4FAKA

Crystal structure of orfx in complex with s-adenosylmethionine
Total Genus 53
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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
53
Knots found
sequence length
163
structure length
163
Chain Sequence
AAEFMKITILAVGKLKEKYWKQAIAEYEKRLGPYTKIDIIEVPDEKAPENMSDKEIEQVKEKEGQRILAKIKPQSTVITLEIQGKMLSSEGLAQELNQRMTQGQSDFVFVIGGSNGLHKDVLQRSNYALSFSKMTFPHQMMRVVLIEQVYRAFKIMRGEAYHK
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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, ribosomal protein
molecule keywords Ribosomal RNA large subunit methyltransferase H
publication title Characterization of the Staphylococcus aureus rRNA Methyltransferase Encoded by orfX, the Gene Containing the Staphylococcal Chromosome Cassette mec (SCCmec) Insertion Site.
pubmed doi rcsb
source organism Staphylococcus aureus
total genus 53
structure length 163
sequence length 163
other databases KnotProt 2.0: K +31
ec nomenclature ec 2.1.1.177: 23S rRNA (pseudouridine(1915)-N(3))-methyltransferase.
pdb deposition date 2012-05-22

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
A PF02590 SPOUT_MTase Predicted SPOUT 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 4fakA00
2O3AA 1MXIA 4YQ2A 4FAKA 4YQTA 2QMMA 4YQSA 4YQGA 4YPZA 2YY8A 4YVKA 4YQIA 1VH0A 4IG6A 4YVJA 4YQ3A 3KNUA 4E8BA 1Z85A 4YQ9A 3GYQA 2V3KA 1NS5A 4H3YA 4YQ0A 4YQDA 4CNFA 4YPYA 1NXZA 1UAJA 4YVGA 4YQKA 4CNGA 4KGNA 1V2XA 1IPAA 3KW2A 3AXZA 4YQOA 1P9PA 4KDZA 4YQPA 1VHKA 2EGVA 5GM8A 4PZKA 4YQCA 4YQBA 1X7PA 4YVIA 5GMCA 1GZ0A 3AI9X 4YQNA 4YQ4A 4YPWA 3KTYA 3ONPA 3BBHA 3KY7A 4CNDA 2I6DA 4YQ7A 1OY5A 4YQ6A 4YQ8A 3QUVA 3BBDA 4JALA 5GMBA 4YQ5A 2CX8A 3NK7A 4YVHA 3NK6A 1ZJRA 4YQJA 3O7BA 1K3RA 4YQRA 3AIAA 4J3CA 1TO0A 5CO4A 4X3LA 1UALA 1VHYA 4H3ZA 4X3MA 2HA8A 3DCMX 4XBOA 4YQQA 3N4KA 4MCDA 4MCBA 1UAKA 4YPXA 4CNEA 1J85A 2Z0YA 3OIJA 1UAMA 3IC6A 4RG1A 1X7OA 3L8UA 4YQ1A 2QWVA 4YQLA 1O6DA 4JAKA 3OIIA 4YQAA 5FAIA 5D9FA 3IEFA 3N4JA 3BBEA 3OINA 2EGWA 4MCCA 3E5YA 2V3JA 3ILKA 1V6ZA 4L69A
chains in the Genus database with same CATH superfamily
2O3AA 1MXIA 4YQ2A 4FAKA 4YQTA 2QMMA 4YQSA 4YQGA 4YPZA 2YY8A 4YVKA 4YQIA 1VH0A 4IG6A 4YVJA 4JWGA 4YQ3A 3KNUA 4E8BA 1Z85A 4YQ9A 3GYQA 2V3KA 1NS5A 4H3YA 4YQ0A 4YQDA 4CNFA 4YPYA 1NXZA 1UAJA 4YVGA 4YQKA 4CNGA 4KGNA 1V2XA 1IPAA 3KW2A 3AXZA 4YQOA 1P9PA 4KDZA 4YQPA 1VHKA 2EGVA 5GM8A 4PZKA 4YQCA 4YQBA 1X7PA 4YVIA 5GMCA 1GZ0A 3AI9X 4YQNA 4YQ4A 4JWFA 4YPWA 3KTYA 3ONPA 3BBHA 3KY7A 4CNDA 2I6DA 4YQ7A 1OY5A 4YQ6A 4YQ8A 3QUVA 3BBDA 4JALA 5GMBA 4YQ5A 2CX8A 3NK7A 4YVHA 3NK6A 1ZJRA 4YQJA 3O7BA 1K3RA 4YQRA 3AIAA 4J3CA 1TO0A 5CO4A 4X3LA 1UALA 1VHYA 4H3ZA 4X3MA 2HA8A 3DCMX 4FMWA 4XBOA 4YQQA 3N4KA 4MCDA 4MCBA 4JWJA 1UAKA 4YPXA 4CNEA 1J85A 2Z0YA 3OIJA 1UAMA 3IC6A 4RG1A 1X7OA 3L8UA 4YQ1A 2QWVA 4YQLA 1O6DA 4JAKA 3OIIA 4YQAA 5FAIA 5D9FA 3IEFA 3N4JA 3BBEA 3OINA 2EGWA 4MCCA 4JWHA 3E5YA 2V3JA 3ILKA 1V6ZA 4L69A
chains in the Genus database with same CATH topology
2O3AA 1MXIA 4YQ2A 4FAKA 4YQTA 2QMMA 4YQSA 4YQGA 4YPZA 2YY8A 4YVKA 4YQIA 1VH0A 4IG6A 4YVJA 4JWGA 4YQ3A 3KNUA 4E8BA 1Z85A 4YQ9A 3GYQA 2V3KA 1NS5A 4H3YA 4YQ0A 4YQDA 4CNFA 4YPYA 1NXZA 1UAJA 4YVGA 4YQKA 4CNGA 4KGNA 1V2XA 1IPAA 3KW2A 3AXZA 4YQOA 1P9PA 4KDZA 4YQPA 1VHKA 2EGVA 5GM8A 4PZKA 4YQCA 4YQBA 1X7PA 4YVIA 5GMCA 1GZ0A 3AI9X 4YQNA 4YQ4A 4JWFA 4YPWA 3KTYA 3ONPA 3BBHA 3KY7A 4CNDA 2I6DA 4YQ7A 1OY5A 4YQ6A 4YQ8A 3QUVA 3BBDA 4JALA 5GMBA 4YQ5A 2CX8A 3NK7A 4YVHA 3NK6A 1ZJRA 4YQJA 3O7BA 1K3RA 4YQRA 3AIAA 4J3CA 1TO0A 5CO4A 4X3LA 1UALA 1VHYA 4H3ZA 4X3MA 2HA8A 3DCMX 4FMWA 4XBOA 4YQQA 3N4KA 4MCDA 4MCBA 4JWJA 1UAKA 4YPXA 4CNEA 1J85A 2Z0YA 3OIJA 1UAMA 3IC6A 4RG1A 1X7OA 3L8UA 4YQ1A 2QWVA 4YQLA 1O6DA 4JAKA 3OIIA 4YQAA 5FAIA 5D9FA 3IEFA 3N4JA 3BBEA 3OINA 2EGWA 4MCCA 4JWHA 3E5YA 2V3JA 3ILKA 1V6ZA 4L69A
chains in the Genus database with same CATH homology


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