5DM6P

Crystal structure of the 50s ribosomal subunit from deinococcus radiodurans
Total Genus 30
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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
30
sequence length
127
structure length
127
Chain Sequence
FRNKKQRKQQVKLRKPGFAVAKYVRMSPRKVRLVVDVIRGKSVQDAEDLLRFIPRSASEPVAKVLNSAKANALHNDEMLEDRLFVKEAYVDAGPTLKRLIPRARGSANIIKKRTSHITIIVAEKGNK
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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 50S ribosomal protein L1
publication title Crystallographic characterization of the ribosomal binding site and molecular mechanism of action of Hygromycin A.
pubmed doi rcsb
total genus 30
structure length 127
sequence length 127
ec nomenclature
pdb deposition date 2015-09-08

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
P PF00237 Ribosomal_L22 Ribosomal protein L22p/L17e
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.90.470.10 Alpha Beta Alpha-Beta Complex Ribosomal Protein L22; Chain A Ribosomal protein L22/L17 5dm6P00
1K8AS 1M1KS 5HL7P 5JVGP 1K73S 1K9MS 3CXCQ 1KD1S 4IOAP 1KC8S 1YJNR 1VQ9R 3G4SR 1Q81S 3CF5P 1Q86S 1VQKR 4WFBP 4WF9P 3CCJR 4IO9P 3CMER 3CPWQ 1VQ4R 3CCMR 1W2BQ 1YI2R 1VQLR 1VQ8R 3PIOP 4WFNP 2QEXR 3CCLR 3CCQR 3CCER 3CMAR 1NJIS 2ZJPP 3I55R 1VQ6R 5GAHT 1YIJR 1Q7YS 5MLCU 2QA4R 5H1SU 1S72R 3CC4R 2OTJR 3G71R 4V19W 3J7YT 5DM6P 3G6ER 3CCUR 1M90S 5GAET 4UY8S 1VQ7R 1VQPR 3OW2Q 1VQ5R 1KQSQ 1VQNR 1VQOR 1YJ9R 2ZJRP 1BXEA 1VQMR 5GADT 1I4JA 3CCSR 1YITR 3I56R 3CC7R 1YJWR 3J7ZS 2OTLR 4U67P 1QVGQ 1YHQR 4WCEP 2ZJQP 3PIPP 1Q82S 3CD6R 1JJ2Q 1N8RS 1QVFQ 4WFAP 3DLLP 3CCVR 5JVHP 3CCRR 5GAGT 5DM7P 4IOCP 3CC2R
chains in the Genus database with same CATH superfamily
1K8AS 5CXDA 1FTEA 1M1KS 5HL7P 5JVGP 1K73S 4MRTA 3CXCQ 1K9MS 1KD1S 4IOAP 1KC8S 2QG8A 3H7QA 1YJNR 1VQ9R 2WDYA 5CMOA 3G4SR 2JCAA 1Q81S 3CF5P 1Q86S 1QR0A 1VQKR 4WFBP 2BYDA 3QMNA 4WF9P 3CCJR 4IO9P 3CMER 3CPWQ 1VQ4R 3CCMR 1W2BQ 1YI2R 1VQLR 2WATA 3PIOP 1VQ8R 2D0OA 4WFNP 4DXEA 1F7TA 3NE1A 3GWMA 3HQJA 2WDSA 2QEXR 2WDOA 4HC6A 3CCLR 3CCQR 3CCER 3CMAR 1NJIS 2ZJPP 1NBWA 3I55R 1VQ6R 5GAHT 1YIJR 1Q7YS 5MLCU 2QA4R 5H1SU 2WASA 1S72R 3CC4R 2OTJR 3G71R 4V19W 3J7YT 2WASB 5DM6P 3G6ER 4JM7A 3CCUR 1M90S 5GAET 4UY8S 1VQ7R 1VQPR 3OW2Q 3HYKA 1VQ5R 1F80A 1KQSQ 1VQNR 1F7LA 1VQOR 1YJ9R 2ZJRP 1BXEA 1VQMR 2BDDA 1I4JA 5GADT 3CCSR 1YITR 3I56R 3CC7R 1YJWR 3J7ZS 2OTLR 4U67P 1QVGQ 1YHQR 2JBZA 4WCEP 2ZJQP 3PIPP 1FTHA 1Q82S 3CD6R 3NE3B 2D0PA 1JJ2Q 1N8RS 2CG5A 3NE9A 3NFDA 1QVFQ 1FTFA 2C43A 4WFAP 3DLLP 3CCVR 5JVHP 3CCRR 5GAGT 5DM7P 4IOCP 3CC2R
chains in the Genus database with same CATH topology
1K8AS 1M1KS 5HL7P 5JVGP 1K73S 1K9MS 3CXCQ 1KD1S 4IOAP 1KC8S 1YJNR 1VQ9R 3G4SR 1Q81S 3CF5P 1Q86S 1VQKR 4WFBP 4WF9P 3CCJR 4IO9P 3CMER 3CPWQ 1VQ4R 3CCMR 1W2BQ 1YI2R 1VQLR 1VQ8R 3PIOP 4WFNP 2QEXR 3CCLR 3CCQR 3CCER 3CMAR 1NJIS 2ZJPP 3I55R 1VQ6R 5GAHT 1YIJR 1Q7YS 5MLCU 2QA4R 5H1SU 1S72R 3CC4R 2OTJR 3G71R 4V19W 3J7YT 5DM6P 3G6ER 3CCUR 1M90S 5GAET 4UY8S 1VQ7R 1VQPR 3OW2Q 1VQ5R 1KQSQ 1VQNR 1VQOR 1YJ9R 2ZJRP 1BXEA 1VQMR 5GADT 1I4JA 3CCSR 1YITR 3I56R 3CC7R 1YJWR 3J7ZS 2OTLR 4U67P 1QVGQ 1YHQR 4WCEP 2ZJQP 3PIPP 1Q82S 3CD6R 1JJ2Q 1N8RS 1QVFQ 4WFAP 3DLLP 3CCVR 5JVHP 3CCRR 5GAGT 5DM7P 4IOCP 3CC2R
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 1K8A S;  1M1K S;  5HL7 P;  5JVG P;  1K73 S;  1K9M S;  3CXC Q;  1KD1 S;  4IOA P;  1KC8 S;  1YJN R;  1VQ9 R;  3G4S R;  1Q81 S;  3CF5 P;  1Q86 S;  1VQK R;  4WFB P;  4WF9 P;  3CCJ R;  4IO9 P;  3CME R;  3CPW Q;  1VQ4 R;  3CCM R;  1W2B Q;  1YI2 R;  1VQL R;  1VQ8 R;  3PIO P;  4WFN P;  2QEX R;  3CCL R;  3CCQ R;  3CCE R;  3CMA R;  1NJI S;  2ZJP P;  3I55 R;  1VQ6 R;  5GAH T;  1YIJ R;  1Q7Y S;  5MLC U;  2QA4 R;  5H1S U;  1S72 R;  3CC4 R;  2OTJ R;  3G71 R;  4V19 W;  3J7Y T;  5DM6 P;  3G6E R;  3CCU R;  1M90 S;  5GAE T;  4UY8 S;  1VQ7 R;  1VQP R;  3OW2 Q;  1VQ5 R;  1KQS Q;  1VQN R;  1VQO R;  1YJ9 R;  2ZJR P;  1BXE A;  1VQM R;  5GAD T;  1I4J A;  3CCS R;  1YIT R;  3I56 R;  3CC7 R;  1YJW R;  3J7Z S;  2OTL R;  4U67 P;  1QVG Q;  1YHQ R;  4WCE P;  2ZJQ P;  3PIP P;  1Q82 S;  3CD6 R;  1JJ2 Q;  1N8R S;  1QVF Q;  4WFA P;  3DLL P;  3CCV R;  5JVH P;  3CCR R;  5GAG T;  5DM7 P;  4IOC P;  3CC2 R; 
#chains in the Genus database with same CATH topology
 1K8A S;  5CXD A;  1FTE A;  1M1K S;  5HL7 P;  5JVG P;  1K73 S;  4MRT A;  3CXC Q;  1K9M S;  1KD1 S;  4IOA P;  1KC8 S;  2QG8 A;  3H7Q A;  1YJN R;  1VQ9 R;  2WDY A;  5CMO A;  3G4S R;  2JCA A;  1Q81 S;  3CF5 P;  1Q86 S;  1QR0 A;  1VQK R;  4WFB P;  2BYD A;  3QMN A;  4WF9 P;  3CCJ R;  4IO9 P;  3CME R;  3CPW Q;  1VQ4 R;  3CCM R;  1W2B Q;  1YI2 R;  1VQL R;  2WAT A;  3PIO P;  1VQ8 R;  2D0O A;  4WFN P;  4DXE A;  1F7T A;  3NE1 A;  3GWM A;  3HQJ A;  2WDS A;  2QEX R;  2WDO A;  4HC6 A;  3CCL R;  3CCQ R;  3CCE R;  3CMA R;  1NJI S;  2ZJP P;  1NBW A;  3I55 R;  1VQ6 R;  5GAH T;  1YIJ R;  1Q7Y S;  5MLC U;  2QA4 R;  5H1S U;  2WAS A;  1S72 R;  3CC4 R;  2OTJ R;  3G71 R;  4V19 W;  3J7Y T;  2WAS B;  5DM6 P;  3G6E R;  4JM7 A;  3CCU R;  1M90 S;  5GAE T;  4UY8 S;  1VQ7 R;  1VQP R;  3OW2 Q;  3HYK A;  1VQ5 R;  1F80 A;  1KQS Q;  1VQN R;  1F7L A;  1VQO R;  1YJ9 R;  2ZJR P;  1BXE A;  1VQM R;  2BDD A;  1I4J A;  5GAD T;  3CCS R;  1YIT R;  3I56 R;  3CC7 R;  1YJW R;  3J7Z S;  2OTL R;  4U67 P;  1QVG Q;  1YHQ R;  2JBZ A;  4WCE P;  2ZJQ P;  3PIP P;  1FTH A;  1Q82 S;  3CD6 R;  3NE3 B;  2D0P A;  1JJ2 Q;  1N8R S;  2CG5 A;  3NE9 A;  3NFD A;  1QVF Q;  1FTF A;  2C43 A;  4WFA P;  3DLL P;  3CCV R;  5JVH P;  3CCR R;  5GAG T;  5DM7 P;  4IOC P;  3CC2 R; 
#chains in the Genus database with same CATH homology
 1K8A S;  1M1K S;  5HL7 P;  5JVG P;  1K73 S;  1K9M S;  3CXC Q;  1KD1 S;  4IOA P;  1KC8 S;  1YJN R;  1VQ9 R;  3G4S R;  1Q81 S;  3CF5 P;  1Q86 S;  1VQK R;  4WFB P;  4WF9 P;  3CCJ R;  4IO9 P;  3CME R;  3CPW Q;  1VQ4 R;  3CCM R;  1W2B Q;  1YI2 R;  1VQL R;  1VQ8 R;  3PIO P;  4WFN P;  2QEX R;  3CCL R;  3CCQ R;  3CCE R;  3CMA R;  1NJI S;  2ZJP P;  3I55 R;  1VQ6 R;  5GAH T;  1YIJ R;  1Q7Y S;  5MLC U;  2QA4 R;  5H1S U;  1S72 R;  3CC4 R;  2OTJ R;  3G71 R;  4V19 W;  3J7Y T;  5DM6 P;  3G6E R;  3CCU R;  1M90 S;  5GAE T;  4UY8 S;  1VQ7 R;  1VQP R;  3OW2 Q;  1VQ5 R;  1KQS Q;  1VQN R;  1VQO R;  1YJ9 R;  2ZJR P;  1BXE A;  1VQM R;  5GAD T;  1I4J A;  3CCS R;  1YIT R;  3I56 R;  3CC7 R;  1YJW R;  3J7Z S;  2OTL R;  4U67 P;  1QVG Q;  1YHQ R;  4WCE P;  2ZJQ P;  3PIP P;  1Q82 S;  3CD6 R;  1JJ2 Q;  1N8R S;  1QVF Q;  4WFA P;  3DLL P;  3CCV R;  5JVH P;  3CCR R;  5GAG T;  5DM7 P;  4IOC P;  3CC2 R; 
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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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