3PIPW

Crystal structure of the synergistic antibiotic pair lankamycin and lankacidin in complex with the large ribosomal subunit
Total Genus 11

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

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.


  Genus data interpretation
Chord Diagram
S1 (2-5)S3 (51-53)TII2 (27-30)EMPTYTII1 (9-12)AH2 (38-47)S2 (30-33)3H1 (48-50)AH1 (14-23)Updating...
connected with : NaN
molecule tags Ribosome/antibiotic
publication title Crystal structure of the synergistic antibiotic pair, lankamycin and lankacidin, in complex with the large ribosomal subunit.
pubmed doi rcsb
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
4WFAW 2QEXW 3CCRW 3CCUW 1VQOW 3CC4W 1YI2W 5GAGa 4IOAW 3J7ZZ 3I56W 1KC8X 5DM6W 1S72W 2OTLW 4WFNW 3OW2V 3CC2W 5JVGW 3CCMW 1YJNW 1M90X 4U67W 4UY8Z 5GAHa 1JJ2V 1QVGV 5GADa 1Q82X 1VQ4W 5JVHW 1NJIX 2ZJPW 1VQ9W 1W2BV 1Q81X 1K8AX 1YIJW 1VQ6W 1K9MX 1VQMW 1YJWW 2OTJW 5DM7W 2ZJRW 2ZJQW 1K73X 3CCJW 1VQLW 4WF9W 1VQPW 1BXYA 3I55W 3CCQW 1YJ9W 1QVFV 1Q86X 4IO9W 1Q7YX 3CCEW 3CCSW 1KD1X 3CXCV 3CC7W 3CMAW 2QA4W 3PIOW 3CMEW 1YITW 1M1KX 4WCEW 4IOCW 1VQKW 3DLLW 5GAEa 4WFBW 1N8RX 5HL7W 3CF5W 3CD6W 1YHQW 1VQ8W 3CCLW 3CPWV 3G71W 1VQ5W 3G4SW 1VQ7W 3G6EW 3CCVW 1KQSV 1VQNW 3PIPW
chains in the Genus database with same CATH superfamily
4WFAW 2QEXW 3W7TA 2W9RA 3CCRW 3CCUW 1VQOW 3CC4W 1YI2W 5GAGa 5M19A 1R6OC 4IOAW 3J7ZZ 3G19A 3I56W 1KC8X 5DM6W 1S72W 3W7XA 2OTLW 4WFNW 4BL2A 3OW2V 3CC2W 3DNJA 1MBUC 3CCMW 5JVGW 4CPKA 1YJNW 1MG9A 1M90X 4U67W 4UY8Z 5GAHa 1MBXC 3G3PA 1JJ2V 1QVGV 1LZWA 1RQUA 4DKIA 5GADa 3W7SA 3O1FA 1Q82X 1VQ4W 5JVHW 1NJIX 2ZJPW 1VQ9W 3ZG5A 1W2BV 5M18A 1Q81X 3O2HA 1K8AX 1YIJW 1RQVA 1VQ6W 1K9MX 1VQMW 1YJWW 2OTJW 3GW1A 4BL3A 5DM7W 4YJMA 2ZJRW 4YJXA 2ZJQW 1K73X 1MBVB 3G1BA 1R6QC 3CCJW 1VQLW 4WF9W 1VQPW 1BXYA 3W7UA 3I55W 3CCQW 1YJ9W 1QVFV 3ZFZA 1Q86X 4IO9W 1Q7YX 3CCEW 3CCSW 3O1FB 5CA3A 1MWUA 2WA8A 1KD1X 4YKAA 1CTFA 2WA9A 3CXCV 3CC7W 3ZG0A 3CMAW 5GW7A 3GQ1A 2QA4W 3GQ0A 3O2OA 3PIOW 3CMEW 1YITW 1M1KX 4WCEW 1VQQA 1DD3A 4IOCW 3O2BA 3D3IA 1VQKW 1RQSA 3DLLW 5GAEa 4WFBW 1MWTA 1N8RX 5HL7W 3CF5W 1DD4A 3W7WA 3CD6W 1YHQW 1MWRA 1VQ8W 3CCLW 3CPWV 3G71W 1MWSA 1VQ5W 5M1AA 4CJNA 3G4SW 1VQ7W 3G6EW 3CCVW 1KQSV 1VQNW 3PIPW
chains in the Genus database with same CATH topology
4WFAW 2QEXW 3CCRW 3CCUW 1VQOW 3CC4W 1YI2W 5GAGa 4IOAW 3J7ZZ 3I56W 1KC8X 5DM6W 1S72W 2OTLW 4WFNW 3OW2V 3CC2W 5JVGW 3CCMW 1YJNW 1M90X 4U67W 4UY8Z 5GAHa 1JJ2V 1QVGV 5GADa 1Q82X 1VQ4W 5JVHW 1NJIX 2ZJPW 1VQ9W 1W2BV 1Q81X 1K8AX 1YIJW 1VQ6W 1K9MX 1VQMW 1YJWW 2OTJW 5DM7W 2ZJRW 2ZJQW 1K73X 3CCJW 1VQLW 4WF9W 1VQPW 1BXYA 3I55W 3CCQW 1YJ9W 1QVFV 1Q86X 4IO9W 1Q7YX 3CCEW 3CCSW 1KD1X 3CXCV 3CC7W 3CMAW 2QA4W 3PIOW 3CMEW 1YITW 1M1KX 4WCEW 4IOCW 1VQKW 3DLLW 5GAEa 4WFBW 1N8RX 5HL7W 3CF5W 3CD6W 1YHQW 1VQ8W 3CCLW 3CPWV 3G71W 1VQ5W 3G4SW 1VQ7W 3G6EW 3CCVW 1KQSV 1VQNW 3PIPW
chains in the Genus database with same CATH homology

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