1YITW

Crystal structure of virginiamycin m and s bound to the 50s ribosomal subunit of haloarcula marismortui
Total Genus 47
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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
47
sequence length
154
structure length
154
Chain Sequence
MHALVQLRGEVNMHTDIQDTLEMLNIHHVNHCTLVPETDAYRGMVAKVNDFVAFGEPSQETLETVLATRAEPLEGDADVDDEWVAEHTDYDDISGLAFALLSEETTLREQGLSPTLRLHPPRGGHDGVKHPVKEGGQLGKHDTEGIDDLLEAMR
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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/antibiotic
molecule keywords 23S RIBOSOMAL RNA
publication title Structures of Mlsbk Antibiotics Bound to Mutated Large Ribosomal Subunits Provide a Structural Explanation for Resistance.
pubmed doi rcsb
total genus 47
structure length 154
sequence length 154
ec nomenclature
pdb deposition date 2005-01-13

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
1.10.15.30 Mainly Alpha Orthogonal Bundle 3-methyladenine DNA Glycosylase II; Chain A, domain 3 3-methyladenine DNA Glycosylase II; Chain A, domain 3 1yitW02
3.30.1390.20 Alpha Beta 2-Layer Sandwich Ribosomal Protein L30; Chain: A, Ribosomal protein L30, ferredoxin-like fold domain 1yitW01
3J7ZZ 1YITW 4UY8Z 3G4SW 1NJIX 1KQSV 5GAHa 4U67W 3I56W 1JJ2V 1BXYA 1YIJW 2ZJPW 1VQ8W 1QVGV 4IOCW 3CC2W 2QEXW 3CXCV 3CC7W 1W2BV 1YHQW 5DM7W 5GAGa 4WFAW 5JVHW 1M1KX 1VQ4W 3DLLW 3CCVW 1VQPW 5GADa 1YJWW 1VQOW 3I55W 1QVFV 3CF5W 3CMAW 3CCMW 1Q7YX 1VQ6W 1YJ9W 4IOAW 5HL7W 4IO9W 1S72W 3PIOW 4WFNW 1K8AX 3CCUW 1VQNW 3CCQW 2OTJW 1VQMW 1Q86X 4WF9W 1Q81X 3OW2V 3CCSW 4WFBW 1VQ7W 2ZJRW 1KD1X 2OTLW 1VQKW 3PIPW 3CD6W 1K9MX 1KC8X 3CC4W 3CCLW 5GAEa 2QA4W 1N8RX 3G6EW 3CCEW 3CPWV 1VQLW 3CMEW 3CCRW 3G71W 1K73X 4WCEW 1VQ9W 5DM6W 2ZJQW 1Q82X 1YI2W 3CCJW 1VQ5W 5JVGW 1YJNW 1M90X
chains in the Genus database with same CATH superfamily
1MBXC 2WA8A 3J7ZZ 1YITW 4UY8Z 3G4SW 1NJIX 1KQSV 3O2BA 1RQSA 1MWSA 5GAHa 4U67W 3I56W 1JJ2V 1BXYA 1YIJW 2ZJPW 1VQ8W 1QVGV 1R6QC 3O2OA 1MBVB 4IOCW 3CC2W 1MBUC 4YKAA 2QEXW 3CXCV 3CC7W 1W2BV 3DNJA 1YHQW 5DM7W 5GAGa 1RQVA 4WFAW 2WA9A 5JVHW 4YJMA 1M1KX 4YJXA 3G19A 1VQ4W 3O1FB 4CJNA 3W7TA 3CCVW 3DLLW 1VQPW 5GADa 2W9RA 3D3IA 1YJWW 1VQOW 1R6OC 3I55W 1QVFV 3W7WA 3CF5W 3CMAW 3CCMW 1Q7YX 1VQ6W 1YJ9W 4IOAW 5HL7W 4IO9W 1S72W 3PIOW 4WFNW 1K8AX 5M1AA 3CCUW 3ZG0A 1LZWA 1VQNW 3CCQW 2OTJW 1VQMW 1Q86X 5M18A 3W7XA 3GQ0A 1DD4A 4WF9W 1Q81X 3OW2V 3CCSW 4WFBW 1VQ7W 2ZJRW 1KD1X 4C1NA 2OTLW 1VQKW 3PIPW 4BL3A 3CD6W 4CPKA 1K9MX 1MWUA 1KC8X 1RQUA 1MWRA 3CC4W 1CTFA 3CCLW 5GAEa 2QA4W 3W7SA 1N8RX 3G6EW 3CCEW 3CPWV 5M19A 1MWTA 1MG9A 1VQLW 1DD3A 3CMEW 3ZFZA 3CCRW 1VQQA 3G71W 1K73X 3GQ1A 4BL2A 4WCEW 1VQ9W 5DM6W 3G1BA 3GW1A 3ZG5A 4DKIA 3O1FA 3O2HA 2ZJQW 1Q82X 3W7UA 5GW7A 1YI2W 3G3PA 3CCJW 1VQ5W 5JVGW 1YJNW 1M90X 5CA3A
chains in the Genus database with same CATH topology
3J7ZZ 1YITW 4UY8Z 3G4SW 1NJIX 1KQSV 5GAHa 4U67W 3I56W 1JJ2V 1BXYA 1YIJW 2ZJPW 1VQ8W 1QVGV 4IOCW 3CC2W 2QEXW 3CXCV 3CC7W 1W2BV 1YHQW 5DM7W 5GAGa 4WFAW 5JVHW 1M1KX 1VQ4W 3DLLW 3CCVW 1VQPW 5GADa 1YJWW 1VQOW 3I55W 1QVFV 3CF5W 3CMAW 3CCMW 1Q7YX 1VQ6W 1YJ9W 4IOAW 5HL7W 4IO9W 1S72W 3PIOW 4WFNW 1K8AX 3CCUW 1VQNW 3CCQW 2OTJW 1VQMW 1Q86X 4WF9W 1Q81X 3OW2V 3CCSW 4WFBW 1VQ7W 2ZJRW 1KD1X 4C1NA 2OTLW 1VQKW 3PIPW 3CD6W 1K9MX 1KC8X 3CC4W 3CCLW 5GAEa 2QA4W 1N8RX 3G6EW 3CCEW 3CPWV 1VQLW 3CMEW 3CCRW 3G71W 1K73X 4WCEW 1VQ9W 5DM6W 2ZJQW 1Q82X 1YI2W 3CCJW 1VQ5W 5JVGW 1YJNW 1M90X
chains in the Genus database with same CATH homology


 
#chains in the Genus database with same CATH superfamily
 3J7Z Z;  1YIT W;  4UY8 Z;  3G4S W;  1NJI X;  1KQS V;  5GAH a;  4U67 W;  3I56 W;  1JJ2 V;  1BXY A;  1YIJ W;  2ZJP W;  1VQ8 W;  1QVG V;  4IOC W;  3CC2 W;  2QEX W;  3CXC V;  3CC7 W;  1W2B V;  1YHQ W;  5DM7 W;  5GAG a;  4WFA W;  5JVH W;  1M1K X;  1VQ4 W;  3DLL W;  3CCV W;  1VQP W;  5GAD a;  1YJW W;  1VQO W;  3I55 W;  1QVF V;  3CF5 W;  3CMA W;  3CCM W;  1Q7Y X;  1VQ6 W;  1YJ9 W;  4IOA W;  5HL7 W;  4IO9 W;  1S72 W;  3PIO W;  4WFN W;  1K8A X;  3CCU W;  1VQN W;  3CCQ W;  2OTJ W;  1VQM W;  1Q86 X;  4WF9 W;  1Q81 X;  3OW2 V;  3CCS W;  4WFB W;  1VQ7 W;  2ZJR W;  1KD1 X;  2OTL W;  1VQK W;  3PIP W;  3CD6 W;  1K9M X;  1KC8 X;  3CC4 W;  3CCL W;  5GAE a;  2QA4 W;  1N8R X;  3G6E W;  3CCE W;  3CPW V;  1VQL W;  3CME W;  3CCR W;  3G71 W;  1K73 X;  4WCE W;  1VQ9 W;  5DM6 W;  2ZJQ W;  1Q82 X;  1YI2 W;  3CCJ W;  1VQ5 W;  5JVG W;  1YJN W;  1M90 X; 
#chains in the Genus database with same CATH topology
 1MBX C;  2WA8 A;  3J7Z Z;  1YIT W;  4UY8 Z;  3G4S W;  1NJI X;  1KQS V;  3O2B A;  1RQS A;  1MWS A;  5GAH a;  4U67 W;  3I56 W;  1JJ2 V;  1BXY A;  1YIJ W;  2ZJP W;  1VQ8 W;  1QVG V;  1R6Q C;  3O2O A;  1MBV B;  4IOC W;  3CC2 W;  1MBU C;  4YKA A;  2QEX W;  3CXC V;  3CC7 W;  1W2B V;  3DNJ A;  1YHQ W;  5DM7 W;  5GAG a;  1RQV A;  4WFA W;  2WA9 A;  5JVH W;  4YJM A;  1M1K X;  4YJX A;  3G19 A;  1VQ4 W;  3O1F B;  4CJN A;  3W7T A;  3CCV W;  3DLL W;  1VQP W;  5GAD a;  2W9R A;  3D3I A;  1YJW W;  1VQO W;  1R6O C;  3I55 W;  1QVF V;  3W7W A;  3CF5 W;  3CMA W;  3CCM W;  1Q7Y X;  1VQ6 W;  1YJ9 W;  4IOA W;  5HL7 W;  4IO9 W;  1S72 W;  3PIO W;  4WFN W;  1K8A X;  5M1A A;  3CCU W;  3ZG0 A;  1LZW A;  1VQN W;  3CCQ W;  2OTJ W;  1VQM W;  1Q86 X;  5M18 A;  3W7X A;  3GQ0 A;  1DD4 A;  4WF9 W;  1Q81 X;  3OW2 V;  3CCS W;  4WFB W;  1VQ7 W;  2ZJR W;  1KD1 X;  4C1N A;  2OTL W;  1VQK W;  3PIP W;  4BL3 A;  3CD6 W;  4CPK A;  1K9M X;  1MWU A;  1KC8 X;  1RQU A;  1MWR A;  3CC4 W;  1CTF A;  3CCL W;  5GAE a;  2QA4 W;  3W7S A;  1N8R X;  3G6E W;  3CCE W;  3CPW V;  5M19 A;  1MWT A;  1MG9 A;  1VQL W;  1DD3 A;  3CME W;  3ZFZ A;  3CCR W;  1VQQ A;  3G71 W;  1K73 X;  3GQ1 A;  4BL2 A;  4WCE W;  1VQ9 W;  5DM6 W;  3G1B A;  3GW1 A;  3ZG5 A;  4DKI A;  3O1F A;  3O2H A;  2ZJQ W;  1Q82 X;  3W7U A;  5GW7 A;  1YI2 W;  3G3P A;  3CCJ W;  1VQ5 W;  5JVG W;  1YJN W;  1M90 X;  5CA3 A; 
#chains in the Genus database with same CATH homology
 3J7Z Z;  1YIT W;  4UY8 Z;  3G4S W;  1NJI X;  1KQS V;  5GAH a;  4U67 W;  3I56 W;  1JJ2 V;  1BXY A;  1YIJ W;  2ZJP W;  1VQ8 W;  1QVG V;  4IOC W;  3CC2 W;  2QEX W;  3CXC V;  3CC7 W;  1W2B V;  1YHQ W;  5DM7 W;  5GAG a;  4WFA W;  5JVH W;  1M1K X;  1VQ4 W;  3DLL W;  3CCV W;  1VQP W;  5GAD a;  1YJW W;  1VQO W;  3I55 W;  1QVF V;  3CF5 W;  3CMA W;  3CCM W;  1Q7Y X;  1VQ6 W;  1YJ9 W;  4IOA W;  5HL7 W;  4IO9 W;  1S72 W;  3PIO W;  4WFN W;  1K8A X;  3CCU W;  1VQN W;  3CCQ W;  2OTJ W;  1VQM W;  1Q86 X;  4WF9 W;  1Q81 X;  3OW2 V;  3CCS W;  4WFB W;  1VQ7 W;  2ZJR W;  1KD1 X;  4C1N A;  2OTL W;  1VQK W;  3PIP W;  3CD6 W;  1K9M X;  1KC8 X;  3CC4 W;  3CCL W;  5GAE a;  2QA4 W;  1N8R X;  3G6E W;  3CCE W;  3CPW V;  1VQL W;  3CME W;  3CCR W;  3G71 W;  1K73 X;  4WCE W;  1VQ9 W;  5DM6 W;  2ZJQ W;  1Q82 X;  1YI2 W;  3CCJ W;  1VQ5 W;  5JVG W;  1YJN W;  1M90 X; 
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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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