4IO9D

Crystal structure of compound 4d bound to large ribosomal subunit (50s) from deinococcus radiodurans
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
177
structure length
177
Chain Sequence
QLKTKYNDQVRPALMQQFGYSSVMAVPRIEKIVVNEGLGSSKEDSKAIDKAAKELALITLQKPIITKAKKSISNFKLRQGMPVGIKVTLRGERMYVFLEKLINIGLPRIRDFRGINPNAFDGRGNYNLGIKEQLIFPEITYDMVDKTRGMDITIVTTAKTDEEARALLQSMGLPFRK
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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 Novel 3-O-carbamoyl erythromycin A derivatives (carbamolides) with activity against resistant staphylococcal and streptococcal isolates.
pubmed doi rcsb
molecule tags Ribosome/ribosome inhibitor
molecule keywords 23S ribosomal RNA
total genus 31
structure length 177
sequence length 177
ec nomenclature
pdb deposition date 2013-01-07

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, 4io9D00
1N8RF 1VQ4D 4IO9D 2NRQA 2ZJPD 4IOCD 2NWUA 3G4SD 3CCSD 5H1SH 5DM7D 1YI2D 1S72D 3CF5D 2OTLD 3I56D 4U67D 1YJ9D 1YIJD 2OTJD 5DM6D 3I55D 4WCED 1VQND 5GAEF 2QA4D 1QVFD 5GAGF 3CCRD 1VQKD 1VQPD 1Q86F 1K73F 5JVGD 1Q7YF 5HL7D 4UY8F 3OW2D 3CC7D 1YHQD 1YJWD 3CCMD 5MLCG 3CXCD 3CCED 1VQ5D 3CPWD 1VQ9D 1QVGD 1K9MF 1VQOD 3CCVD 1K8AF 1MJIA 3CD6D 3CCUD 1M1KF 3CMAD 3G6ED 1YJND 1IQ4A 4WFAD 3D7AA 3CCJD 1M90F 5GAHF 4WFBD 3G71D 1VQ8D 1YITD 2ZJRD 3CC2D 1VQLD 3PIPD 5JVHD 3DLLD 4IOAD 2ZJQD 3PIOD 1Q81F 1KC8F 2WNYA 1VQ7D 3CC4D 3CMED 3CCLD 1VQ6D 1VQMD 3C9GA 1W2BD 2QEXD 2OGKA 3J7ZF 3CCQD 1KQSD 1JJ2D 1NJIF 5GADF 1Q82F 2PZZA 4WFND 4WF9D 1KD1F
chains in the Genus database with same CATH superfamily
1N8RF 1VQ4D 4IO9D 2NRQA 2ZJPD 4IOCD 2NWUA 3G4SD 3CCSD 5H1SH 5DM7D 1YI2D 1S72D 3CF5D 2OTLD 3I56D 4U67D 1YJ9D 1YIJD 2OTJD 5DM6D 3I55D 4WCED 1VQND 5GAEF 2QA4D 1QVFD 5GAGF 3CCRD 1VQKD 1VQPD 1Q86F 1K73F 5JVGD 1Q7YF 5HL7D 4UY8F 3OW2D 3CC7D 1YHQD 1YJWD 3CCMD 5MLCG 3CXCD 3CCED 1VQ5D 3CPWD 1VQ9D 1QVGD 1K9MF 1VQOD 3CCVD 1K8AF 1MJIA 3CD6D 3CCUD 1M1KF 3CMAD 3G6ED 1YJND 1IQ4A 4WFAD 3D7AA 3CCJD 1M90F 5GAHF 4WFBD 3G71D 1VQ8D 1YITD 2ZJRD 3CC2D 1VQLD 3PIPD 5JVHD 3DLLD 4IOAD 2ZJQD 3PIOD 1Q81F 1KC8F 2WNYA 1VQ7D 3CC4D 3CMED 3CCLD 1VQ6D 1VQMD 3C9GA 1W2BD 2QEXD 2OGKA 3J7ZF 3CCQD 1KQSD 1JJ2D 1NJIF 5GADF 1Q82F 2PZZA 4WFND 4WF9D 1KD1F
chains in the Genus database with same CATH topology
1N8RF 1VQ4D 4IO9D 2NRQA 2ZJPD 4IOCD 2NWUA 3G4SD 3CCSD 5H1SH 5DM7D 1YI2D 1S72D 3CF5D 2OTLD 3I56D 4U67D 1YJ9D 1YIJD 2OTJD 5DM6D 3I55D 4WCED 1VQND 5GAEF 2QA4D 1QVFD 5GAGF 3CCRD 1VQKD 1VQPD 1Q86F 1K73F 5JVGD 1Q7YF 5HL7D 4UY8F 3OW2D 3CC7D 1YHQD 1YJWD 3CCMD 5MLCG 3CXCD 3CCED 1VQ5D 3CPWD 1VQ9D 1QVGD 1K9MF 1VQOD 3CCVD 1K8AF 1MJIA 3CD6D 3CCUD 1M1KF 3CMAD 3G6ED 1YJND 1IQ4A 4WFAD 3D7AA 3CCJD 1M90F 5GAHF 4WFBD 3G71D 1VQ8D 1YITD 2ZJRD 3CC2D 1VQLD 3PIPD 5JVHD 3DLLD 4IOAD 2ZJQD 3PIOD 1Q81F 1KC8F 2WNYA 1VQ7D 3CC4D 3CMED 3CCLD 1VQ6D 1VQMD 3C9GA 1W2BD 2QEXD 2OGKA 3J7ZF 3CCQD 1KQSD 1JJ2D 1NJIF 5GADF 1Q82F 2PZZA 4WFND 4WF9D 1KD1F
chains in the Genus database with same CATH homology


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