1VH0 | Genus

Total Genus 54

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	54
Knots found	KnotProt 2.0: K +3₁
sequence length	157
structure length	157
Chain Sequence	LKITILAVGKLKEKYWKQAIAEYEKRLGPYTKIDIIEVPDEKAPENMSDKEIEQVKEKEGQRILAKIKPQSTVITLEIQGKMLSSEGLAQELNQRMTQGQSDFVFVIGGSNGLHKDVLQRSNYALSFSKMTFPHQMMRVVLIEQVYRAFKIMRGEAY

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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reading 157 atoms

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157 atoms created

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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	Structural analysis of a set of proteins resulting from a bacterial genomics project pubmed doi rcsb
molecule keywords	Hypothetical UPF0247 protein SAV0024/SA0023
molecule tags	Structural genomics, unknown function
source organism	Staphylococcus aureus
total genus	54
structure length	157
sequence length	157
chains with identical sequence	B, C, D, E, F
other databases	KnotProt 2.0: K +3₁
ec nomenclature	ec 2.1.1.177: 23S rRNA (pseudouridine(1915)-N(3))-methyltransferase.
pdb deposition date	2003-11-03

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	1vh0A00

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

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

#chains in the Genus database with same CATH superfamily
 4MCB A;  4YQ2 A;  4YQQ A;  3KW2 A;  1OY5 A;  2QWV A;  4H3Y A;  4YQK A;  1UAL A;  4YPY A;  5FAI A;  1K3R A;  4YQJ A;  4YPW A;  4YQN A;  1VH0 A;  2EGV A;  4RG1 A;  1O6D A;  4YVI A;  4YQD A;  4YQ0 A;  4KGN A;  4CND A;  4MCD A;  1UAM A;  4YPZ A;  4YQ5 A;  1J85 A;  4L69 A;  4KDZ A;  3IC6 A;  4YQ7 A;  3GYQ A;  1NS5 A;  4CNG A;  1NXZ A;  2I6D A;  3KNU A;  4YQP A;  5GMB A;  3QUV A;  4IG6 A;  3L8U A;  4JAL A;  1Z85 A;  3ILK A;  3KY7 A;  1P9P A;  5D9F A;  4J3C A;  3KTY A;  4YQG A;  4YQO A;  5CO4 A;  4YQ1 A;  4YQC A;  4MCC A;  2O3A A;  4YVK A;  2EGW A;  3OIJ A;  1ZJR A;  4XBO A;  4YQR A;  4X3L A;  4JAK A;  1GZ0 A;  2V3J A;  1TO0 A;  3ONP A;  4YQB A;  4YQ4 A;  1V2X A;  3E5Y A;  4YQ3 A;  3N4K A;  1VHK A;  4YVJ A;  1UAJ A;  3DCM X;  2CX8 A;  5GMC A;  3OIN A;  3BBD A;  3AI9 X;  4YQA A;  3NK7 A;  4YQS A;  3NK6 A;  4CNF A;  1VHY A;  3N4J A;  4YQ8 A;  3BBH A;  1X7P A;  4H3Z A;  3OII A;  2YY8 A;  4YQI A;  4X3M A;  3IEF A;  5GM8 A;  4YQL A;  2Z0Y A;  3O7B A;  4E8B A;  1IPA A;  2HA8 A;  2QMM A;  4FAK A;  4YQT A;  1MXI A;  2V3K A;  3BBE A;  1UAK A;  1V6Z A;  4PZK A;  4YVG A;  1X7O A;  4YVH A;  4YQ6 A;  4CNE A;  3AXZ A;  3AIA A;  4YQ9 A;  4YPX A; 
#chains in the Genus database with same CATH topology
 4MCB A;  4YQ2 A;  4YQQ A;  3KW2 A;  1OY5 A;  2QWV A;  4H3Y A;  4YQK A;  1UAL A;  4YPY A;  5FAI A;  1K3R A;  4YQJ A;  4YPW A;  4YQN A;  1VH0 A;  2EGV A;  4RG1 A;  1O6D A;  4YVI A;  4YQD A;  4YQ0 A;  4JWH A;  4KGN A;  4CND A;  4MCD A;  1UAM A;  4YPZ A;  4YQ5 A;  1J85 A;  4L69 A;  4KDZ A;  3IC6 A;  4YQ7 A;  3GYQ A;  1NS5 A;  4CNG A;  1NXZ A;  2I6D A;  3KNU A;  4YQP A;  5GMB A;  3QUV A;  4IG6 A;  3L8U A;  4JAL A;  1Z85 A;  4JWF A;  3ILK A;  3KY7 A;  1P9P A;  5D9F A;  4J3C A;  3KTY A;  4YQG A;  4YQO A;  5CO4 A;  4YQ1 A;  4YQC A;  4MCC A;  2O3A A;  4YVK A;  2EGW A;  3OIJ A;  1ZJR A;  4XBO A;  4YQR A;  4X3L A;  4JAK A;  1GZ0 A;  2V3J A;  1TO0 A;  3ONP A;  4YQB A;  4YQ4 A;  1V2X A;  3E5Y A;  4YQ3 A;  3N4K A;  1VHK A;  4YVJ A;  1UAJ A;  3DCM X;  2CX8 A;  5GMC A;  3OIN A;  3BBD A;  3AI9 X;  4JWJ A;  4YQA A;  3NK7 A;  4YQS A;  3NK6 A;  4CNF A;  1VHY A;  3N4J A;  4YQ8 A;  3BBH A;  1X7P A;  4H3Z A;  3OII A;  2YY8 A;  4YQI A;  4X3M A;  3IEF A;  5GM8 A;  4YQL A;  2Z0Y A;  3O7B A;  4E8B A;  1IPA A;  2HA8 A;  2QMM A;  4FAK A;  4YQT A;  1MXI A;  2V3K A;  3BBE A;  1UAK A;  4FMW A;  1V6Z A;  4PZK A;  4YVG A;  4JWG A;  1X7O A;  4YVH A;  4YQ6 A;  4CNE A;  3AXZ A;  3AIA A;  4YQ9 A;  4YPX A; 
#chains in the Genus database with same CATH homology
 4MCB A;  4YQ2 A;  4YQQ A;  3KW2 A;  1OY5 A;  2QWV A;  4H3Y A;  4YQK A;  1UAL A;  4YPY A;  5FAI A;  1K3R A;  4YQJ A;  4YPW A;  4YQN A;  1VH0 A;  2EGV A;  4RG1 A;  1O6D A;  4YVI A;  4YQD A;  4YQ0 A;  4JWH A;  4KGN A;  4CND A;  4MCD A;  1UAM A;  4YPZ A;  4YQ5 A;  1J85 A;  4L69 A;  4KDZ A;  3IC6 A;  4YQ7 A;  3GYQ A;  1NS5 A;  4CNG A;  1NXZ A;  2I6D A;  3KNU A;  4YQP A;  5GMB A;  3QUV A;  4IG6 A;  3L8U A;  4JAL A;  1Z85 A;  4JWF A;  3ILK A;  3KY7 A;  1P9P A;  5D9F A;  4J3C A;  3KTY A;  4YQG A;  4YQO A;  5CO4 A;  4YQ1 A;  4YQC A;  4MCC A;  2O3A A;  4YVK A;  2EGW A;  3OIJ A;  1ZJR A;  4XBO A;  4YQR A;  4X3L A;  4JAK A;  1GZ0 A;  2V3J A;  1TO0 A;  3ONP A;  4YQB A;  4YQ4 A;  1V2X A;  3E5Y A;  4YQ3 A;  3N4K A;  1VHK A;  4YVJ A;  1UAJ A;  3DCM X;  2CX8 A;  5GMC A;  3OIN A;  3BBD A;  3AI9 X;  4JWJ A;  4YQA A;  3NK7 A;  4YQS A;  3NK6 A;  4CNF A;  1VHY A;  3N4J A;  4YQ8 A;  3BBH A;  1X7P A;  4H3Z A;  3OII A;  2YY8 A;  4YQI A;  4X3M A;  3IEF A;  5GM8 A;  4YQL A;  2Z0Y A;  3O7B A;  4E8B A;  1IPA A;  2HA8 A;  2QMM A;  4FAK A;  4YQT A;  1MXI A;  2V3K A;  3BBE A;  1UAK A;  4FMW A;  1V6Z A;  4PZK A;  4YVG A;  4JWG A;  1X7O A;  4YVH A;  4YQ6 A;  4CNE A;  3AXZ A;  3AIA A;  4YQ9 A;  4YPX 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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1VH0A

Total Genus

Knots found

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN