5JVGW

The large ribosomal subunit from deinococcus radiodurans in complex with avilamycin
Total Genus 12
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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
12
sequence length
55
structure length
55
Chain Sequence
MKIKLVRSVIGRPGNQVKTVQALGLRKIGDSREVSDTPAVRGMVKTVKHLLEVQE
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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 Avilamycin and evernimicin induce structural changes in rProteins uL16 and CTC that enhance the inhibition of A-site tRNA binding.
pubmed doi rcsb
molecule tags Ribosome
molecule keywords 23S ribosomal RNA
total genus 12
structure length 55
sequence length 55
ec nomenclature
pdb deposition date 2016-05-11

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
W PF00327 Ribosomal_L30 Ribosomal protein L30p/L7e
Image from the rcsb pdb (www.rcsb.org)
cath code
ClassArchitectureTopologyHomologyDomain
3.30.1390.20 Alpha Beta 2-Layer Sandwich Ribosomal Protein L30; Chain: A, Ribosomal protein L30, ferredoxin-like fold domain 5jvgW00
2ZJQW 1VQ6W 1K8AX 1YJ9W 5HL7W 1VQ8W 1YI2W 1YJNW 3OW2V 1M1KX 1KC8X 1YHQW 3CC7W 4UY8Z 3CCRW 3I56W 3CCQW 3CC2W 4WFNW 5GAHa 4WCEW 3CD6W 4IO9W 3PIPW 1Q86X 5DM6W 3J7ZZ 4IOAW 1N8RX 2ZJRW 1VQ9W 1YJWW 1VQ4W 1QVGV 1VQNW 3CCSW 1YITW 5GADa 1NJIX 4WFAW 3CXCV 3G6EW 3CCUW 2ZJPW 4WFBW 1VQ5W 1M90X 5JVGW 3CCLW 1VQ7W 1YIJW 3CF5W 1Q7YX 5GAEa 3CC4W 4IOCW 3CCEW 1VQMW 1K73X 1VQKW 1K9MX 1KD1X 3CCMW 1KQSV 1VQOW 5DM7W 4U67W 3CCJW 3CPWV 3DLLW 3CMAW 1BXYA 3PIOW 4WF9W 5JVHW 1Q81X 3I55W 5GAGa 1S72W 1VQPW 1VQLW 2QEXW 2QA4W 3G71W 3G4SW 1W2BV 1QVFV 2OTJW 1JJ2V 3CCVW 1Q82X 3CMEW 2OTLW
chains in the Genus database with same CATH superfamily
2ZJQW 1VQ6W 1K8AX 3D3IA 1YJ9W 5HL7W 1VQ8W 1YI2W 1YJNW 3OW2V 1M1KX 1KC8X 1YHQW 3CC7W 4UY8Z 3CCRW 3I56W 3CCQW 3CC2W 4WFNW 1VQQA 5GAHa 4WCEW 4DKIA 3O2OA 3CD6W 4IO9W 3PIPW 1Q86X 3O1FA 5DM6W 3J7ZZ 4IOAW 1CTFA 1N8RX 4CPKA 3GQ1A 3DNJA 1RQVA 3W7WA 1DD3A 2W9RA 3O2BA 2ZJRW 1VQ9W 1YJWW 1VQ4W 3G19A 3ZG5A 1QVGV 3GW1A 1MBVB 1VQNW 3CCSW 1LZWA 1YITW 4BL3A 5GADa 1MBUC 1NJIX 4YJMA 4WFAW 3CXCV 1MWRA 3G3PA 3G6EW 3CCUW 5CA3A 2ZJPW 4WFBW 1MWUA 3W7XA 1VQ5W 5M18A 1M90X 5JVGW 3O1FB 3CCLW 1VQ7W 1DD4A 1YIJW 2WA8A 3CF5W 3W7SA 1MWTA 1Q7YX 1RQSA 3ZFZA 5GAEa 5M1AA 3W7TA 3CC4W 3ZG0A 4IOCW 3CCEW 1VQMW 1K73X 1MWSA 1RQUA 1VQKW 1K9MX 1KD1X 3W7UA 3GQ0A 3CCMW 1KQSV 4YJXA 1VQOW 1R6QC 5DM7W 3G1BA 4U67W 4CJNA 2WA9A 3CCJW 3CPWV 1MG9A 3DLLW 1MBXC 1BXYA 3CMAW 5M19A 3PIOW 4WF9W 4BL2A 5JVHW 5GW7A 3I55W 1Q81X 5GAGa 1S72W 1VQPW 1VQLW 2QEXW 2QA4W 3G71W 3G4SW 1W2BV 3O2HA 1QVFV 2OTJW 1JJ2V 4YKAA 3CCVW 1Q82X 3CMEW 1R6OC 2OTLW
chains in the Genus database with same CATH topology
2ZJQW 1VQ6W 1K8AX 1YJ9W 5HL7W 1VQ8W 1YI2W 1YJNW 3OW2V 1M1KX 1KC8X 1YHQW 3CC7W 4UY8Z 3CCRW 3I56W 3CCQW 3CC2W 4WFNW 5GAHa 4WCEW 3CD6W 4IO9W 3PIPW 1Q86X 5DM6W 3J7ZZ 4IOAW 1N8RX 2ZJRW 1VQ9W 1YJWW 1VQ4W 1QVGV 1VQNW 3CCSW 1YITW 5GADa 1NJIX 4WFAW 3CXCV 3G6EW 3CCUW 2ZJPW 4WFBW 1VQ5W 1M90X 5JVGW 3CCLW 1VQ7W 1YIJW 3CF5W 1Q7YX 5GAEa 3CC4W 4IOCW 3CCEW 1VQMW 1K73X 1VQKW 1K9MX 1KD1X 3CCMW 1KQSV 1VQOW 5DM7W 4U67W 3CCJW 3CPWV 3DLLW 3CMAW 1BXYA 3PIOW 4WF9W 5JVHW 1Q81X 3I55W 5GAGa 1S72W 1VQPW 1VQLW 2QEXW 2QA4W 3G71W 3G4SW 1W2BV 1QVFV 2OTJW 1JJ2V 3CCVW 1Q82X 3CMEW 2OTLW
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 2ZJQ W;  1VQ6 W;  1K8A X;  1YJ9 W;  5HL7 W;  1VQ8 W;  1YI2 W;  1YJN W;  3OW2 V;  1M1K X;  1KC8 X;  1YHQ W;  3CC7 W;  4UY8 Z;  3CCR W;  3I56 W;  3CCQ W;  3CC2 W;  4WFN W;  5GAH a;  4WCE W;  3CD6 W;  4IO9 W;  3PIP W;  1Q86 X;  5DM6 W;  3J7Z Z;  4IOA W;  1N8R X;  2ZJR W;  1VQ9 W;  1YJW W;  1VQ4 W;  1QVG V;  1VQN W;  3CCS W;  1YIT W;  5GAD a;  1NJI X;  4WFA W;  3CXC V;  3G6E W;  3CCU W;  2ZJP W;  4WFB W;  1VQ5 W;  1M90 X;  5JVG W;  3CCL W;  1VQ7 W;  1YIJ W;  3CF5 W;  1Q7Y X;  5GAE a;  3CC4 W;  4IOC W;  3CCE W;  1VQM W;  1K73 X;  1VQK W;  1K9M X;  1KD1 X;  3CCM W;  1KQS V;  1VQO W;  5DM7 W;  4U67 W;  3CCJ W;  3CPW V;  3DLL W;  3CMA W;  1BXY A;  3PIO W;  4WF9 W;  5JVH W;  1Q81 X;  3I55 W;  5GAG a;  1S72 W;  1VQP W;  1VQL W;  2QEX W;  2QA4 W;  3G71 W;  3G4S W;  1W2B V;  1QVF V;  2OTJ W;  1JJ2 V;  3CCV W;  1Q82 X;  3CME W;  2OTL W; 
#chains in the Genus database with same CATH topology
 2ZJQ W;  1VQ6 W;  1K8A X;  3D3I A;  1YJ9 W;  5HL7 W;  1VQ8 W;  1YI2 W;  1YJN W;  3OW2 V;  1M1K X;  1KC8 X;  1YHQ W;  3CC7 W;  4UY8 Z;  3CCR W;  3I56 W;  3CCQ W;  3CC2 W;  4WFN W;  1VQQ A;  5GAH a;  4WCE W;  4DKI A;  3O2O A;  3CD6 W;  4IO9 W;  3PIP W;  1Q86 X;  3O1F A;  5DM6 W;  3J7Z Z;  4IOA W;  1CTF A;  1N8R X;  4CPK A;  3GQ1 A;  3DNJ A;  1RQV A;  3W7W A;  1DD3 A;  2W9R A;  3O2B A;  2ZJR W;  1VQ9 W;  1YJW W;  1VQ4 W;  3G19 A;  3ZG5 A;  1QVG V;  3GW1 A;  1MBV B;  1VQN W;  3CCS W;  1LZW A;  1YIT W;  4BL3 A;  5GAD a;  1MBU C;  1NJI X;  4YJM A;  4WFA W;  3CXC V;  1MWR A;  3G3P A;  3G6E W;  3CCU W;  5CA3 A;  2ZJP W;  4WFB W;  1MWU A;  3W7X A;  1VQ5 W;  5M18 A;  1M90 X;  5JVG W;  3O1F B;  3CCL W;  1VQ7 W;  1DD4 A;  1YIJ W;  2WA8 A;  3CF5 W;  3W7S A;  1MWT A;  1Q7Y X;  1RQS A;  3ZFZ A;  5GAE a;  5M1A A;  3W7T A;  3CC4 W;  3ZG0 A;  4IOC W;  3CCE W;  1VQM W;  1K73 X;  1MWS A;  1RQU A;  1VQK W;  1K9M X;  1KD1 X;  3W7U A;  3GQ0 A;  3CCM W;  1KQS V;  4YJX A;  1VQO W;  1R6Q C;  5DM7 W;  3G1B A;  4U67 W;  4CJN A;  2WA9 A;  3CCJ W;  3CPW V;  1MG9 A;  3DLL W;  1MBX C;  1BXY A;  3CMA W;  5M19 A;  3PIO W;  4WF9 W;  4BL2 A;  5JVH W;  5GW7 A;  3I55 W;  1Q81 X;  5GAG a;  1S72 W;  1VQP W;  1VQL W;  2QEX W;  2QA4 W;  3G71 W;  3G4S W;  1W2B V;  3O2H A;  1QVF V;  2OTJ W;  1JJ2 V;  4YKA A;  3CCV W;  1Q82 X;  3CME W;  1R6O C;  2OTL W; 
#chains in the Genus database with same CATH homology
 2ZJQ W;  1VQ6 W;  1K8A X;  1YJ9 W;  5HL7 W;  1VQ8 W;  1YI2 W;  1YJN W;  3OW2 V;  1M1K X;  1KC8 X;  1YHQ W;  3CC7 W;  4UY8 Z;  3CCR W;  3I56 W;  3CCQ W;  3CC2 W;  4WFN W;  5GAH a;  4WCE W;  3CD6 W;  4IO9 W;  3PIP W;  1Q86 X;  5DM6 W;  3J7Z Z;  4IOA W;  1N8R X;  2ZJR W;  1VQ9 W;  1YJW W;  1VQ4 W;  1QVG V;  1VQN W;  3CCS W;  1YIT W;  5GAD a;  1NJI X;  4WFA W;  3CXC V;  3G6E W;  3CCU W;  2ZJP W;  4WFB W;  1VQ5 W;  1M90 X;  5JVG W;  3CCL W;  1VQ7 W;  1YIJ W;  3CF5 W;  1Q7Y X;  5GAE a;  3CC4 W;  4IOC W;  3CCE W;  1VQM W;  1K73 X;  1VQK W;  1K9M X;  1KD1 X;  3CCM W;  1KQS V;  1VQO W;  5DM7 W;  4U67 W;  3CCJ W;  3CPW V;  3DLL W;  3CMA W;  1BXY A;  3PIO W;  4WF9 W;  5JVH W;  1Q81 X;  3I55 W;  5GAG a;  1S72 W;  1VQP W;  1VQL W;  2QEX W;  2QA4 W;  3G71 W;  3G4S W;  1W2B V;  1QVF V;  2OTJ W;  1JJ2 V;  3CCV W;  1Q82 X;  3CME W;  2OTL W; 
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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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