1NS5A

X-ray structure of ybea from e.coli. northeast structural genomics research consortium (nesg) target er45
Total Genus 50
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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
50
Knots found
sequence length
153
structure length
153
Chain Sequence
MKLQLVAVGTKMPDWVQTGFTEYLRRFPKDMPFELIEIPAGKRGKNADIKRILDKEGEQMLAAAGKNRIVTLDIPGKPWDTPQLAAELERWKLDGRDVSLLIGGPEGLSPACKAAAEQSWSLSALTLPHPLVRVLVAESLYRAWSITTNHPYH
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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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publication title Structure of YBEA from E. coli
rcsb
molecule tags Structural genomics, unknown function
source organism Escherichia coli
molecule keywords Hypothetical protein ybeA
total genus 50
structure length 153
sequence length 153
chains with identical sequence B
other databases KnotProt 2.0: K +31
ec nomenclature ec 2.1.1.177: 23S rRNA (pseudouridine(1915)-N(3))-methyltransferase.
pdb deposition date 2003-01-27

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 1ns5A00
3KY7A 1UAKA 4YQKA 1NXZA 4KGNA 4YVHA 2V3JA 4XBOA 1ZJRA 3OINA 4YQ6A 2EGVA 1MXIA 4YQ3A 3IEFA 2I6DA 2O3AA 3AXZA 4RG1A 1X7OA 4YQ0A 4YQ9A 4YQNA 2EGWA 3NK7A 1UALA 4JALA 3N4JA 4YQLA 3KW2A 2CX8A 4MCDA 1TO0A 2QWVA 4MCCA 4YPWA 4YQ1A 3KTYA 5CO4A 2YY8A 4YQSA 4YQDA 4CNDA 2QMMA 4YVGA 4FAKA 3QUVA 1V2XA 3ONPA 4YQGA 3E5YA 3OIIA 4YQJA 4YQ2A 3BBHA 1IPAA 4YPYA 1V6ZA 1UAJA 3L8UA 4YVIA 4YVJA 4YVKA 4YPXA 3DCMX 4YQ4A 1K3RA 4JAKA 4E8BA 1X7PA 4YPZA 5GM8A 4X3MA 3N4KA 4YQQA 1VHKA 3IC6A 4YQ5A 4YQ8A 1GZ0A 3GYQA 4MCBA 1VHYA 5FAIA 4CNFA 3OIJA 4H3YA 4IG6A 2HA8A 3AI9X 4PZKA 5GMBA 1VH0A 4YQ7A 4YQTA 2Z0YA 4J3CA 1J85A 3ILKA 4YQIA 4YQOA 4CNEA 4H3ZA 1O6DA 5GMCA 3BBEA 3NK6A 3AIAA 1UAMA 3KNUA 3O7BA 4L69A 1Z85A 4X3LA 4CNGA 1P9PA 2V3KA 5D9FA 1OY5A 4YQBA 4KDZA 4YQPA 4YQAA 3BBDA 4YQRA 4YQCA 1NS5A
chains in the Genus database with same CATH superfamily
3KY7A 1UAKA 4YQKA 1NXZA 4KGNA 4YVHA 2V3JA 4XBOA 1ZJRA 3OINA 4YQ6A 2EGVA 4JWJA 1MXIA 4YQ3A 3IEFA 2I6DA 2O3AA 3AXZA 4RG1A 1X7OA 4YQ0A 4YQ9A 4YQNA 2EGWA 3NK7A 1UALA 4FMWA 4JALA 3N4JA 4YQLA 3KW2A 2CX8A 4MCDA 1TO0A 2QWVA 4MCCA 4YPWA 4YQ1A 3KTYA 5CO4A 2YY8A 4YQSA 4YQDA 4CNDA 2QMMA 4YVGA 4FAKA 3QUVA 1V2XA 3ONPA 4YQGA 3E5YA 3OIIA 4YQJA 4YQ2A 3BBHA 1IPAA 4YPYA 1V6ZA 1UAJA 3L8UA 4YVIA 4YVJA 4YVKA 4YPXA 3DCMX 4YQ4A 1K3RA 4JAKA 4E8BA 1X7PA 4YPZA 5GM8A 4X3MA 3N4KA 4JWFA 4YQQA 1VHKA 3IC6A 4YQ5A 4YQ8A 1GZ0A 3GYQA 4MCBA 1VHYA 5FAIA 4CNFA 3OIJA 4H3YA 4IG6A 2HA8A 3AI9X 4PZKA 5GMBA 1VH0A 4YQ7A 4YQTA 2Z0YA 4J3CA 1J85A 3ILKA 4YQIA 4YQOA 4CNEA 4H3ZA 1O6DA 5GMCA 3BBEA 3NK6A 3AIAA 1UAMA 3KNUA 3O7BA 4L69A 1Z85A 4X3LA 4CNGA 4JWHA 1P9PA 2V3KA 5D9FA 1OY5A 4YQBA 4JWGA 4KDZA 4YQPA 4YQAA 3BBDA 4YQRA 4YQCA 1NS5A
chains in the Genus database with same CATH topology
3KY7A 1UAKA 4YQKA 1NXZA 4KGNA 4YVHA 2V3JA 4XBOA 1ZJRA 3OINA 4YQ6A 2EGVA 4JWJA 1MXIA 4YQ3A 3IEFA 2I6DA 2O3AA 3AXZA 4RG1A 1X7OA 4YQ0A 4YQ9A 4YQNA 2EGWA 3NK7A 1UALA 4FMWA 4JALA 3N4JA 4YQLA 3KW2A 2CX8A 4MCDA 1TO0A 2QWVA 4MCCA 4YPWA 4YQ1A 3KTYA 5CO4A 2YY8A 4YQSA 4YQDA 4CNDA 2QMMA 4YVGA 4FAKA 3QUVA 1V2XA 3ONPA 4YQGA 3E5YA 3OIIA 4YQJA 4YQ2A 3BBHA 1IPAA 4YPYA 1V6ZA 1UAJA 3L8UA 4YVIA 4YVJA 4YVKA 4YPXA 3DCMX 4YQ4A 1K3RA 4JAKA 4E8BA 1X7PA 4YPZA 5GM8A 4X3MA 3N4KA 4JWFA 4YQQA 1VHKA 3IC6A 4YQ5A 4YQ8A 1GZ0A 3GYQA 4MCBA 1VHYA 5FAIA 4CNFA 3OIJA 4H3YA 4IG6A 2HA8A 3AI9X 4PZKA 5GMBA 1VH0A 4YQ7A 4YQTA 2Z0YA 4J3CA 1J85A 3ILKA 4YQIA 4YQOA 4CNEA 4H3ZA 1O6DA 5GMCA 3BBEA 3NK6A 3AIAA 1UAMA 3KNUA 3O7BA 4L69A 1Z85A 4X3LA 4CNGA 4JWHA 1P9PA 2V3KA 5D9FA 1OY5A 4YQBA 4JWGA 4KDZA 4YQPA 4YQAA 3BBDA 4YQRA 4YQCA 1NS5A
chains in the Genus database with same CATH homology


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