3N4KA

Putative rna methyltransferase from yersinia pestis in complex with s-adenosyl-l-homocysteine.
Total Genus 52
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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
52
Knots found
sequence length
163
structure length
163
Chain Sequence
NAMLNIVLFEPEIPPNTGNIIRLCANTGCQLHLIKPLGFTWDDKRLRRAGLDYHEFADIKHHHDYQAFLDSEKLDSTQPARLFALTTKGTPAHSAVSYQANDYLLFGPETRGLPAYILDALPAQQKIRIPMQADSRSMNLSNAVSVVVYEAWRQLGYPGALLK
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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 RNA methyltransferase
publication title X-ray crystal structure of putative RNA methyltransferase from Yersinia pestis.
rcsb
source organism Yersinia pestis
total genus 52
structure length 163
sequence length 163
chains with identical sequence B
other databases KnotProt 2.0: K +31
ec nomenclature ec 2.1.1.207: tRNA (cytidine(34)-2'-O)-methyltransferase.
pdb deposition date 2010-05-21

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 3n4kA00
4CNGA 3KTYA 4E8BA 4KGNA 4YVHA 4YVKA 3AXZA 3O7BA 1V2XA 5GMBA 1UAMA 4CNDA 4YQKA 4YQ8A 2O3AA 4YQPA 4YQOA 4YQAA 3OIIA 4YPWA 3IC6A 4KDZA 1J85A 3BBEA 3AI9X 4YQ6A 4YPXA 4JAKA 5FAIA 4YVGA 4YPYA 4YQSA 1IPAA 2V3KA 4YQJA 2Z0YA 4CNFA 3BBDA 4JALA 1VHKA 5GM8A 1X7PA 3GYQA 3NK6A 1GZ0A 1VH0A 4YQ5A 4YQTA 2YY8A 4YQ0A 1X7OA 4YQ1A 2EGWA 4YQ4A 4RG1A 3L8UA 1TO0A 3QUVA 3BBHA 4MCDA 3AIAA 2V3JA 4FAKA 3NK7A 1K3RA 4H3YA 3IEFA 3N4JA 2HA8A 1NXZA 3N4KA 1NS5A 4YVJA 4YQGA 1O6DA 4YVIA 3KW2A 4MCBA 1OY5A 1Z85A 4YQDA 3ILKA 4YQ7A 4YQQA 4YQ9A 4X3LA 2QMMA 3DCMX 2EGVA 4YQBA 4J3CA 3KY7A 1P9PA 2QWVA 3E5YA 4X3MA 5GMCA 4XBOA 5D9FA 3OINA 4YQRA 1UAKA 4YQCA 2I6DA 4YQNA 4YQLA 3OIJA 3ONPA 3KNUA 1VHYA 4L69A 4YQ2A 4YPZA 1V6ZA 1UALA 4YQ3A 4IG6A 1ZJRA 2CX8A 1MXIA 5CO4A 4PZKA 4YQIA 4CNEA 1UAJA 4H3ZA 4MCCA
chains in the Genus database with same CATH superfamily
4CNGA 3KTYA 4E8BA 4KGNA 4YVHA 4YVKA 3AXZA 3O7BA 1V2XA 5GMBA 1UAMA 4CNDA 4YQKA 4YQ8A 2O3AA 4YQPA 4YQOA 4YQAA 3OIIA 4YPWA 3IC6A 4KDZA 1J85A 3BBEA 3AI9X 4YQ6A 4YPXA 4JAKA 5FAIA 4JWJA 4YVGA 4YPYA 4YQSA 1IPAA 2V3KA 4YQJA 2Z0YA 4JWHA 4CNFA 3BBDA 4JALA 1VHKA 5GM8A 1X7PA 3GYQA 3NK6A 1GZ0A 1VH0A 4YQ5A 4YQTA 2YY8A 4YQ0A 1X7OA 4YQ1A 2EGWA 4YQ4A 4RG1A 3L8UA 1TO0A 3QUVA 3BBHA 4MCDA 3AIAA 2V3JA 4FAKA 3NK7A 1K3RA 4H3YA 4JWGA 3IEFA 3N4JA 2HA8A 1NXZA 3N4KA 1NS5A 4YVJA 4FMWA 4YQGA 1O6DA 4YVIA 3KW2A 4MCBA 1OY5A 1Z85A 4YQDA 3ILKA 4YQ7A 4JWFA 4YQQA 4X3LA 4YQ9A 2QMMA 3DCMX 2EGVA 4YQBA 4J3CA 3KY7A 1P9PA 2QWVA 3E5YA 4X3MA 5GMCA 4XBOA 5D9FA 3OINA 4YQRA 1UAKA 4YQCA 2I6DA 4YQNA 4YQLA 3OIJA 3ONPA 3KNUA 1VHYA 4L69A 4YQ2A 4YPZA 4MCCA 1V6ZA 1UALA 4YQ3A 1ZJRA 2CX8A 1MXIA 5CO4A 4PZKA 4YQIA 4CNEA 1UAJA 4H3ZA 4IG6A
chains in the Genus database with same CATH topology
4CNGA 3KTYA 4E8BA 4KGNA 4YVHA 4YVKA 3AXZA 3O7BA 1V2XA 5GMBA 1UAMA 4CNDA 4YQKA 4YQ8A 2O3AA 4YQPA 4YQOA 4YQAA 3OIIA 4YPWA 3IC6A 4KDZA 1J85A 3BBEA 3AI9X 4YQ6A 4YPXA 4JAKA 5FAIA 4JWJA 4YVGA 4YPYA 4YQSA 1IPAA 2V3KA 4YQJA 2Z0YA 4JWHA 4CNFA 3BBDA 4JALA 1VHKA 5GM8A 1X7PA 3GYQA 3NK6A 1GZ0A 1VH0A 4YQ5A 4YQTA 2YY8A 4YQ0A 1X7OA 4YQ1A 2EGWA 4YQ4A 4RG1A 3L8UA 1TO0A 3QUVA 3BBHA 4MCDA 3AIAA 2V3JA 4FAKA 3NK7A 1K3RA 4H3YA 4JWGA 3IEFA 3N4JA 2HA8A 1NXZA 3N4KA 1NS5A 4YVJA 4FMWA 4YQGA 1O6DA 4YVIA 3KW2A 4MCBA 1OY5A 1Z85A 4YQDA 3ILKA 4YQ7A 4JWFA 4YQQA 4X3LA 4YQ9A 2QMMA 3DCMX 2EGVA 4YQBA 4J3CA 3KY7A 1P9PA 2QWVA 3E5YA 4X3MA 5GMCA 4XBOA 5D9FA 3OINA 4YQRA 1UAKA 4YQCA 2I6DA 4YQNA 4YQLA 3OIJA 3ONPA 3KNUA 1VHYA 4L69A 4YQ2A 4YPZA 4MCCA 1V6ZA 1UALA 4YQ3A 1ZJRA 2CX8A 1MXIA 5CO4A 4PZKA 4YQIA 4CNEA 1UAJA 4H3ZA 4IG6A
chains in the Genus database with same CATH homology


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