1YJNW

Crystal structure of clindamycin bound to the g2099a mutant 50s ribosomal subunit of haloarcula marismortui
Total Genus 45
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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
45
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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publication title Structures of MLSBK antibiotics bound to mutated large ribosomal subunits provide a structural explanation for resistance.
pubmed doi rcsb
molecule tags Ribosome
molecule keywords 23S Ribosomal RNA
total genus 45
structure length 154
sequence length 154
ec nomenclature
pdb deposition date 2005-01-14

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 1yjnW02
3.30.1390.20 Alpha Beta 2-Layer Sandwich Ribosomal Protein L30; Chain: A, Ribosomal protein L30, ferredoxin-like fold domain 1yjnW01
3PIOW 3G71W 3CPWV 3CCJW 5GAEa 1VQLW 1VQ4W 1YITW 3CCVW 3OW2V 1VQ8W 5GAHa 1VQ5W 3CCRW 3CCUW 1QVGV 5DM7W 5HL7W 1N8RX 2QA4W 3G6EW 3J7ZZ 4IOAW 3CC2W 3CCMW 1YJWW 1VQ6W 5GADa 1KD1X 3CXCV 1VQ7W 1M1KX 3I55W 1VQMW 1VQ9W 3CCLW 4WFNW 3CCEW 1NJIX 3CCQW 5DM6W 5JVHW 3CF5W 1VQNW 1S72W 1Q81X 2OTLW 1KQSV 3CC7W 1YHQW 3CC4W 1K8AX 3G4SW 3PIPW 4WF9W 1K9MX 1QVFV 1VQKW 2QEXW 3I56W 4IO9W 1VQOW 2ZJRW 2ZJPW 1Q82X 3CD6W 1Q86X 1YI2W 1YJNW 1YJ9W 1BXYA 4WFAW 2OTJW 1W2BV 4WFBW 3CMAW 4WCEW 1YIJW 1KC8X 5JVGW 3CMEW 4IOCW 3CCSW 3DLLW 4U67W 1K73X 2ZJQW 4UY8Z 1M90X 5GAGa 1JJ2V 1VQPW 1Q7YX
chains in the Genus database with same CATH superfamily
3PIOW 3G71W 3CPWV 4YJMA 3GW1A 3CCJW 5GAEa 1VQLW 1VQ4W 1YITW 3CCVW 3ZG0A 3OW2V 1VQ8W 5GAHa 1VQ5W 3CCRW 1R6OC 1RQVA 3CCUW 1QVGV 4YJXA 5DM7W 5HL7W 1N8RX 2QA4W 3G6EW 4CPKA 3J7ZZ 4IOAW 3CC2W 3G1BA 5M19A 4BL3A 3CCMW 5M18A 1YJWW 1VQ6W 5GADa 1KD1X 3CXCV 1VQ7W 1M1KX 3G3PA 1MG9A 3I55W 1RQSA 1VQMW 1VQ9W 5GW7A 3W7WA 3CCLW 4WFNW 3CCEW 1NJIX 3CCQW 5DM6W 4YKAA 1MBVB 1MWSA 1RQUA 5JVHW 3CF5W 1VQNW 3GQ0A 3O2BA 3O1FB 1S72W 1Q81X 2OTLW 1KQSV 3CC7W 1YHQW 1CTFA 3D3IA 3CC4W 1MBUC 2WA9A 1K8AX 3G4SW 3PIPW 4WF9W 1DD3A 1K9MX 1QVFV 1MWUA 1VQKW 3O2OA 3W7TA 2QEXW 3I56W 4IO9W 1VQOW 2ZJRW 2W9RA 3W7SA 3O2HA 3W7XA 4C1NA 1R6QC 2ZJPW 4CJNA 1Q82X 3CD6W 1Q86X 1YI2W 1YJNW 1YJ9W 1BXYA 4WFAW 2OTJW 5M1AA 1VQQA 1W2BV 1DD4A 3W7UA 1LZWA 1MWTA 4WFBW 4DKIA 3CMAW 3G19A 3ZFZA 4WCEW 3DNJA 5CA3A 3O1FA 1YIJW 1KC8X 5JVGW 3GQ1A 3CMEW 4IOCW 1MBXC 4BL2A 3CCSW 3DLLW 4U67W 1K73X 2WA8A 2ZJQW 4UY8Z 1M90X 5GAGa 1JJ2V 1MWRA 1VQPW 1Q7YX 3ZG5A
chains in the Genus database with same CATH topology
3PIOW 3G71W 3CPWV 3CCJW 5GAEa 1VQLW 1VQ4W 1YITW 3CCVW 3OW2V 1VQ8W 5GAHa 1VQ5W 3CCRW 3CCUW 1QVGV 5DM7W 5HL7W 1N8RX 2QA4W 3G6EW 3J7ZZ 4IOAW 3CC2W 3CCMW 1YJWW 1VQ6W 5GADa 1KD1X 3CXCV 1VQ7W 1M1KX 3I55W 1VQMW 1VQ9W 3CCLW 4WFNW 3CCEW 1NJIX 3CCQW 5DM6W 5JVHW 3CF5W 1VQNW 1S72W 1Q81X 2OTLW 1KQSV 3CC7W 1YHQW 3CC4W 1K8AX 3G4SW 3PIPW 4WF9W 1K9MX 1QVFV 1VQKW 2QEXW 3I56W 4IO9W 1VQOW 2ZJRW 4C1NA 2ZJPW 1Q82X 3CD6W 1Q86X 1YI2W 1YJNW 1YJ9W 1BXYA 4WFAW 2OTJW 1W2BV 4WFBW 3CMAW 4WCEW 1YIJW 1KC8X 5JVGW 3CMEW 4IOCW 3CCSW 3DLLW 4U67W 1K73X 2ZJQW 4UY8Z 1M90X 5GAGa 1JJ2V 1VQPW 1Q7YX
chains in the Genus database with same CATH homology


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