4WFAD

The crystal structure of the large ribosomal subunit of staphylococcus aureus in complex with linezolid
Total Genus 21
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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
21
sequence length
166
structure length
155
Chain Sequence
KEKFNTEVTENLMKKFNYSSVMEVPKIDKIVVNMGVGDAVQNSKVLDNAVEELELITGQKPLVTKAKKSIATFRLREGMPIGAKVTLRGERMYEFLDKLISVSLPRVRDFQGVSKKAFDGRGNYTLGVDKVSKVRGMDIVIVTTANTDEEARELL
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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 rRNA
publication title Structural insights into species-specific features of the ribosome from the pathogen Staphylococcus aureus.
pubmed doi rcsb
total genus 21
structure length 155
sequence length 166
ec nomenclature
pdb deposition date 2014-09-14

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
D PF00281 Ribosomal_L5 Ribosomal protein L5
D PF00673 Ribosomal_L5_C ribosomal L5P family C-terminus
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.30.1440.10 Alpha Beta 2-Layer Sandwich 50s Ribosomal Protein L5; Chain: A, 50s Ribosomal Protein L5; Chain: A, 4wfaD00
4WCED 5GAHF 1VQMD 3CCSD 1VQ7D 3CCJD 3J7ZF 1KC8F 1VQ5D 2ZJQD 3CF5D 3CCVD 1VQKD 4UY8F 1Q86F 5GAEF 1VQND 1KD1F 3I55D 3CCQD 1MJIA 1NJIF 1YJND 1IQ4A 1YITD 1QVGD 3OW2D 3CCED 1Q82F 5MLCG 3DLLD 3I56D 1M90F 4U67D 1N8RF 3CC7D 2NWUA 1YI2D 5HL7D 3CCRD 2PZZA 1M1KF 1YIJD 4WFND 3CD6D 4IOCD 3G6ED 1YJWD 2OGKA 3PIOD 3CXCD 2ZJRD 1KQSD 5GAGF 2NRQA 2ZJPD 1Q81F 3CC4D 2QA4D 1K9MF 4IO9D 3CMED 1S72D 1VQOD 1QVFD 5JVHD 3CCLD 1YHQD 3G4SD 3G71D 1YJ9D 4IOAD 1VQ9D 3CPWD 1VQLD 3CCMD 4WFAD 3PIPD 2WNYA 5DM6D 1JJ2D 5H1SH 1K8AF 1VQ8D 2QEXD 1VQ6D 3D7AA 2OTJD 5GADF 5DM7D 1Q7YF 2OTLD 1W2BD 3CCUD 1VQ4D 3C9GA 3CC2D 3CMAD 4WF9D 5JVGD 4WFBD 1K73F 1VQPD
chains in the Genus database with same CATH superfamily
4WCED 5GAHF 1VQMD 3CCSD 1VQ7D 3CCJD 3J7ZF 1KC8F 1VQ5D 2ZJQD 3CF5D 3CCVD 1VQKD 4UY8F 1Q86F 5GAEF 1VQND 1KD1F 3I55D 3CCQD 1MJIA 1NJIF 1YJND 1IQ4A 1YITD 1QVGD 3OW2D 3CCED 1Q82F 5MLCG 3DLLD 3I56D 1M90F 4U67D 1N8RF 3CC7D 2NWUA 1YI2D 5HL7D 3CCRD 2PZZA 1M1KF 1YIJD 4WFND 3CD6D 4IOCD 3G6ED 1YJWD 2OGKA 3PIOD 3CXCD 2ZJRD 1KQSD 5GAGF 2NRQA 2ZJPD 1Q81F 3CC4D 2QA4D 1K9MF 4IO9D 3CMED 1S72D 1VQOD 1QVFD 5JVHD 3CCLD 1YHQD 3G4SD 3G71D 1YJ9D 4IOAD 1VQ9D 3CPWD 1VQLD 3CCMD 4WFAD 3PIPD 2WNYA 5DM6D 1JJ2D 5H1SH 1K8AF 1VQ8D 2QEXD 1VQ6D 3D7AA 2OTJD 5GADF 5DM7D 1Q7YF 2OTLD 1W2BD 3CCUD 1VQ4D 3C9GA 3CC2D 3CMAD 4WF9D 5JVGD 4WFBD 1K73F 1VQPD
chains in the Genus database with same CATH topology
4WCED 5GAHF 1VQMD 3CCSD 1VQ7D 3CCJD 3J7ZF 1KC8F 1VQ5D 2ZJQD 3CF5D 3CCVD 1VQKD 4UY8F 1Q86F 5GAEF 1VQND 1KD1F 3I55D 3CCQD 1MJIA 1NJIF 1YJND 1IQ4A 1YITD 1QVGD 3OW2D 3CCED 1Q82F 5MLCG 3DLLD 3I56D 1M90F 4U67D 1N8RF 3CC7D 2NWUA 1YI2D 5HL7D 3CCRD 2PZZA 1M1KF 1YIJD 4WFND 3CD6D 4IOCD 3G6ED 1YJWD 2OGKA 3PIOD 3CXCD 2ZJRD 1KQSD 5GAGF 2NRQA 2ZJPD 1Q81F 3CC4D 2QA4D 1K9MF 4IO9D 3CMED 1S72D 1VQOD 1QVFD 5JVHD 3CCLD 1YHQD 3G4SD 3G71D 1YJ9D 4IOAD 1VQ9D 3CPWD 1VQLD 3CCMD 4WFAD 3PIPD 2WNYA 5DM6D 1JJ2D 5H1SH 1K8AF 1VQ8D 2QEXD 1VQ6D 3D7AA 2OTJD 5GADF 5DM7D 1Q7YF 2OTLD 1W2BD 3CCUD 1VQ4D 3C9GA 3CC2D 3CMAD 4WF9D 5JVGD 4WFBD 1K73F 1VQPD
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 4WCE D;  5GAH F;  1VQM D;  3CCS D;  1VQ7 D;  3CCJ D;  3J7Z F;  1KC8 F;  1VQ5 D;  2ZJQ D;  3CF5 D;  3CCV D;  1VQK D;  4UY8 F;  1Q86 F;  5GAE F;  1VQN D;  1KD1 F;  3I55 D;  3CCQ D;  1MJI A;  1NJI F;  1YJN D;  1IQ4 A;  1YIT D;  1QVG D;  3OW2 D;  3CCE D;  1Q82 F;  5MLC G;  3DLL D;  3I56 D;  1M90 F;  4U67 D;  1N8R F;  3CC7 D;  2NWU A;  1YI2 D;  5HL7 D;  3CCR D;  2PZZ A;  1M1K F;  1YIJ D;  4WFN D;  3CD6 D;  4IOC D;  3G6E D;  1YJW D;  2OGK A;  3PIO D;  3CXC D;  2ZJR D;  1KQS D;  5GAG F;  2NRQ A;  2ZJP D;  1Q81 F;  3CC4 D;  2QA4 D;  1K9M F;  4IO9 D;  3CME D;  1S72 D;  1VQO D;  1QVF D;  5JVH D;  3CCL D;  1YHQ D;  3G4S D;  3G71 D;  1YJ9 D;  4IOA D;  1VQ9 D;  3CPW D;  1VQL D;  3CCM D;  4WFA D;  3PIP D;  2WNY A;  5DM6 D;  1JJ2 D;  5H1S H;  1K8A F;  1VQ8 D;  2QEX D;  1VQ6 D;  3D7A A;  2OTJ D;  5GAD F;  5DM7 D;  1Q7Y F;  2OTL D;  1W2B D;  3CCU D;  1VQ4 D;  3C9G A;  3CC2 D;  3CMA D;  4WF9 D;  5JVG D;  4WFB D;  1K73 F;  1VQP D; 
#chains in the Genus database with same CATH topology
 4WCE D;  5GAH F;  1VQM D;  3CCS D;  1VQ7 D;  3CCJ D;  3J7Z F;  1KC8 F;  1VQ5 D;  2ZJQ D;  3CF5 D;  3CCV D;  1VQK D;  4UY8 F;  1Q86 F;  5GAE F;  1VQN D;  1KD1 F;  3I55 D;  3CCQ D;  1MJI A;  1NJI F;  1YJN D;  1IQ4 A;  1YIT D;  1QVG D;  3OW2 D;  3CCE D;  1Q82 F;  5MLC G;  3DLL D;  3I56 D;  1M90 F;  4U67 D;  1N8R F;  3CC7 D;  2NWU A;  1YI2 D;  5HL7 D;  3CCR D;  2PZZ A;  1M1K F;  1YIJ D;  4WFN D;  3CD6 D;  4IOC D;  3G6E D;  1YJW D;  2OGK A;  3PIO D;  3CXC D;  2ZJR D;  1KQS D;  5GAG F;  2NRQ A;  2ZJP D;  1Q81 F;  3CC4 D;  2QA4 D;  1K9M F;  4IO9 D;  3CME D;  1S72 D;  1VQO D;  1QVF D;  5JVH D;  3CCL D;  1YHQ D;  3G4S D;  3G71 D;  1YJ9 D;  4IOA D;  1VQ9 D;  3CPW D;  1VQL D;  3CCM D;  4WFA D;  3PIP D;  2WNY A;  5DM6 D;  1JJ2 D;  5H1S H;  1K8A F;  1VQ8 D;  2QEX D;  1VQ6 D;  3D7A A;  2OTJ D;  5GAD F;  5DM7 D;  1Q7Y F;  2OTL D;  1W2B D;  3CCU D;  1VQ4 D;  3C9G A;  3CC2 D;  3CMA D;  4WF9 D;  5JVG D;  4WFB D;  1K73 F;  1VQP D; 
#chains in the Genus database with same CATH homology
 4WCE D;  5GAH F;  1VQM D;  3CCS D;  1VQ7 D;  3CCJ D;  3J7Z F;  1KC8 F;  1VQ5 D;  2ZJQ D;  3CF5 D;  3CCV D;  1VQK D;  4UY8 F;  1Q86 F;  5GAE F;  1VQN D;  1KD1 F;  3I55 D;  3CCQ D;  1MJI A;  1NJI F;  1YJN D;  1IQ4 A;  1YIT D;  1QVG D;  3OW2 D;  3CCE D;  1Q82 F;  5MLC G;  3DLL D;  3I56 D;  1M90 F;  4U67 D;  1N8R F;  3CC7 D;  2NWU A;  1YI2 D;  5HL7 D;  3CCR D;  2PZZ A;  1M1K F;  1YIJ D;  4WFN D;  3CD6 D;  4IOC D;  3G6E D;  1YJW D;  2OGK A;  3PIO D;  3CXC D;  2ZJR D;  1KQS D;  5GAG F;  2NRQ A;  2ZJP D;  1Q81 F;  3CC4 D;  2QA4 D;  1K9M F;  4IO9 D;  3CME D;  1S72 D;  1VQO D;  1QVF D;  5JVH D;  3CCL D;  1YHQ D;  3G4S D;  3G71 D;  1YJ9 D;  4IOA D;  1VQ9 D;  3CPW D;  1VQL D;  3CCM D;  4WFA D;  3PIP D;  2WNY A;  5DM6 D;  1JJ2 D;  5H1S H;  1K8A F;  1VQ8 D;  2QEX D;  1VQ6 D;  3D7A A;  2OTJ D;  5GAD F;  5DM7 D;  1Q7Y F;  2OTL D;  1W2B D;  3CCU D;  1VQ4 D;  3C9G A;  3CC2 D;  3CMA D;  4WF9 D;  5JVG D;  4WFB D;  1K73 F;  1VQP D; 
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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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