2V3KA

The yeast ribosome synthesis factor emg1 alpha beta knot fold methyltransferase
Total Genus 58
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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
58
Knots found
sequence length
227
structure length
218
Chain Sequence
PQAPPVLTSKDKITKRMIVVLAMASLETHKIYVLLNCDDHQGLLKKMGRDISEARPDITHQCLLTLLDSPINKAGKLQVYIQTSRGILIEVNPTVRIPRTFKRFSGLMVQLLHKLSIRSVNSEEKLLKVIKNPITDHLPTKCRKVTLSFDAPVIRVQDYIEKLDDDESICVFVGAMARGKDNFADEYVDEKVGLSNYPLSASVACSKFCHGAEDAWNI
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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 Ribosomal protein
molecule keywords ESSENTIAL FOR MITOTIC GROWTH 1
publication title The Yeast Ribosome Synthesis Factor Emg1 is a Novel Member of the Superfamily of Alpha/Beta Knot Fold Methyltransferases.
pubmed doi rcsb
source organism Saccharomyces cerevisiae
total genus 58
structure length 218
sequence length 227
other databases KnotProt 2.0: K +31
ec nomenclature ec 2.1.1.260: rRNA small subunit pseudouridine methyltransferase Nep1.
pdb deposition date 2007-06-18

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF03587 EMG1 EMG1/NEP1 methyltransferase
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 2v3kA01
4MCDA 4YQGA 4YPZA 4YQQA 3BBHA 3OIJA 2V3JA 1NXZA 3N4KA 5GM8A 1VH0A 2EGWA 4YPWA 3OIIA 4CNEA 3DCMX 3KTYA 4YQLA 4YQRA 3NK6A 4YQOA 4MCBA 4XBOA 3E5YA 1K3RA 4YQ8A 4YQ0A 4H3YA 4JALA 1TO0A 4YQBA 3KY7A 1NS5A 4YVGA 4YQIA 4JAKA 4YVJA 3L8UA 1V2XA 3GYQA 1UAJA 4L69A 4YQ2A 2CX8A 4YVKA 3KNUA 4X3MA 1MXIA 3BBDA 3OINA 4YQDA 4YQPA 3IC6A 4KGNA 4CNDA 2YY8A 3ONPA 4YPYA 4YQKA 1OY5A 4YQ4A 3QUVA 4YQAA 1V6ZA 1UALA 1P9PA 1ZJRA 5FAIA 1UAKA 4YVIA 4YVHA 2Z0YA 3AIAA 4YQ6A 4YQ3A 4FAKA 4YQ1A 3ILKA 4KDZA 1Z85A 4YPXA 4H3ZA 5D9FA 2O3AA 4CNGA 3N4JA 4YQSA 4YQJA 5CO4A 4YQ7A 3BBEA 2I6DA 1IPAA 4PZKA 3O7BA 3AI9X 4YQTA 1X7OA 3NK7A 2QWVA 4YQNA 2EGVA 1GZ0A 4RG1A 4YQ5A 1VHYA 5GMCA 5GMBA 2HA8A 4IG6A 3KW2A 3IEFA 4CNFA 3AXZA 4MCCA 1O6DA 2V3KA 4X3LA 4E8BA 1X7PA 1VHKA 1J85A 4J3CA 4YQ9A 2QMMA 4YQCA 1UAMA
chains in the Genus database with same CATH superfamily
4MCDA 4YQGA 4YPZA 4YQQA 3BBHA 3OIJA 2V3JA 1NXZA 3N4KA 4JWGA 5GM8A 1VH0A 2EGWA 4YPWA 3OIIA 4JWHA 4CNEA 3DCMX 3KTYA 4YQLA 4YQRA 3NK6A 4YQOA 4MCBA 4XBOA 3E5YA 1K3RA 4YQ8A 4YQ0A 4H3YA 4JALA 1TO0A 4YQBA 3KY7A 1NS5A 4YVGA 4YQIA 4JAKA 4YVJA 3L8UA 1V2XA 3GYQA 1UAJA 4L69A 4YQ2A 2CX8A 4YVKA 3KNUA 4X3MA 1MXIA 3BBDA 3OINA 4YQDA 4YQPA 3IC6A 4KGNA 4CNDA 2YY8A 3ONPA 4YPYA 4YQKA 1OY5A 4YQ4A 3QUVA 4YQAA 1V6ZA 1UALA 1P9PA 1ZJRA 5FAIA 1UAKA 4YVIA 4YVHA 2Z0YA 3AIAA 4YQ6A 4YQ3A 4FAKA 4YQ1A 4FMWA 3ILKA 4KDZA 1Z85A 4YPXA 4H3ZA 5D9FA 2O3AA 4CNGA 3N4JA 4YQSA 4YQJA 5CO4A 4YQ7A 3BBEA 2I6DA 1IPAA 4PZKA 3O7BA 3AI9X 4YQTA 1X7OA 3NK7A 2QWVA 4YQNA 2EGVA 1GZ0A 4RG1A 4YQ5A 1VHYA 5GMCA 5GMBA 2HA8A 4IG6A 3KW2A 3IEFA 4JWJA 4CNFA 3AXZA 4MCCA 1O6DA 2V3KA 4X3LA 4E8BA 1X7PA 4JWFA 1VHKA 1J85A 4J3CA 4YQ9A 2QMMA 4YQCA 1UAMA
chains in the Genus database with same CATH topology
4MCDA 4YQGA 4YPZA 4YQQA 3BBHA 3OIJA 2V3JA 1NXZA 3N4KA 4JWGA 5GM8A 1VH0A 2EGWA 4YPWA 3OIIA 4JWHA 4CNEA 3DCMX 3KTYA 4YQLA 4YQRA 3NK6A 4YQOA 4MCBA 4XBOA 3E5YA 1K3RA 4YQ8A 4YQ0A 4H3YA 4JALA 1TO0A 4YQBA 3KY7A 1NS5A 4YVGA 4YQIA 4JAKA 4YVJA 3L8UA 1V2XA 3GYQA 1UAJA 4L69A 4YQ2A 2CX8A 4YVKA 3KNUA 4X3MA 1MXIA 3BBDA 3OINA 4YQDA 4YQPA 3IC6A 4KGNA 4CNDA 2YY8A 3ONPA 4YPYA 4YQKA 1OY5A 4YQ4A 3QUVA 4YQAA 1V6ZA 1UALA 1P9PA 1ZJRA 5FAIA 1UAKA 4YVIA 4YVHA 2Z0YA 3AIAA 4YQ6A 4YQ3A 4FAKA 4YQ1A 4FMWA 3ILKA 4KDZA 1Z85A 4YPXA 4H3ZA 5D9FA 2O3AA 4CNGA 3N4JA 4YQSA 4YQJA 5CO4A 4YQ7A 3BBEA 2I6DA 1IPAA 4PZKA 3O7BA 3AI9X 4YQTA 1X7OA 3NK7A 2QWVA 4YQNA 2EGVA 1GZ0A 4RG1A 4YQ5A 1VHYA 5GMCA 5GMBA 2HA8A 4IG6A 3KW2A 3IEFA 4JWJA 4CNFA 3AXZA 4MCCA 1O6DA 2V3KA 4X3LA 4E8BA 1X7PA 4JWFA 1VHKA 1J85A 4J3CA 4YQ9A 2QMMA 4YQCA 1UAMA
chains in the Genus database with same CATH homology


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