X7OA 1V6ZA 1K3RA 3IEFA 1UAKA 1O6DA 1UALA 2Z0YA 1GZ0A 3DCMX 3NK7A 4CNFB 1V2XA 1TO0A 1NS5A 3AXZA 3QUVA 3KY7A 3ILKA 1VHKA 1NXZA 3ONPA 2HA8A 2O3AA 1ZJRA 3E5YA 3KNUA 4IG6A
chains in the KnotProt database with same CATH topology
1VH0A 4FAKA 4CNGB 3KTYA 3AIAA 2QWVA 2CX8A 1X7PA 3L8UA 2YY8A 4H3YA 2I6DA 4E8BA 4CNEB 3IC6A 4H3ZA 1J85A 1UAMA 3N4JA 2QMMA 3GYQA 3N4KA 1UAJA 3NK6A 3AI9X 1P9PA 1MXIA 1VHYA 1X7OA 1V6ZA 1K3RA 3IEFA 1UAKA 1O6DA 1UALA 2Z0YA 1GZ0A 3DCMX 3NK7A 4CNFB 1V2XA 1TO0A 1NS5A 3AXZA 3QUVA 3KY7A 3ILKA 1VHKA 1NXZA 3ONPA 2HA8A 2O3AA 1ZJRA 3E5YA 3KNUA 4IG6A
chains in the KnotProt database with same CATH homology

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