5JVGK

The large ribosomal subunit from deinococcus radiodurans in complex with avilamycin
Total Genus 31
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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
31
sequence length
115
structure length
115
Chain Sequence
MRHGKAGRKLNRNSSARVALARAQATALLREGRIQTTLTKAKELRPFVEQLITTAKGGDLHSRRLVAQDIHDKDVVRKVMDEVAPKYAERPGGYTRILRVGTRRGDGVTMALIEL
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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 Ribosome
molecule keywords 23S ribosomal RNA
publication title Avilamycin and evernimicin induce structural changes in rProteins uL16 and CTC that enhance the inhibition of A-site tRNA binding.
pubmed doi rcsb
total genus 31
structure length 115
sequence length 115
ec nomenclature
pdb deposition date 2016-05-11

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
K PF01196 Ribosomal_L17 Ribosomal protein L17
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.90.1030.10 Alpha Beta Alpha-Beta Complex 50s Ribosomal Protein L17; Chain: A, Ribosomal protein L17 5jvgK00
3CF5K 3PIOK 4IOAK 3PIPK 5DM6K 5H1SP 4UY8N 5JVGK 4WFNK 5GADO 5GAGO 4IO9K 4WCEK 5HL7K 3DLLK 4U67K 4WF9K 5DM7K 5GAEO 2ZJQK 2ZJRK 5GAHO 2CQMA 1GD8A 2ZJPK 3J7ZN 4WFBK 4WFAK 5JVHK 5MLCP 4IOCK
chains in the Genus database with same CATH superfamily
3CF5K 3PIOK 4IOAK 3PIPK 5DM6K 5H1SP 4UY8N 5JVGK 4WFNK 5GADO 5GAGO 4IO9K 4WCEK 5HL7K 3DLLK 4U67K 4WF9K 5DM7K 5GAEO 2ZJQK 2ZJRK 5GAHO 2CQMA 1GD8A 2ZJPK 3J7ZN 4WFBK 4WFAK 5JVHK 5MLCP 4IOCK
chains in the Genus database with same CATH topology
3CF5K 3PIOK 4IOAK 3PIPK 5DM6K 5H1SP 4UY8N 5JVGK 4WFNK 5GADO 5GAGO 4IO9K 4WCEK 5HL7K 3DLLK 4U67K 4WF9K 5DM7K 5GAEO 2ZJQK 2ZJRK 5GAHO 2CQMA 1GD8A 2ZJPK 3J7ZN 4WFBK 4WFAK 5JVHK 5MLCP 4IOCK
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 3CF5 K;  3PIO K;  4IOA K;  3PIP K;  5DM6 K;  5H1S P;  4UY8 N;  5JVG K;  4WFN K;  5GAD O;  5GAG O;  4IO9 K;  4WCE K;  5HL7 K;  3DLL K;  4U67 K;  4WF9 K;  5DM7 K;  5GAE O;  2ZJQ K;  2ZJR K;  5GAH O;  2CQM A;  1GD8 A;  2ZJP K;  3J7Z N;  4WFB K;  4WFA K;  5JVH K;  5MLC P;  4IOC K; 
#chains in the Genus database with same CATH topology
 3CF5 K;  3PIO K;  4IOA K;  3PIP K;  5DM6 K;  5H1S P;  4UY8 N;  5JVG K;  4WFN K;  5GAD O;  5GAG O;  4IO9 K;  4WCE K;  5HL7 K;  3DLL K;  4U67 K;  4WF9 K;  5DM7 K;  5GAE O;  2ZJQ K;  2ZJR K;  5GAH O;  2CQM A;  1GD8 A;  2ZJP K;  3J7Z N;  4WFB K;  4WFA K;  5JVH K;  5MLC P;  4IOC K; 
#chains in the Genus database with same CATH homology
 3CF5 K;  3PIO K;  4IOA K;  3PIP K;  5DM6 K;  5H1S P;  4UY8 N;  5JVG K;  4WFN K;  5GAD O;  5GAG O;  4IO9 K;  4WCE K;  5HL7 K;  3DLL K;  4U67 K;  4WF9 K;  5DM7 K;  5GAE O;  2ZJQ K;  2ZJR K;  5GAH O;  2CQM A;  1GD8 A;  2ZJP K;  3J7Z N;  4WFB K;  4WFA K;  5JVH K;  5MLC P;  4IOC K; 
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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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