4JAK | Genus

Total Genus 44

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	44
Knots found	KnotProt 2.0: K +3₁
sequence length	155
structure length	155
Chain Sequence	MALNIVLYEPEIPPNTGNIIRLCANTGFRLHIIEPMGFAWDDKRLRRAGLDYHEFTAVTRHHDYRAFLEAENPQRLFALTTKGTPAHSAVSYQDGDYLMFGPETRGLPASILDALPAEQKIRIPMVPDSRSMNLSNAVSVVVYEAWRQLGYPGAV

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

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After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

Genus data interpretation

Chord Diagram

publication title	The tRNA recognition mechanism of the minimalist SPOUT methyltransferase, TrmL pubmed doi rcsb
molecule keywords	tRNA (cytidine(34)-2'-O)-methyltransferase
molecule tags	Transferase
source organism	Escherichia coli
total genus	44
structure length	155
sequence length	155
chains with identical sequence	B
other databases	KnotProt 2.0: K +3₁
ec nomenclature	ec 2.1.1.207: tRNA (cytidine(34)-2'-O)-methyltransferase.
pdb deposition date	2013-02-18

Image from the rcsb pdb (www.rcsb.org)

cath code	Class	Architecture	Topology	Homology	Domain
3.40.1280.10	Alpha Beta	3-Layer(aba) Sandwich	Alpha/beta knot	Alpha/beta knot	4jakA00

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

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

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

Total Genus

Knots found

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN