1MXIA

Structure of yibk from haemophilus influenzae (hi0766): a methyltransferase with a cofactor bound at a site formed by a knot
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 77-119 43 1-76, 120-156 76 37 knot
Chain Sequence
MLDIVLYEPEIPQNTGNIIRLCANTGFRLHLIEPLGFTWDDKRLRRSGLDYHEFAEIKRHKTFEAFLESEKPKRLFALTTKGCPAHSQVKFKLGDYLMFGPETRGIPMSILNEMPMEQKIRIPMTANSRSMNLSNSVAVTVYEAWRQLGYKGAVNL
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 77-121 45 1-76, 122-156 76 35 knot
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2.1 76-117 42 1-75 123-156 118-122 75 34 slipknot
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3.1 79-138 60 139-156 1-76 77-78 76 17 slipknot
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3.1 79-129 51 1-76, 137-156 77-78, 130-136 76 20 slipknot
view details
2.1 79-136 58 1-76, 138-156 77-78, 137-137 76 19 slipknot
view details
2.1 80-138 59 139-156 1-78 79-79 78 17 slipknot
sequence length 156
structure length 156
publication title Structure of the YibK methyltransferase from Haemophilus influenzae (HI0766): a Cofactor Bound at a Site Formed by a Knot
pubmed doi rcsb
molecule tags Transferase
molecule keywords Hypothetical tRNA/rRNA methyltransferase HI0766
source organism Haemophilus influenzae
total genus Genus: 45
ec nomenclature ec 2.1.1.207: tRNA (cytidine(34)-2'-O)-methyltransferase.
pdb deposition date 2002-10-02
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 1mxiA00
4CNEB 1UALA 2QMMA 3AIAA 3NK6A 3ONPA 2O3AA 1J85A 1VH0A 1P9PA 1GZ0A 3KTYA 4H3ZA 1VHYA 1NXZA 3NK7A 3IEFA 4CNGB 3AI9X 2I6DA 1VHKA 2HA8A 3AXZA 1MXIA 1X7OA 3GYQA 4IG6A 2YY8A 3KNUA 1O6DA 1UAMA 3DCMX 4H3YA 3QUVA 3N4KA 1NS5A 1K3RA 3L8UA 3E5YA 1V2XA 3IC6A 1UAKA 3ILKA 3KY7A 1UAJA 1TO0A 1ZJRA 4CNFB 1V6ZA 2QWVA 4E8BA 2Z0YA 3N4JA 1X7PA 2CX8A 4FAKA
chains in the KnotProt database with same CATH superfamily
4CNEB 1UALA 2QMMA 3AIAA 3NK6A 3ONPA 2O3AA 1J85A 1VH0A 1P9PA 1GZ0A 3KTYA 4H3ZA 1VHYA 1NXZA 3NK7A 3IEFA 4CNGB 3AI9X 2I6DA 1VHKA 2HA8A 3AXZA 1MXIA 1X7OA 3GYQA 4IG6A 2YY8A 3KNUA 1O6DA 1UAMA 3DCMX 4H3YA 3QUVA 3N4KA 1NS5A 1K3RA 3L8UA 3E5YA 1V2XA 3IC6A 1UAKA 3ILKA 3KY7A 1UAJA 1TO0A 1ZJRA 4CNFB 1V6ZA 2QWVA 4E8BA 2Z0YA 3N4JA 1X7PA 2CX8A 4FAKA
chains in the KnotProt database with same CATH topology
4CNEB 1UALA 2QMMA 3AIAA 3NK6A 3ONPA 2O3AA 1J85A 1VH0A 1P9PA 1GZ0A 3KTYA 4H3ZA 1VHYA 1NXZA 3NK7A 3IEFA 4CNGB 3AI9X 2I6DA 1VHKA 2HA8A 3AXZA 1MXIA 1X7OA 3GYQA 4IG6A 2YY8A 3KNUA 1O6DA 1UAMA 3DCMX 4H3YA 3QUVA 3N4KA 1NS5A 1K3RA 3L8UA 3E5YA 1V2XA 3IC6A 1UAKA 3ILKA 3KY7A 1UAJA 1TO0A 1ZJRA 4CNFB 1V6ZA 2QWVA 4E8BA 2Z0YA 3N4JA 1X7PA 2CX8A 4FAKA
chains in the KnotProt database with same CATH homology


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