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


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