1ZJRA

Crystal structure of a. aeolicus trmh/spou trna modifying enzyme
Warning
  • Chain breaks within knotoid 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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.
  • Chain breaks within knotoid 41 (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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.
  • Chain breaks within knotoid 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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.
Genus: 69
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
view details
+31 97-138 42 1-96, 139-197 96 59 knot
Chain Sequence
LVLEKRLKRLREVLEKRQKDLIVFADNVKNEHNFSAIVRTCDAVGVLYLYYYHAEGKKAKINEGITQGSHKWVFIEKVDNPVQKLLEFKNRGFQIVATWLSKESVNFREVDYTKPTVLVVGNELQGVSPEIVEIADKKIVIPMYGMAQSLNVSVATGIILYEAQRQREEKGMYSRPSLSEEEIQKILKKWAYEDVIK
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 96-139 44 1-95, 140-197 95 58 knot
view details
3.1 97-142 46 1-95, 192-197 96-96, 143-191 95 6 slipknot
sequence length 197
structure length 197
publication title Structure of a class II TrmH tRNA-modifying enzyme from Aquifex aeolicus.
pubmed doi rcsb
molecule tags Transferase
molecule keywords tRNA (Guanosine-2'-O-)-methyltransferase
source organism Aquifex aeolicus
total genus Genus: 69
ec nomenclature ec 2.1.1.34: tRNA (guanosine(18)-2'-O)-methyltransferase.
pdb deposition date 2005-04-30
KnotProt deposition date 2014-07-31

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A 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 1zjrA00
2QWVA 1P9PA 3KTYA 4E8BA 4CNFB 1TO0A 2YY8A 3NK7A 1J85A 1UAKA 2HA8A 1X7OA 1UALA 3AXZA 4IG6A 1V6ZA 3KY7A 4H3ZA 3AIAA 3L8UA 1VHYA 3AI9X 1VH0A 1GZ0A 2QMMA 4CNEB 1VHKA 2CX8A 1K3RA 3KNUA 2I6DA 3NK6A 3N4JA 3DCMX 2O3AA 3N4KA 1V2XA 3IC6A 3ONPA 1MXIA 1UAMA 1O6DA 3QUVA 4FAKA 3IEFA 4H3YA 3GYQA 3ILKA 2Z0YA 1ZJRA 1NS5A 3E5YA 1NXZA 1X7PA 4CNGB 1UAJA
chains in the KnotProt database with same CATH superfamily
2QWVA 1P9PA 3KTYA 4E8BA 4CNFB 1TO0A 2YY8A 3NK7A 1J85A 1UAKA 2HA8A 1X7OA 1UALA 3AXZA 4IG6A 1V6ZA 3KY7A 4H3ZA 3AIAA 3L8UA 1VHYA 3AI9X 1VH0A 1GZ0A 2QMMA 4CNEB 1VHKA 2CX8A 1K3RA 3KNUA 2I6DA 3NK6A 3N4JA 3DCMX 2O3AA 3N4KA 1V2XA 3IC6A 3ONPA 1MXIA 1UAMA 1O6DA 3QUVA 4FAKA 3IEFA 4H3YA 3GYQA 3ILKA 2Z0YA 1ZJRA 1NS5A 3E5YA 1NXZA 1X7PA 4CNGB 1UAJA
chains in the KnotProt database with same CATH topology
2QWVA 1P9PA 3KTYA 4E8BA 4CNFB 1TO0A 2YY8A 3NK7A 1J85A 1UAKA 2HA8A 1X7OA 1UALA 3AXZA 4IG6A 1V6ZA 3KY7A 4H3ZA 3AIAA 3L8UA 1VHYA 3AI9X 1VH0A 1GZ0A 2QMMA 4CNEB 1VHKA 2CX8A 1K3RA 3KNUA 2I6DA 3NK6A 3N4JA 3DCMX 2O3AA 3N4KA 1V2XA 3IC6A 3ONPA 1MXIA 1UAMA 1O6DA 3QUVA 4FAKA 3IEFA 4H3YA 3GYQA 3ILKA 2Z0YA 1ZJRA 1NS5A 3E5YA 1NXZA 1X7PA 4CNGB 1UAJA
chains in the KnotProt database with same CATH homology

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