1J85A

Structure of yibk from haemophilus influenzae (hi0766), a truncated sequence homolog of trna (guanosine-2'-o-) methyltransferase (spou)
Total Genus 44
Loading diagram...

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
44
Knots found
sequence length
156
structure length
156
Chain Sequence
MLDIVLYEPEIPQNTGNIIRLCANTGFRLHLIEPLGFTWDDKRLRRSGLDYHEFAEIKRHKTFEAFLESEKPKRLFALTTKGCPAHSQVKFKLGDYLMFGPETRGIPMSILNEMPMEQKIRIPMTANSRSMNLSNSVAVTVYEAWRQLGYKGAVNL
Loading diagram...

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
{{ tooltip.sname }} connected with {{ tooltip.tname }} : {{qFormat(tooltip.svalue) }}
molecule keywords YibK
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 rd
molecule tags Transferase
total genus 44
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 2001-05-20

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 1j85A00
4YVHA 4CNEA 1X7PA 3BBEA 4MCCA 4YQ8A 4YQGA 1NXZA 1UAMA 4YQCA 4YQBA 4YVJA 1P9PA 3IEFA 2I6DA 2O3AA 2YY8A 5GM8A 1MXIA 3AI9X 4YQRA 4YQTA 4YQ4A 3E5YA 1GZ0A 1V2XA 4YVIA 4X3LA 3BBHA 1ZJRA 4YQQA 4IG6A 4YPXA 1X7OA 4YVGA 4YQ5A 1J85A 3L8UA 1VHYA 4L69A 4YPZA 3KY7A 4YQPA 4YQNA 1IPAA 5D9FA 3OIJA 2QWVA 3O7BA 3N4JA 3KNUA 3NK6A 3ILKA 3AXZA 4YQ2A 3ONPA 5CO4A 1UAKA 3GYQA 4XBOA 4E8BA 4YQ6A 3DCMX 4YQ7A 1VH0A 3OINA 3KTYA 4YQOA 5GMCA 4YQIA 4YQKA 4JALA 4YQ1A 3N4KA 4YQDA 4KGNA 4YQ9A 4YQAA 2V3KA 2Z0YA 1VHKA 3KW2A 2CX8A 3QUVA 1O6DA 4YQ3A 4YQLA 4CNFA 4JAKA 4YQJA 4YQ0A 5FAIA 4CNGA 1TO0A 4X3MA 1UAJA 4MCDA 4MCBA 3IC6A 4PZKA 1OY5A 3AIAA 1Z85A 4KDZA 4YVKA 2EGVA 4H3YA 5GMBA 4J3CA 1UALA 2V3JA 4YQSA 2QMMA 4YPYA 1V6ZA 4FAKA 4CNDA 3NK7A 1K3RA 4YPWA 2HA8A 3OIIA 3BBDA 4RG1A 1NS5A 4H3ZA 2EGWA
chains in the Genus database with same CATH superfamily
4YVHA 4CNEA 1X7PA 3BBEA 4MCCA 4YQ8A 4YQGA 1NXZA 1UAMA 4YQCA 4YQBA 4YVJA 1P9PA 3IEFA 2I6DA 2O3AA 2YY8A 5GM8A 1MXIA 3AI9X 4YQRA 4YQTA 4YQ4A 3E5YA 1GZ0A 1V2XA 4YVIA 4X3LA 3BBHA 1ZJRA 4YQQA 4IG6A 4YPXA 1X7OA 4YVGA 4YQ5A 1J85A 3L8UA 1VHYA 4L69A 4YPZA 3KY7A 4YQPA 4YQNA 1IPAA 4JWHA 5D9FA 3OIJA 2QWVA 3O7BA 3N4JA 3KNUA 3NK6A 3ILKA 3AXZA 4YQ2A 3ONPA 5CO4A 1UAKA 3GYQA 4XBOA 4JWGA 4YQ6A 4E8BA 3DCMX 4JWFA 4YQ7A 1VH0A 3OINA 3KTYA 4YQOA 5GMCA 4YQIA 4YQKA 4JALA 4YQ1A 3N4KA 4YQDA 4KGNA 4YQ9A 4YQAA 2V3KA 2Z0YA 1VHKA 3KW2A 2CX8A 3QUVA 1O6DA 4YQ3A 4YQLA 4CNFA 4JAKA 4YQJA 4YQ0A 5FAIA 4CNGA 1TO0A 4X3MA 1UAJA 4MCDA 4MCBA 3IC6A 4PZKA 1OY5A 3AIAA 4JWJA 1Z85A 4KDZA 4YVKA 2EGVA 4H3YA 5GMBA 4J3CA 1UALA 2V3JA 4YQSA 2QMMA 4YPYA 1V6ZA 4FAKA 4CNDA 3NK7A 1K3RA 4FMWA 4YPWA 2HA8A 3OIIA 3BBDA 4RG1A 1NS5A 4H3ZA 2EGWA
chains in the Genus database with same CATH topology
4YVHA 4CNEA 1X7PA 3BBEA 4MCCA 4YQ8A 4YQGA 1NXZA 1UAMA 4YQCA 4YQBA 4YVJA 1P9PA 3IEFA 2I6DA 2O3AA 2YY8A 5GM8A 1MXIA 3AI9X 4YQRA 4YQTA 4YQ4A 3E5YA 1GZ0A 1V2XA 4YVIA 4X3LA 3BBHA 1ZJRA 4YQQA 4IG6A 4YPXA 1X7OA 4YVGA 4YQ5A 1J85A 3L8UA 1VHYA 4L69A 4YPZA 3KY7A 4YQPA 4YQNA 1IPAA 4JWHA 5D9FA 3OIJA 2QWVA 3O7BA 3N4JA 3KNUA 3NK6A 3ILKA 3AXZA 4YQ2A 3ONPA 5CO4A 1UAKA 3GYQA 4XBOA 4JWGA 4YQ6A 4E8BA 3DCMX 4JWFA 4YQ7A 1VH0A 3OINA 3KTYA 4YQOA 5GMCA 4YQIA 4YQKA 4JALA 4YQ1A 3N4KA 4YQDA 4KGNA 4YQ9A 4YQAA 2V3KA 2Z0YA 1VHKA 3KW2A 2CX8A 3QUVA 1O6DA 4YQ3A 4YQLA 4CNFA 4JAKA 4YQJA 4YQ0A 5FAIA 4CNGA 1TO0A 4X3MA 1UAJA 4MCDA 4MCBA 3IC6A 4PZKA 1OY5A 3AIAA 4JWJA 1Z85A 4KDZA 4YVKA 2EGVA 4H3YA 5GMBA 4J3CA 1UALA 2V3JA 4YQSA 2QMMA 4YPYA 1V6ZA 4FAKA 4CNDA 3NK7A 1K3RA 4FMWA 4YPWA 2HA8A 3OIIA 3BBDA 4RG1A 1NS5A 4H3ZA 2EGWA
chains in the Genus database with same CATH homology


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

 
#similar chains in the Genus database (?% sequence similarity)
...loading similar chains, please wait...
#similar chains, but unknotted
...loading similar chains, please wait...
#similar chains in the pdb database (?% sequence similarity)
...loading similar chains, please wait...