1MXIA

Structure of yibk from haemophilus influenzae (hi0766): a methyltransferase with a cofactor bound at a site formed by a knot
Total Genus 45
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The genus trace: a function that shows values of genus (vertical axis) for subchains spanned between the first residue, and all other residues (shown on horizontal axis). The number of the latter residue and the genus of a given subchain are shown interactively.

Total Genus
45
Knots found
sequence length
156
structure length
156
Chain Sequence
MLDIVLYEPEIPQNTGNIIRLCANTGFRLHLIEPLGFTWDDKRLRRSGLDYHEFAEIKRHKTFEAFLESEKPKRLFALTTKGCPAHSQVKFKLGDYLMFGPETRGIPMSILNEMPMEQKIRIPMTANSRSMNLSNSVAVTVYEAWRQLGYKGAVNL
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The genus matrix. At position (x,y) a genus value for a subchain spanned between x’th and y’th residue is shown. Values of the genus are represented by color, according to the scale given on the right.

Structure visualization

After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

Chord Diagram
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molecule tags Transferase
molecule keywords Hypothetical tRNA/rRNA methyltransferase HI0766
publication title Structure of the YibK methyltransferase from Haemophilus influenzae (HI0766): a Cofactor Bound at a Site Formed by a Knot
pubmed doi rcsb
source organism Haemophilus influenzae
total genus 45
structure length 156
sequence length 156
other databases KnotProt 2.0: K +31
ec nomenclature ec 2.1.1.207: tRNA (cytidine(34)-2'-O)-methyltransferase.
pdb deposition date 2002-10-02

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
4CNEA 4YQ1A 4YVJA 4YQTA 2Z0YA 4YQ7A 4JAKA 1TO0A 3BBEA 4MCBA 5D9FA 4J3CA 4JALA 4YQPA 3N4JA 4CNFA 3KNUA 3KW2A 1MXIA 2YY8A 3BBHA 4KGNA 3GYQA 3AXZA 2EGVA 1Z85A 4YVKA 4YQKA 4YPXA 1VHKA 3L8UA 3OINA 1UAKA 5CO4A 3AIAA 4YQOA 3DCMX 3O7BA 2O3AA 2QMMA 2CX8A 3IEFA 1P9PA 4YQGA 4YQ9A 1NXZA 2HA8A 1UAJA 4YQCA 1V2XA 3BBDA 2EGWA 4YQ2A 3KY7A 4YQLA 1V6ZA 1GZ0A 4MCCA 4YQ3A 1OY5A 3ONPA 5GM8A 1IPAA 1J85A 4CNDA 4KDZA 5GMBA 4YQBA 2V3KA 2QWVA 4YQJA 4YQRA 3N4KA 4YPYA 4YQ5A 4YQNA 3NK7A 3AI9X 1ZJRA 4E8BA 4MCDA 4CNGA 1X7PA 4PZKA 3ILKA 4YPWA 4X3LA 4YVIA 3OIJA 1X7OA 5GMCA 3QUVA 1K3RA 4IG6A 2I6DA 4XBOA 4X3MA 1NS5A 4YPZA 4FAKA 4YQSA 4YQQA 3KTYA 5FAIA 4RG1A 4H3ZA 3OIIA 1O6DA 4YVGA 4YQ0A 4YQAA 4H3YA 4YQ4A 1UALA 4YQ6A 4YQIA 3NK6A 1UAMA 2V3JA 4YQDA 4YQ8A 4L69A 1VHYA 1VH0A 3IC6A 4YVHA 3E5YA
chains in the Genus database with same CATH superfamily
4CNEA 4YQ1A 4YVJA 4YQTA 2Z0YA 4YQ7A 4JAKA 4FMWA 1TO0A 3BBEA 4MCBA 5D9FA 4J3CA 4JALA 4YQPA 3N4JA 4CNFA 3KNUA 3KW2A 1MXIA 2YY8A 3BBHA 4KGNA 3GYQA 3AXZA 4JWHA 2EGVA 1Z85A 4YVKA 4YQKA 4YPXA 1VHKA 3L8UA 3OINA 1UAKA 5CO4A 3AIAA 4YQOA 3DCMX 3O7BA 2O3AA 2QMMA 2CX8A 3IEFA 1P9PA 4YQGA 4YQ9A 1NXZA 2HA8A 1UAJA 4YQCA 1V2XA 3BBDA 2EGWA 4YQ2A 3KY7A 4YQLA 1V6ZA 1GZ0A 4MCCA 4YQ3A 1OY5A 3ONPA 5GM8A 4JWGA 1IPAA 1J85A 4CNDA 4KDZA 5GMBA 4YQBA 2V3KA 2QWVA 4YQJA 4YQRA 3N4KA 4YPYA 4YQ5A 4YQNA 4JWFA 3NK7A 3AI9X 4JWJA 1ZJRA 4E8BA 4MCDA 4CNGA 1X7PA 4PZKA 3ILKA 4YPWA 4X3LA 4YVIA 3OIJA 1X7OA 5GMCA 3QUVA 1K3RA 4IG6A 2I6DA 4XBOA 1NS5A 4X3MA 4YPZA 4FAKA 4YQSA 4YQQA 3KTYA 5FAIA 4RG1A 4H3ZA 3OIIA 1O6DA 4YVGA 4YQ0A 4YQAA 4H3YA 4YQ4A 1UALA 4YQ6A 4YQIA 3NK6A 1UAMA 2V3JA 4YQDA 4YQ8A 4L69A 1VHYA 1VH0A 3IC6A 4YVHA 3E5YA
chains in the Genus database with same CATH topology
4CNEA 4YQ1A 4YVJA 4YQTA 2Z0YA 4YQ7A 4JAKA 4FMWA 1TO0A 3BBEA 4MCBA 5D9FA 4J3CA 4JALA 4YQPA 3N4JA 4CNFA 3KNUA 3KW2A 1MXIA 2YY8A 3BBHA 4KGNA 3GYQA 3AXZA 4JWHA 2EGVA 1Z85A 4YVKA 4YQKA 4YPXA 1VHKA 3L8UA 3OINA 1UAKA 5CO4A 3AIAA 4YQOA 3DCMX 3O7BA 2O3AA 2QMMA 2CX8A 3IEFA 1P9PA 4YQGA 4YQ9A 1NXZA 2HA8A 1UAJA 4YQCA 1V2XA 3BBDA 2EGWA 4YQ2A 3KY7A 4YQLA 1V6ZA 1GZ0A 4MCCA 4YQ3A 1OY5A 3ONPA 5GM8A 4JWGA 1IPAA 1J85A 4CNDA 4KDZA 5GMBA 4YQBA 2V3KA 2QWVA 4YQJA 4YQRA 3N4KA 4YPYA 4YQ5A 4YQNA 4JWFA 3NK7A 3AI9X 4JWJA 1ZJRA 4E8BA 4MCDA 4CNGA 1X7PA 4PZKA 3ILKA 4YPWA 4X3LA 4YVIA 3OIJA 1X7OA 5GMCA 3QUVA 1K3RA 4IG6A 2I6DA 4XBOA 1NS5A 4X3MA 4YPZA 4FAKA 4YQSA 4YQQA 3KTYA 5FAIA 4RG1A 4H3ZA 3OIIA 1O6DA 4YVGA 4YQ0A 4YQAA 4H3YA 4YQ4A 1UALA 4YQ6A 4YQIA 3NK6A 1UAMA 2V3JA 4YQDA 4YQ8A 4L69A 1VHYA 1VH0A 3IC6A 4YVHA 3E5YA
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 4CNE A;  4YQ1 A;  4YVJ A;  4YQT A;  2Z0Y A;  4YQ7 A;  4JAK A;  1TO0 A;  3BBE A;  4MCB A;  5D9F A;  4J3C A;  4JAL A;  4YQP A;  3N4J A;  4CNF A;  3KNU A;  3KW2 A;  1MXI A;  2YY8 A;  3BBH A;  4KGN A;  3GYQ A;  3AXZ A;  2EGV A;  1Z85 A;  4YVK A;  4YQK A;  4YPX A;  1VHK A;  3L8U A;  3OIN A;  1UAK A;  5CO4 A;  3AIA A;  4YQO A;  3DCM X;  3O7B A;  2O3A A;  2QMM A;  2CX8 A;  3IEF A;  1P9P A;  4YQG A;  4YQ9 A;  1NXZ A;  2HA8 A;  1UAJ A;  4YQC A;  1V2X A;  3BBD A;  2EGW A;  4YQ2 A;  3KY7 A;  4YQL A;  1V6Z A;  1GZ0 A;  4MCC A;  4YQ3 A;  1OY5 A;  3ONP A;  5GM8 A;  1IPA A;  1J85 A;  4CND A;  4KDZ A;  5GMB A;  4YQB A;  2V3K A;  2QWV A;  4YQJ A;  4YQR A;  3N4K A;  4YPY A;  4YQ5 A;  4YQN A;  3NK7 A;  3AI9 X;  1ZJR A;  4E8B A;  4MCD A;  4CNG A;  1X7P A;  4PZK A;  3ILK A;  4YPW A;  4X3L A;  4YVI A;  3OIJ A;  1X7O A;  5GMC A;  3QUV A;  1K3R A;  4IG6 A;  2I6D A;  4XBO A;  4X3M A;  1NS5 A;  4YPZ A;  4FAK A;  4YQS A;  4YQQ A;  3KTY A;  5FAI A;  4RG1 A;  4H3Z A;  3OII A;  1O6D A;  4YVG A;  4YQ0 A;  4YQA A;  4H3Y A;  4YQ4 A;  1UAL A;  4YQ6 A;  4YQI A;  3NK6 A;  1UAM A;  2V3J A;  4YQD A;  4YQ8 A;  4L69 A;  1VHY A;  1VH0 A;  3IC6 A;  4YVH A;  3E5Y A; 
#chains in the Genus database with same CATH topology
 4CNE A;  4YQ1 A;  4YVJ A;  4YQT A;  2Z0Y A;  4YQ7 A;  4JAK A;  4FMW A;  1TO0 A;  3BBE A;  4MCB A;  5D9F A;  4J3C A;  4JAL A;  4YQP A;  3N4J A;  4CNF A;  3KNU A;  3KW2 A;  1MXI A;  2YY8 A;  3BBH A;  4KGN A;  3GYQ A;  3AXZ A;  4JWH A;  2EGV A;  1Z85 A;  4YVK A;  4YQK A;  4YPX A;  1VHK A;  3L8U A;  3OIN A;  1UAK A;  5CO4 A;  3AIA A;  4YQO A;  3DCM X;  3O7B A;  2O3A A;  2QMM A;  2CX8 A;  3IEF A;  1P9P A;  4YQG A;  4YQ9 A;  1NXZ A;  2HA8 A;  1UAJ A;  4YQC A;  1V2X A;  3BBD A;  2EGW A;  4YQ2 A;  3KY7 A;  4YQL A;  1V6Z A;  1GZ0 A;  4MCC A;  4YQ3 A;  1OY5 A;  3ONP A;  5GM8 A;  4JWG A;  1IPA A;  1J85 A;  4CND A;  4KDZ A;  5GMB A;  4YQB A;  2V3K A;  2QWV A;  4YQJ A;  4YQR A;  3N4K A;  4YPY A;  4YQ5 A;  4YQN A;  4JWF A;  3NK7 A;  3AI9 X;  4JWJ A;  1ZJR A;  4E8B A;  4MCD A;  4CNG A;  1X7P A;  4PZK A;  3ILK A;  4YPW A;  4X3L A;  4YVI A;  3OIJ A;  1X7O A;  5GMC A;  3QUV A;  1K3R A;  4IG6 A;  2I6D A;  4XBO A;  1NS5 A;  4X3M A;  4YPZ A;  4FAK A;  4YQS A;  4YQQ A;  3KTY A;  5FAI A;  4RG1 A;  4H3Z A;  3OII A;  1O6D A;  4YVG A;  4YQ0 A;  4YQA A;  4H3Y A;  4YQ4 A;  1UAL A;  4YQ6 A;  4YQI A;  3NK6 A;  1UAM A;  2V3J A;  4YQD A;  4YQ8 A;  4L69 A;  1VHY A;  1VH0 A;  3IC6 A;  4YVH A;  3E5Y A; 
#chains in the Genus database with same CATH homology
 4CNE A;  4YQ1 A;  4YVJ A;  4YQT A;  2Z0Y A;  4YQ7 A;  4JAK A;  4FMW A;  1TO0 A;  3BBE A;  4MCB A;  5D9F A;  4J3C A;  4JAL A;  4YQP A;  3N4J A;  4CNF A;  3KNU A;  3KW2 A;  1MXI A;  2YY8 A;  3BBH A;  4KGN A;  3GYQ A;  3AXZ A;  4JWH A;  2EGV A;  1Z85 A;  4YVK A;  4YQK A;  4YPX A;  1VHK A;  3L8U A;  3OIN A;  1UAK A;  5CO4 A;  3AIA A;  4YQO A;  3DCM X;  3O7B A;  2O3A A;  2QMM A;  2CX8 A;  3IEF A;  1P9P A;  4YQG A;  4YQ9 A;  1NXZ A;  2HA8 A;  1UAJ A;  4YQC A;  1V2X A;  3BBD A;  2EGW A;  4YQ2 A;  3KY7 A;  4YQL A;  1V6Z A;  1GZ0 A;  4MCC A;  4YQ3 A;  1OY5 A;  3ONP A;  5GM8 A;  4JWG A;  1IPA A;  1J85 A;  4CND A;  4KDZ A;  5GMB A;  4YQB A;  2V3K A;  2QWV A;  4YQJ A;  4YQR A;  3N4K A;  4YPY A;  4YQ5 A;  4YQN A;  4JWF A;  3NK7 A;  3AI9 X;  4JWJ A;  1ZJR A;  4E8B A;  4MCD A;  4CNG A;  1X7P A;  4PZK A;  3ILK A;  4YPW A;  4X3L A;  4YVI A;  3OIJ A;  1X7O A;  5GMC A;  3QUV A;  1K3R A;  4IG6 A;  2I6D A;  4XBO A;  1NS5 A;  4X3M A;  4YPZ A;  4FAK A;  4YQS A;  4YQQ A;  3KTY A;  5FAI A;  4RG1 A;  4H3Z A;  3OII A;  1O6D A;  4YVG A;  4YQ0 A;  4YQA A;  4H3Y A;  4YQ4 A;  1UAL A;  4YQ6 A;  4YQI A;  3NK6 A;  1UAM A;  2V3J A;  4YQD A;  4YQ8 A;  4L69 A;  1VHY A;  1VH0 A;  3IC6 A;  4YVH A;  3E5Y A; 
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similar chains in the Genus database (?% sequence similarity)
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similar chains in the pdb database (?% sequence similarity)

 
#similar chains in the Genus database (?% sequence similarity)
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#similar chains, but unknotted
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