3BBEA

M. jannaschii nep1
Total Genus 70
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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
70
Knots found
sequence length
204
structure length
204
Chain Sequence
TYNIILAKSALELIPEEIKNKIRKSRVYKYDILDSNYHYKAMEKLKDKEMRGRPDIIHISLLNILDSPINHEKKLNIYIHTYDDKVLKINPETRLPRNYFRFLGVMEKVLKGERNHLIKMEEKTLEDLLNEINAKKIAIMTKTGKLTHPKLLKEYDTFIIGGFPYGKLKINKEKVFGDIKEISIYNKGLMAWTVCGIICYSLSF
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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 Ribosome biogenesis protein NEP1-like
publication title The crystal structure of Nep1 reveals an extended SPOUT-class methyltransferase fold and a pre-organized SAM-binding site.
pubmed doi rcsb
source organism Methanocaldococcus jannaschii
total genus 70
structure length 204
sequence length 204
chains with identical sequence B
other databases KnotProt 2.0: K +31
ec nomenclature
pdb deposition date 2007-11-09

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 3bbeA00
3OINA 4YQCA 1K3RA 2I6DA 2V3KA 4YVGA 1MXIA 4JAKA 4JALA 3E5YA 3ILKA 4CNGA 4YQQA 3ONPA 3BBDA 2CX8A 4YVIA 4KDZA 4PZKA 2O3AA 4YQ5A 4RG1A 4YQ9A 1UAKA 4YQ4A 1X7OA 2QWVA 5CO4A 5GM8A 4YQJA 5GMCA 3KTYA 1V2XA 4YVJA 3AIAA 2QMMA 1O6DA 4YQBA 3IEFA 3N4KA 1GZ0A 1VHKA 1NXZA 3L8UA 1TO0A 3KY7A 1Z85A 4YQ0A 4YQ7A 1UAJA 4CNDA 3O7BA 4YPYA 2EGWA 4YPXA 4H3ZA 4E8BA 1UALA 4YVHA 3AXZA 4KGNA 3QUVA 3BBHA 1VHYA 3BBEA 4YQGA 3NK6A 1OY5A 4YQ8A 3N4JA 4YQOA 3AI9X 5D9FA 3NK7A 4YQ1A 4MCBA 4YQRA 4MCDA 4J3CA 2EGVA 2Z0YA 4YPZA 1IPAA 3IC6A 4YQPA 1NS5A 3OIIA 3OIJA 4X3MA 4IG6A 4YQ6A 3DCMX 4YQIA 4X3LA 4YQTA 1ZJRA 4YPWA 1J85A 1UAMA 4CNFA 1V6ZA 4MCCA 4FAKA 4YQ2A 4CNEA 1VH0A 4YQSA 5GMBA 3KW2A 4YQKA 2YY8A 4YQLA 4YQNA 2V3JA 4YQ3A 3GYQA 4YQAA 4H3YA 4XBOA 5FAIA 3KNUA 1P9PA 4YQDA 2HA8A 4L69A 1X7PA 4YVKA
chains in the Genus database with same CATH superfamily
3OINA 4YQCA 1K3RA 2I6DA 2V3KA 4YVGA 4JWHA 1MXIA 4JAKA 4JALA 3E5YA 3ILKA 4CNGA 4YQQA 3ONPA 3BBDA 2CX8A 4YVIA 4KDZA 4PZKA 2O3AA 4YQ5A 4RG1A 4YQ9A 1UAKA 4YQ4A 4JWJA 1X7OA 2QWVA 5CO4A 5GM8A 4YQJA 5GMCA 3KTYA 1V2XA 4YVJA 3AIAA 2QMMA 1O6DA 4YQBA 3IEFA 3N4KA 1GZ0A 1VHKA 1NXZA 3L8UA 1TO0A 3KY7A 1Z85A 4YQ0A 4YQ7A 1UAJA 4JWGA 4CNDA 3O7BA 4YPYA 2EGWA 4YPXA 4H3ZA 4E8BA 1UALA 4YVHA 3AXZA 4KGNA 3QUVA 3BBHA 1VHYA 3BBEA 4YQGA 3NK6A 1OY5A 4YQ8A 3N4JA 4YQOA 3AI9X 5D9FA 3NK7A 4YQ1A 4MCBA 4YQRA 4MCDA 4J3CA 2EGVA 2Z0YA 4YPZA 1IPAA 3IC6A 4YQPA 1NS5A 3OIIA 3OIJA 4X3MA 4IG6A 4YQ6A 3DCMX 4YQIA 4X3LA 4YQTA 1ZJRA 4YPWA 1J85A 1UAMA 4CNFA 1V6ZA 4MCCA 4FAKA 4YQ2A 4CNEA 1VH0A 4YQSA 5GMBA 3KW2A 4YQKA 2YY8A 4YQLA 4YQNA 2V3JA 4YQ3A 3GYQA 4YQAA 4H3YA 4XBOA 5FAIA 3KNUA 1P9PA 4YQDA 2HA8A 4JWFA 4L69A 1X7PA 4YVKA 4FMWA
chains in the Genus database with same CATH topology
3OINA 4YQCA 1K3RA 2I6DA 2V3KA 4YVGA 4JWHA 1MXIA 4JAKA 4JALA 3E5YA 3ILKA 4CNGA 4YQQA 3ONPA 3BBDA 2CX8A 4YVIA 4KDZA 4PZKA 2O3AA 4YQ5A 4RG1A 4YQ9A 1UAKA 4YQ4A 4JWJA 1X7OA 2QWVA 5CO4A 5GM8A 4YQJA 5GMCA 3KTYA 1V2XA 4YVJA 3AIAA 2QMMA 1O6DA 4YQBA 3IEFA 3N4KA 1GZ0A 1VHKA 1NXZA 3L8UA 1TO0A 3KY7A 1Z85A 4YQ0A 4YQ7A 1UAJA 4JWGA 4CNDA 3O7BA 4YPYA 2EGWA 4YPXA 4H3ZA 4E8BA 1UALA 4YVHA 3AXZA 4KGNA 3QUVA 3BBHA 1VHYA 3BBEA 4YQGA 3NK6A 1OY5A 4YQ8A 3N4JA 4YQOA 3AI9X 5D9FA 3NK7A 4YQ1A 4MCBA 4YQRA 4MCDA 4J3CA 2EGVA 2Z0YA 4YPZA 1IPAA 3IC6A 4YQPA 1NS5A 3OIIA 3OIJA 4X3MA 4IG6A 4YQ6A 3DCMX 4YQIA 4X3LA 4YQTA 1ZJRA 4YPWA 1J85A 1UAMA 4CNFA 1V6ZA 4MCCA 4FAKA 4YQ2A 4CNEA 1VH0A 4YQSA 5GMBA 3KW2A 4YQKA 2YY8A 4YQLA 4YQNA 2V3JA 4YQ3A 3GYQA 4YQAA 4H3YA 4XBOA 5FAIA 3KNUA 1P9PA 4YQDA 2HA8A 4JWFA 4L69A 1X7PA 4YVKA 4FMWA
chains in the Genus database with same CATH homology


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