4KGNA

Crystal structure of a trna (cytidine(34)-2'-o)-methyltransferase bound to s-adenosyl homocysteine
Total Genus 45
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
45
Knots found
sequence length
156
structure length
139
Chain Sequence
b'MFNVVLVEPEIPPNTGNVIRLCANTGARLHLIEPLGFPQMRVHRDWDAFVAAEAPDPARMFAFTTRGSGRFHDRAFEPGDWFVFGAETRGLAPALVDRFAPEQRVRLPMRPGNRSLNLSNTVAVVVFEAWRQAGFEGGA'
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 tRNA (cytidine(34)-2'-O)-methyltransferase
publication title Crystal structure of a TrmH family tRNA methyltransferase bound to S-adenosyl homocysteine
rcsb
source organism Burkholderia pseudomallei
molecule tags Transferase
total genus 45
structure length 139
sequence length 156
chains with identical sequence B, C, D, E, F, G, H
other databases KnotProt 2.0: K +31
ec nomenclature ec 2.1.1.207: tRNA (cytidine(34)-2'-O)-methyltransferase.
pdb deposition date 2013-04-29

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 4kgnA00
1VH0A 2O3AA 1TO0A 4YVGA 4YQ7A 4H3YA 1VHYA 5CO4A 1O6DA 4KGNA 4CNGA 3DCMX 2YY8A 3N4JA 4JALA 1IPAA 4YQKA 4YQCA 1Z85A 4PZKA 3IC6A 3ILKA 3ONPA 5D9FA 4YQ6A 3AIAA 4CNFA 1NXZA 3QUVA 4YQ0A 4YPWA 2QWVA 3BBHA 1J85A 4CNDA 3AXZA 4YQPA 4YQ2A 4YQIA 3GYQA 4XBOA 4E8BA 4YQLA 3KNUA 1UAKA 1UAJA 4YQSA 1X7OA 4YVIA 3OINA 4YQQA 2HA8A 1GZ0A 3AI9X 4YVJA 3E5YA 4FAKA 5GMBA 1OY5A 2Z0YA 3OIJA 4YQRA 4RG1A 4YVHA 4YQ1A 4YQJA 4YQGA 4YQAA 4YVKA 3OIIA 4MCCA 4YQNA 3KTYA 3N4KA 1K3RA 2V3KA 3NK7A 4X3MA 4YQDA 4YQTA 5FAIA 3IEFA 4MCDA 4H3ZA 1UALA 4YQ5A 1UAMA 4JAKA 5GMCA 1ZJRA 5GM8A 2CX8A 4YPYA 4YQ3A 4YQOA 4YQ4A 4YQ8A 3KY7A 4MCBA 2QMMA 1X7PA 3BBDA 1V2XA 3O7BA 3BBEA 3NK6A 3KW2A 4X3LA 1VHKA 4YQ9A 2EGVA 2I6DA 2V3JA 4YQBA 3L8UA 4J3CA 1P9PA 1MXIA 4IG6A 4CNEA 4YPZA 4KDZA 1NS5A 4YPXA 4L69A 1V6ZA 2EGWA
chains in the Genus database with same CATH superfamily
1VH0A 2O3AA 1TO0A 4YVGA 4YQ7A 4H3YA 1VHYA 4JWHA 5CO4A 1O6DA 4KGNA 4CNGA 3DCMX 2YY8A 3N4JA 4JALA 1IPAA 4YQKA 4YQCA 1Z85A 4PZKA 4JWFA 3IC6A 3ILKA 3ONPA 5D9FA 4YQ6A 3AIAA 4CNFA 1NXZA 3QUVA 4YQ0A 4YPWA 2QWVA 3BBHA 1J85A 4CNDA 3AXZA 4YQPA 4YQ2A 4YQIA 3GYQA 4XBOA 4E8BA 4YQLA 3KNUA 1UAKA 1UAJA 4YQSA 1X7OA 4YVIA 3OINA 4YQQA 2HA8A 1GZ0A 3AI9X 4YVJA 3E5YA 4FAKA 5GMBA 1OY5A 2Z0YA 3OIJA 4YQRA 4RG1A 4YVHA 4YQ1A 4YQJA 4YQGA 4YQAA 4YVKA 3OIIA 4MCCA 4YQNA 3KTYA 4JWJA 3N4KA 1K3RA 2V3KA 3NK7A 4X3MA 4YQDA 4YQTA 5FAIA 3IEFA 4MCDA 4H3ZA 1UALA 4YQ5A 1UAMA 4JAKA 5GMCA 1ZJRA 5GM8A 2CX8A 4YPYA 4YQ3A 4YQOA 4YQ4A 4YQ8A 3KY7A 4MCBA 2QMMA 1X7PA 3BBDA 1V2XA 3O7BA 3BBEA 3NK6A 3KW2A 4X3LA 1VHKA 4YQ9A 2EGVA 2I6DA 2V3JA 4FMWA 4YQBA 3L8UA 4J3CA 1P9PA 1MXIA 4IG6A 4JWGA 4CNEA 4YPZA 4KDZA 1NS5A 4YPXA 4L69A 1V6ZA 2EGWA
chains in the Genus database with same CATH topology
1VH0A 2O3AA 1TO0A 4YVGA 4YQ7A 4H3YA 1VHYA 4JWHA 5CO4A 1O6DA 4KGNA 4CNGA 3DCMX 2YY8A 3N4JA 4JALA 1IPAA 4YQKA 4YQCA 1Z85A 4PZKA 4JWFA 3IC6A 3ILKA 3ONPA 5D9FA 4YQ6A 3AIAA 4CNFA 1NXZA 3QUVA 4YQ0A 4YPWA 2QWVA 3BBHA 1J85A 4CNDA 3AXZA 4YQPA 4YQ2A 4YQIA 3GYQA 4XBOA 4E8BA 4YQLA 3KNUA 1UAKA 1UAJA 4YQSA 1X7OA 4YVIA 3OINA 4YQQA 2HA8A 1GZ0A 3AI9X 4YVJA 3E5YA 4FAKA 5GMBA 1OY5A 2Z0YA 3OIJA 4YQRA 4RG1A 4YVHA 4YQ1A 4YQJA 4YQGA 4YQAA 4YVKA 3OIIA 4MCCA 4YQNA 3KTYA 4JWJA 3N4KA 1K3RA 2V3KA 3NK7A 4X3MA 4YQDA 4YQTA 5FAIA 3IEFA 4MCDA 4H3ZA 1UALA 4YQ5A 1UAMA 4JAKA 5GMCA 1ZJRA 5GM8A 2CX8A 4YPYA 4YQ3A 4YQOA 4YQ4A 4YQ8A 3KY7A 4MCBA 2QMMA 1X7PA 3BBDA 1V2XA 3O7BA 3BBEA 3NK6A 3KW2A 4X3LA 1VHKA 4YQ9A 2EGVA 2I6DA 2V3JA 4FMWA 4YQBA 3L8UA 4J3CA 1P9PA 1MXIA 4IG6A 4JWGA 4CNEA 4YPZA 4KDZA 1NS5A 4YPXA 4L69A 1V6ZA 2EGWA
chains in the Genus database with same CATH homology


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