3PIPW

Crystal structure of the synergistic antibiotic pair lankamycin and lankacidin in complex with the large ribosomal subunit
Total Genus 11
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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
11
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 Crystal structure of the synergistic antibiotic pair, lankamycin and lankacidin, in complex with the large ribosomal subunit.
pubmed doi rcsb
molecule tags Ribosome/antibiotic
molecule keywords RIBOSOMAL 23S RNA
total genus 11
structure length 55
sequence length 55
ec nomenclature
pdb deposition date 2010-11-07

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 3pipW00
1VQ5W 1VQOW 1Q81X 1QVFV 3PIOW 3CPWV 2OTJW 3CCUW 1VQLW 3CF5W 1VQ6W 3CXCV 1M90X 3G4SW 4IOAW 3J7ZZ 1VQPW 1KD1X 1YJNW 5GAHa 5GADa 2ZJQW 2ZJPW 1YJ9W 3PIPW 2QEXW 5DM6W 4WFAW 1YJWW 3DLLW 3CCSW 3CMAW 1VQMW 1KC8X 3CD6W 3CC2W 1Q86X 2ZJRW 1VQ7W 1YI2W 5GAGa 1Q7YX 5GAEa 3CCJW 4WFBW 3CCQW 4WCEW 2OTLW 2QA4W 3G6EW 4WFNW 3CC4W 1VQNW 3CMEW 1Q82X 1NJIX 3CCVW 1YITW 1VQ9W 1N8RX 3CCLW 1JJ2V 3I56W 4UY8Z 1K8AX 1QVGV 3CCMW 1VQ4W 5DM7W 3CCEW 1BXYA 1YIJW 3G71W 1YHQW 1S72W 1W2BV 1VQKW 1K73X 5JVHW 1K9MX 1VQ8W 3CCRW 1M1KX 4IO9W 3CC7W 3I55W 4WF9W 5HL7W 4U67W 4IOCW 5JVGW 3OW2V 1KQSV
chains in the Genus database with same CATH superfamily
1MG9A 1VQ5W 1VQOW 1Q81X 1QVFV 1DD3A 3D3IA 3PIOW 3CPWV 3CCUW 1VQLW 2OTJW 3CF5W 1VQ6W 3CXCV 1M90X 3G4SW 4IOAW 3J7ZZ 1VQPW 1KD1X 3O2HA 3W7WA 4CJNA 1YJNW 5GAHa 1LZWA 3O2BA 5GADa 2ZJQW 2ZJPW 1YJ9W 3PIPW 2QEXW 3W7XA 3G3PA 3GQ0A 5GW7A 5DM6W 4WFAW 1YJWW 1CTFA 3DLLW 3ZFZA 4YJMA 3CCSW 4BL2A 3CMAW 1MBUC 1MBVB 1VQMW 1KC8X 1MWSA 3CD6W 3CC2W 1Q86X 2ZJRW 1VQ7W 1YI2W 5CA3A 4DKIA 5GAGa 5M1AA 5GAEa 1Q7YX 1MWRA 3CCJW 4WFBW 3CCQW 4WCEW 1RQUA 4YJXA 2OTLW 1R6QC 2QA4W 3G6EW 4YKAA 4WFNW 3G19A 3CC4W 1VQNW 3CMEW 1Q82X 1NJIX 3CCVW 3O2OA 1YITW 1VQ9W 1N8RX 3CCLW 1JJ2V 5M19A 1MBXC 3I56W 4UY8Z 3O1FB 1K8AX 1QVGV 1MWTA 3CCMW 3G1BA 1VQ4W 5DM7W 1BXYA 1RQVA 3CCEW 1YIJW 3G71W 2WA8A 1VQQA 3W7TA 5M18A 2WA9A 1MWUA 3W7UA 1YHQW 2W9RA 1S72W 1W2BV 1DD4A 3DNJA 1VQKW 1K73X 3W7SA 3O1FA 5JVHW 1RQSA 1K9MX 3ZG0A 1VQ8W 3CCRW 1M1KX 4IO9W 3CC7W 3I55W 4WF9W 5HL7W 4U67W 1R6OC 4BL3A 4IOCW 4CPKA 3GQ1A 5JVGW 3OW2V 3ZG5A 1KQSV 3GW1A
chains in the Genus database with same CATH topology
1VQ5W 1VQOW 1Q81X 1QVFV 3PIOW 3CPWV 2OTJW 3CCUW 1VQLW 3CF5W 1VQ6W 3CXCV 1M90X 3G4SW 4IOAW 3J7ZZ 1VQPW 1KD1X 1YJNW 5GAHa 5GADa 2ZJQW 2ZJPW 1YJ9W 3PIPW 2QEXW 5DM6W 4WFAW 1YJWW 3DLLW 3CCSW 3CMAW 1VQMW 1KC8X 3CD6W 3CC2W 1Q86X 2ZJRW 1VQ7W 1YI2W 5GAGa 1Q7YX 5GAEa 3CCJW 4WFBW 3CCQW 4WCEW 2OTLW 2QA4W 3G6EW 4WFNW 3CC4W 1VQNW 3CMEW 1Q82X 1NJIX 3CCVW 1YITW 1VQ9W 1N8RX 3CCLW 1JJ2V 3I56W 4UY8Z 1K8AX 1QVGV 3CCMW 1VQ4W 5DM7W 3CCEW 1BXYA 1YIJW 3G71W 1YHQW 1S72W 1W2BV 1VQKW 1K73X 5JVHW 1K9MX 1VQ8W 3CCRW 1M1KX 4IO9W 3CC7W 3I55W 4WF9W 5HL7W 4U67W 4IOCW 5JVGW 3OW2V 1KQSV
chains in the Genus database with same CATH homology


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