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


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