1NJIX

Structure of chloramphenicol bound to the 50s ribosomal subunit
Total Genus 49

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
49
sequence length
154
structure length
154
Chain Sequence
MHALVQLRGEVNMHTDIQDTLEMLNIHHVNHCTLVPETDAYRGMVAKVNDFVAFGEPSQETLETVLATRAEPLEGDADVDDEWVAEHTDYDDISGLAFALLSEETTLREQGLSPTLRLHPPRGGHDGVKHPVKEGGQLGKHDTEGIDDLLEAMR

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
EMPTYS1 (2-6)TII2 (28-31)TII1 (10-13)AH1 (15-24)AH2 (39-48)S2 (31-35)S6 (115-117)S3 (52-55)AH3 (59-69)AH6 (143-153)S4 (71-72)S5 (112-113)TVIII1 (72-75)AH4 (81-86)AH5 (93-102)TII3 (121-124)TI1 (48-51)S7 (139-140)TIV2 (127-130)3H2 (132-134)3H1 (108-110)Updating...
connected with : NaN
molecule tags Ribosome
publication title Structures of Five Antibiotics Bound at the Peptidyl Transferase Center of the Large Ribosomal Subunit
pubmed doi rcsb
molecule keywords 23S ribosomal RNA
total genus 49
structure length 154
sequence length 154
ec nomenclature
pdb deposition date 2002-12-31

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
X 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 1njiX02
3.30.1390.20 Alpha Beta 2-Layer Sandwich Ribosomal Protein L30; Chain: A, Ribosomal protein L30, ferredoxin-like fold domain 1njiX01
1VQKW 1YIJW 4IO9W 3J7ZZ 3PIPW 3CCLW 3CCEW 3CCUW 5JVHW 3CMAW 3CF5W 1VQ5W 3I56W 3CC7W 1KQSV 1Q82X 1Q81X 2ZJPW 1N8RX 1QVGV 3CCJW 5GAGa 3CCQW 2QA4W 5HL7W 4UY8Z 4WFBW 3PIOW 1K8AX 1VQ9W 4WFAW 1KC8X 4IOAW 3CCRW 1VQ6W 3G4SW 1YJWW 1VQLW 1KD1X 5DM7W 1M90X 3CPWV 3CD6W 1W2BV 5GAHa 2OTLW 1Q86X 1VQMW 1YHQW 1VQPW 4WCEW 1QVFV 4IOCW 3I55W 5GAEa 4WF9W 3CC2W 1BXYA 3CCMW 2ZJQW 3OW2V 2ZJRW 3CMEW 1VQ8W 3G71W 3CXCV 1YJNW 3DLLW 1YITW 1VQ7W 1K73X 1VQNW 5DM6W 3CCSW 1YI2W 1S72W 4U67W 1NJIX 1YJ9W 5GADa 2OTJW 3CCVW 1JJ2V 1M1KX 1K9MX 1Q7YX 2QEXW 1VQ4W 1VQOW 5JVGW 3CC4W 4WFNW 3G6EW
chains in the Genus database with same CATH superfamily
4YJXA 1VQKW 4CPKA 1YIJW 4IO9W 3J7ZZ 3PIPW 3G3PA 1MBUC 3GW1A 3CCLW 3D3IA 3CCEW 3CCUW 5JVHW 3W7TA 3CMAW 3CF5W 4YKAA 3G19A 1VQ5W 3I56W 3CC7W 4C1NA 1KQSV 1RQUA 1Q82X 4DKIA 1Q81X 2ZJPW 5CA3A 3O1FB 1CTFA 1N8RX 1QVGV 3CCJW 5GAGa 3W7XA 1R6QC 3CCQW 3GQ1A 2QA4W 5HL7W 4UY8Z 1MWRA 1RQSA 4WFBW 3PIOW 1K8AX 1VQ9W 3GQ0A 3O2OA 3ZG5A 1KC8X 4WFAW 3O2HA 4IOAW 3CCRW 5M19A 5M18A 1VQ6W 3G4SW 1YJWW 1VQLW 1KD1X 5DM7W 1M90X 3CPWV 3W7WA 3CD6W 1W2BV 5GAHa 2OTLW 1Q86X 1VQMW 3ZG0A 1YHQW 1RQVA 1VQPW 4BL2A 3O1FA 4WCEW 1QVFV 4IOCW 3I55W 5GAEa 1DD3A 4WF9W 3O2BA 1R6OC 3DNJA 3CC2W 1BXYA 3CCMW 2ZJQW 3OW2V 2ZJRW 3CMEW 4CJNA 3ZFZA 1VQ8W 3G71W 3CXCV 1YJNW 3DLLW 2WA9A 1YITW 1VQ7W 4BL3A 1DD4A 2WA8A 1K73X 1VQNW 1MWTA 5DM6W 3CCSW 2W9RA 1YI2W 1S72W 3W7UA 4U67W 1NJIX 1VQQA 1YJ9W 1LZWA 5GADa 2OTJW 3CCVW 1JJ2V 5M1AA 1M1KX 3W7SA 1MG9A 3G1BA 1MWUA 4YJMA 1K9MX 1Q7YX 2QEXW 1VQ4W 1VQOW 1MWSA 5JVGW 1MBVB 3CC4W 5GW7A 4WFNW 1MBXC 3G6EW
chains in the Genus database with same CATH topology
1VQKW 1YIJW 4IO9W 3J7ZZ 3PIPW 3CCLW 3CCEW 3CCUW 5JVHW 3CMAW 3CF5W 1VQ5W 3I56W 3CC7W 4C1NA 1KQSV 1Q82X 1Q81X 2ZJPW 1N8RX 1QVGV 3CCJW 5GAGa 3CCQW 2QA4W 5HL7W 4UY8Z 4WFBW 3PIOW 1K8AX 1VQ9W 4WFAW 1KC8X 4IOAW 3CCRW 1VQ6W 3G4SW 1YJWW 1VQLW 1KD1X 5DM7W 1M90X 3CPWV 3CD6W 1W2BV 5GAHa 2OTLW 1Q86X 1VQMW 1YHQW 1VQPW 4WCEW 1QVFV 4IOCW 3I55W 5GAEa 4WF9W 3CC2W 1BXYA 3CCMW 2ZJQW 3OW2V 2ZJRW 3CMEW 1VQ8W 3G71W 3CXCV 1YJNW 3DLLW 1YITW 1VQ7W 1K73X 1VQNW 5DM6W 3CCSW 1YI2W 1S72W 4U67W 1NJIX 1YJ9W 5GADa 2OTJW 3CCVW 1JJ2V 1M1KX 1K9MX 1Q7YX 2QEXW 1VQ4W 1VQOW 5JVGW 3CC4W 4WFNW 3G6EW
chains in the Genus database with same CATH homology

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