1JJ2I

Fully refined crystal structure of the haloarcula marismortui large ribosomal subunit at 2.4 angstrom resolution
Total Genus 41
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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
41
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 RRNA
publication title The kink-turn: a new RNA secondary structure motif.
pubmed doi rcsb
total genus 41
structure length 142
sequence length 142
ec nomenclature
pdb deposition date 2001-07-03

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
I 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 1jj2I00
2OTJJ 1NJIK 1VQPJ 1K8AK 1N8RK 4IOCG 3CF5G 1S72J 3I55J 3PIPG 1VQ8J 3CCJJ 4IO9G 4V19N 3CC7J 3CXCI 3CCQJ 1YITJ 3OW2I 3CCRJ 1VQKJ 1KQSI 1KD1K 3G4SJ 1QVGI 1JJ2I 1VQLJ 3G71J 3G6EJ 3CD6J 1VQMJ 3I56J 1YJNJ 3CCLJ 3CCVJ 2OTLJ 1VQ5J 1YJWJ 1VQ7J 1VQ6J 3CCUJ 3CPWI 2QA4J 1QVFI 1M1KK 3CCEJ 1J3AA 3J7YK 3CC2J 3CCMJ 1KC8K 4IOAG 2QEXJ 1YI2J 3DLLG 3CMAJ 2ZJRG 1Q86K 1VQ4J 3PIOG 1M90K 3CCSJ 2ZJPG 1VQOJ 1Q81K 1Q82K 1K9MK 1Q7YK 3CMEJ 1K73K 1YJ9J 1VQNJ 3CC4J 1W2BI 1YHQJ 1YIJJ 2ZJQG 1VQ9J
chains in the Genus database with same CATH superfamily
2OTJJ 1NJIK 1VQPJ 1K8AK 1N8RK 4IOCG 3CF5G 1S72J 3I55J 3PIPG 1VQ8J 3CCJJ 4IO9G 4V19N 3CC7J 3CXCI 3CCQJ 1YITJ 3OW2I 3CCRJ 1VQKJ 1KQSI 1KD1K 3G4SJ 1QVGI 1JJ2I 1VQLJ 3G71J 3G6EJ 3CD6J 1VQMJ 3I56J 1YJNJ 3CCLJ 3CCVJ 2OTLJ 1VQ5J 1YJWJ 1VQ7J 1VQ6J 3CCUJ 3CPWI 2QA4J 1QVFI 1M1KK 3CCEJ 1J3AA 3J7YK 3CC2J 3CCMJ 1KC8K 4IOAG 2QEXJ 1YI2J 3DLLG 3CMAJ 2ZJRG 1Q86K 1VQ4J 3PIOG 1M90K 3CCSJ 2ZJPG 1VQOJ 1Q81K 1Q82K 1K9MK 1Q7YK 3CMEJ 1K73K 1YJ9J 1VQNJ 3CC4J 1W2BI 1YHQJ 1YIJJ 2ZJQG 1VQ9J
chains in the Genus database with same CATH topology
2OTJJ 1NJIK 1VQPJ 1K8AK 1N8RK 4IOCG 3CF5G 1S72J 3I55J 3PIPG 1VQ8J 3CCJJ 4IO9G 4V19N 3CC7J 3CXCI 3CCQJ 1YITJ 3OW2I 3CCRJ 1VQKJ 1KQSI 1KD1K 3G4SJ 1QVGI 1JJ2I 1VQLJ 3G71J 3G6EJ 3CD6J 1VQMJ 3I56J 1YJNJ 3CCLJ 3CCVJ 2OTLJ 1VQ5J 1YJWJ 1VQ7J 1VQ6J 3CCUJ 3CPWI 2QA4J 1QVFI 1M1KK 3CCEJ 1J3AA 3J7YK 3CC2J 3CCMJ 1KC8K 4IOAG 2QEXJ 1YI2J 3DLLG 3CMAJ 2ZJRG 1Q86K 1VQ4J 3PIOG 1M90K 3CCSJ 2ZJPG 1VQOJ 1Q81K 1Q82K 1K9MK 1Q7YK 3CMEJ 1K73K 1YJ9J 1VQNJ 3CC4J 1W2BI 1YHQJ 1YIJJ 2ZJQG 1VQ9J
chains in the Genus database with same CATH homology


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