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


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