3G4SJ

Co-crystal structure of tiamulin bound to the large ribosomal subunit
Total Genus 39
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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
39
sequence length
142
structure length
142
Chain Sequence
AEFDADVIVDARDCIMGRVASQVAEQALDGETVAVVNAERAVITGREEQIVEKYEKRVDIGNDNGYFYPKRPDGIFKRTIRGMLPHKKQRGREAFESVRVYLGNPYDEDGEVLDGTSLDRLSNIKFVTLGEISETLGANKTW
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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 U2504 determines the species specificity of the A-site cleft antibiotics: the structures of tiamulin, homoharringtonine, and bruceantin bound to the ribosome.
pubmed doi rcsb
total genus 39
structure length 142
sequence length 142
ec nomenclature
pdb deposition date 2009-02-04

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
J PF00572 Ribosomal_L13 Ribosomal protein L13
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.90.1180.10 Alpha Beta Alpha-Beta Complex Ribosomal Protein L13p; Chain: A; Ribosomal protein L13 3g4sJ00
4V19N 1NJIK 3CD6J 3CC2J 1QVGI 3PIPG 3CXCI 1VQPJ 4IOAG 3CMEJ 2ZJPG 1S72J 2ZJRG 3G71J 3G6EJ 3OW2I 1Q7YK 3DLLG 1KC8K 3CCRJ 1N8RK 1Q82K 1W2BI 1Q81K 1YITJ 3CCMJ 3CCQJ 3CF5G 3CMAJ 1K8AK 1M90K 1KQSI 1VQ6J 3CCUJ 1VQ8J 2OTLJ 1VQKJ 3J7YK 1YIJJ 3PIOG 1VQ7J 4IO9G 3CC4J 1JJ2I 1YJWJ 3CPWI 3I56J 1K73K 1M1KK 1YJNJ 1KD1K 1VQOJ 1QVFI 1YJ9J 3CC7J 1YHQJ 1K9MK 3I55J 2OTJJ 1VQNJ 3CCSJ 1J3AA 2QEXJ 1VQMJ 1YI2J 3CCJJ 1VQLJ 2QA4J 1Q86K 3G4SJ 1VQ5J 1VQ9J 3CCVJ 2ZJQG 3CCEJ 1VQ4J 4IOCG 3CCLJ
chains in the Genus database with same CATH superfamily
4V19N 1NJIK 3CD6J 3CC2J 1QVGI 3PIPG 3CXCI 1VQPJ 4IOAG 3CMEJ 2ZJPG 1S72J 2ZJRG 3G71J 3G6EJ 3OW2I 1Q7YK 3DLLG 1KC8K 3CCRJ 1N8RK 1Q82K 1W2BI 1Q81K 1YITJ 3CCMJ 3CCQJ 3CF5G 3CMAJ 1K8AK 1M90K 1KQSI 1VQ6J 3CCUJ 1VQ8J 2OTLJ 1VQKJ 3J7YK 1YIJJ 3PIOG 1VQ7J 4IO9G 3CC4J 1JJ2I 1YJWJ 3CPWI 3I56J 1K73K 1M1KK 1YJNJ 1KD1K 1VQOJ 1QVFI 1YJ9J 3CC7J 1YHQJ 1K9MK 3I55J 2OTJJ 1VQNJ 3CCSJ 1J3AA 2QEXJ 1VQMJ 1YI2J 3CCJJ 1VQLJ 2QA4J 1Q86K 3G4SJ 1VQ5J 1VQ9J 3CCVJ 2ZJQG 3CCEJ 1VQ4J 4IOCG 3CCLJ
chains in the Genus database with same CATH topology
4V19N 1NJIK 3CD6J 3CC2J 1QVGI 3PIPG 3CXCI 1VQPJ 4IOAG 3CMEJ 2ZJPG 1S72J 2ZJRG 3G71J 3G6EJ 3OW2I 1Q7YK 3DLLG 1KC8K 3CCRJ 1N8RK 1Q82K 1W2BI 1Q81K 1YITJ 3CCMJ 3CCQJ 3CF5G 3CMAJ 1K8AK 1M90K 1KQSI 1VQ6J 3CCUJ 1VQ8J 2OTLJ 1VQKJ 3J7YK 1YIJJ 3PIOG 1VQ7J 4IO9G 3CC4J 1JJ2I 1YJWJ 3CPWI 3I56J 1K73K 1M1KK 1YJNJ 1KD1K 1VQOJ 1QVFI 1YJ9J 3CC7J 1YHQJ 1K9MK 3I55J 2OTJJ 1VQNJ 3CCSJ 1J3AA 2QEXJ 1VQMJ 1YI2J 3CCJJ 1VQLJ 2QA4J 1Q86K 3G4SJ 1VQ5J 1VQ9J 3CCVJ 2ZJQG 3CCEJ 1VQ4J 4IOCG 3CCLJ
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 4V19 N;  1NJI K;  3CD6 J;  3CC2 J;  1QVG I;  3PIP G;  3CXC I;  1VQP J;  4IOA G;  3CME J;  2ZJP G;  1S72 J;  2ZJR G;  3G71 J;  3G6E J;  3OW2 I;  1Q7Y K;  3DLL G;  1KC8 K;  3CCR J;  1N8R K;  1Q82 K;  1W2B I;  1Q81 K;  1YIT J;  3CCM J;  3CCQ J;  3CF5 G;  3CMA J;  1K8A K;  1M90 K;  1KQS I;  1VQ6 J;  3CCU J;  1VQ8 J;  2OTL J;  1VQK J;  3J7Y K;  1YIJ J;  3PIO G;  1VQ7 J;  4IO9 G;  3CC4 J;  1JJ2 I;  1YJW J;  3CPW I;  3I56 J;  1K73 K;  1M1K K;  1YJN J;  1KD1 K;  1VQO J;  1QVF I;  1YJ9 J;  3CC7 J;  1YHQ J;  1K9M K;  3I55 J;  2OTJ J;  1VQN J;  3CCS J;  1J3A A;  2QEX J;  1VQM J;  1YI2 J;  3CCJ J;  1VQL J;  2QA4 J;  1Q86 K;  3G4S J;  1VQ5 J;  1VQ9 J;  3CCV J;  2ZJQ G;  3CCE J;  1VQ4 J;  4IOC G;  3CCL J; 
#chains in the Genus database with same CATH topology
 4V19 N;  1NJI K;  3CD6 J;  3CC2 J;  1QVG I;  3PIP G;  3CXC I;  1VQP J;  4IOA G;  3CME J;  2ZJP G;  1S72 J;  2ZJR G;  3G71 J;  3G6E J;  3OW2 I;  1Q7Y K;  3DLL G;  1KC8 K;  3CCR J;  1N8R K;  1Q82 K;  1W2B I;  1Q81 K;  1YIT J;  3CCM J;  3CCQ J;  3CF5 G;  3CMA J;  1K8A K;  1M90 K;  1KQS I;  1VQ6 J;  3CCU J;  1VQ8 J;  2OTL J;  1VQK J;  3J7Y K;  1YIJ J;  3PIO G;  1VQ7 J;  4IO9 G;  3CC4 J;  1JJ2 I;  1YJW J;  3CPW I;  3I56 J;  1K73 K;  1M1K K;  1YJN J;  1KD1 K;  1VQO J;  1QVF I;  1YJ9 J;  3CC7 J;  1YHQ J;  1K9M K;  3I55 J;  2OTJ J;  1VQN J;  3CCS J;  1J3A A;  2QEX J;  1VQM J;  1YI2 J;  3CCJ J;  1VQL J;  2QA4 J;  1Q86 K;  3G4S J;  1VQ5 J;  1VQ9 J;  3CCV J;  2ZJQ G;  3CCE J;  1VQ4 J;  4IOC G;  3CCL J; 
#chains in the Genus database with same CATH homology
 4V19 N;  1NJI K;  3CD6 J;  3CC2 J;  1QVG I;  3PIP G;  3CXC I;  1VQP J;  4IOA G;  3CME J;  2ZJP G;  1S72 J;  2ZJR G;  3G71 J;  3G6E J;  3OW2 I;  1Q7Y K;  3DLL G;  1KC8 K;  3CCR J;  1N8R K;  1Q82 K;  1W2B I;  1Q81 K;  1YIT J;  3CCM J;  3CCQ J;  3CF5 G;  3CMA J;  1K8A K;  1M90 K;  1KQS I;  1VQ6 J;  3CCU J;  1VQ8 J;  2OTL J;  1VQK J;  3J7Y K;  1YIJ J;  3PIO G;  1VQ7 J;  4IO9 G;  3CC4 J;  1JJ2 I;  1YJW J;  3CPW I;  3I56 J;  1K73 K;  1M1K K;  1YJN J;  1KD1 K;  1VQO J;  1QVF I;  1YJ9 J;  3CC7 J;  1YHQ J;  1K9M K;  3I55 J;  2OTJ J;  1VQN J;  3CCS J;  1J3A A;  2QEX J;  1VQM J;  1YI2 J;  3CCJ J;  1VQL J;  2QA4 J;  1Q86 K;  3G4S J;  1VQ5 J;  1VQ9 J;  3CCV J;  2ZJQ G;  3CCE J;  1VQ4 J;  4IOC G;  3CCL J; 
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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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