1VQ9 | Genus

Total Genus 52

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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	52
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

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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

molecule tags	Ribosome
publication title	Structural Insights into the Roles of Water and the 2' Hydroxyl of the P Site tRNA in the Peptidyl Transferase Reaction. pubmed doi rcsb
molecule keywords	23S ribosomal rna
total genus	52
structure length	154
sequence length	154
ec nomenclature
pdb deposition date	2004-12-16

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	Class	Architecture	Topology	Homology	Domain
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	1vq9W02
3.30.1390.20	Alpha Beta	2-Layer Sandwich	Ribosomal Protein L30; Chain: A,	Ribosomal protein L30, ferredoxin-like fold domain	1vq9W01

3CCEW 1VQNW 3G6EW 1VQ5W 4WFAW 4IO9W 1VQKW 1QVGV 3PIPW 1Q7YX 1BXYA 2ZJQW 1VQPW 3CCMW 4UY8Z 1VQOW 1VQ6W 1NJIX 1YITW 1VQMW 1KC8X 1VQ4W 1N8RX 2OTJW 3CCRW 3CXCV 3G4SW 3I56W 3J7ZZ 4WFBW 4IOCW 3OW2V 1YI2W 4WCEW 5JVHW 1QVFV 5GAGa 5DM6W 1YHQW 1M90X 3G71W 1YJWW 4IOAW 2QA4W 1VQ9W 5GAEa 2ZJPW 1M1KX 1VQ7W 1W2BV 2ZJRW 1Q82X 3CC7W 3CC4W 3CCVW 3I55W 3CCLW 1YJNW 3CCUW 3DLLW 1YJ9W 5GADa 1JJ2V 3CCSW 1VQ8W 2OTLW 4WFNW 1KD1X 4U67W 5JVGW 1Q81X 3CCQW 1S72W 3CMAW 1YIJW 3CPWV 5DM7W 1K8AX 1K73X 1KQSV 3PIOW 3CD6W 1Q86X 5HL7W 3CC2W 1K9MX 1VQLW 3CCJW 5GAHa 4WF9W 3CF5W 3CMEW 2QEXW
chains in the Genus database with same CATH superfamily

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

3CCEW 1VQNW 3G6EW 1VQ5W 4WFAW 4IO9W 1VQKW 1QVGV 3PIPW 1Q7YX 4C1NA 1BXYA 2ZJQW 1VQPW 3CCMW 4UY8Z 1VQOW 1VQ6W 1NJIX 1YITW 1VQMW 1KC8X 1VQ4W 1N8RX 2OTJW 3CCRW 3CXCV 3G4SW 3I56W 3J7ZZ 4WFBW 4IOCW 3OW2V 1YI2W 4WCEW 5JVHW 1QVFV 5GAGa 5DM6W 1YHQW 1M90X 3G71W 1YJWW 4IOAW 2QA4W 1VQ9W 5GAEa 2ZJPW 1M1KX 1VQ7W 1W2BV 2ZJRW 1Q82X 3CC7W 3CC4W 3CCVW 3I55W 3CCLW 1YJNW 3CCUW 3DLLW 1YJ9W 5GADa 1JJ2V 3CCSW 1VQ8W 2OTLW 4WFNW 1KD1X 4U67W 5JVGW 1Q81X 3CCQW 1S72W 3CMAW 1YIJW 3CPWV 5DM7W 1K8AX 1K73X 1KQSV 3PIOW 3CD6W 1Q86X 5HL7W 3CC2W 1K9MX 1VQLW 3CCJW 5GAHa 4WF9W 3CF5W 3CMEW 2QEXW
chains in the Genus database with same CATH homology

#chains in the Genus database with same CATH superfamily
 3CCE W;  1VQN W;  3G6E W;  1VQ5 W;  4WFA W;  4IO9 W;  1VQK W;  1QVG V;  3PIP W;  1Q7Y X;  1BXY A;  2ZJQ W;  1VQP W;  3CCM W;  4UY8 Z;  1VQO W;  1VQ6 W;  1NJI X;  1YIT W;  1VQM W;  1KC8 X;  1VQ4 W;  1N8R X;  2OTJ W;  3CCR W;  3CXC V;  3G4S W;  3I56 W;  3J7Z Z;  4WFB W;  4IOC W;  3OW2 V;  1YI2 W;  4WCE W;  5JVH W;  1QVF V;  5GAG a;  5DM6 W;  1YHQ W;  1M90 X;  3G71 W;  1YJW W;  4IOA W;  2QA4 W;  1VQ9 W;  5GAE a;  2ZJP W;  1M1K X;  1VQ7 W;  1W2B V;  2ZJR W;  1Q82 X;  3CC7 W;  3CC4 W;  3CCV W;  3I55 W;  3CCL W;  1YJN W;  3CCU W;  3DLL W;  1YJ9 W;  5GAD a;  1JJ2 V;  3CCS W;  1VQ8 W;  2OTL W;  4WFN W;  1KD1 X;  4U67 W;  5JVG W;  1Q81 X;  3CCQ W;  1S72 W;  3CMA W;  1YIJ W;  3CPW V;  5DM7 W;  1K8A X;  1K73 X;  1KQS V;  3PIO W;  3CD6 W;  1Q86 X;  5HL7 W;  3CC2 W;  1K9M X;  1VQL W;  3CCJ W;  5GAH a;  4WF9 W;  3CF5 W;  3CME W;  2QEX W; 
#chains in the Genus database with same CATH topology
 3CCE W;  1VQN W;  3G6E W;  1VQ5 W;  3O2B A;  3ZFZ A;  4WFA W;  4IO9 W;  2WA9 A;  1MWT A;  4YKA A;  1DD3 A;  1VQK W;  1QVG V;  3PIP W;  1Q7Y X;  4C1N A;  1BXY A;  5M19 A;  2ZJQ W;  1VQP W;  3CCM W;  4CJN A;  4UY8 Z;  1VQO W;  1VQ6 W;  4BL2 A;  1NJI X;  3G19 A;  1MBV B;  1MWU A;  1YIT W;  4CPK A;  1MG9 A;  3W7T A;  1VQM W;  1KC8 X;  1VQ4 W;  1N8R X;  3O1F A;  2OTJ W;  3CCR W;  3CXC V;  3G3P A;  1MBU C;  3O2H A;  3G4S W;  3D3I A;  3I56 W;  1CTF A;  3O2O A;  3J7Z Z;  4WFB W;  4IOC W;  3W7W A;  3OW2 V;  1YI2 W;  4WCE W;  5JVH W;  1QVF V;  1RQV A;  4YJM A;  5GAG a;  5DM6 W;  1YHQ W;  1M90 X;  3G71 W;  4YJX A;  1YJW W;  4IOA W;  2W9R A;  3GQ0 A;  2QA4 W;  1LZW A;  1VQ9 W;  5GAE a;  2ZJP W;  1M1K X;  1VQ7 W;  3ZG0 A;  1W2B V;  1RQU A;  2ZJR W;  4DKI A;  1VQQ A;  3DNJ A;  1Q82 X;  3CC7 W;  3CC4 W;  3CCV W;  2WA8 A;  1RQS A;  5GW7 A;  3I55 W;  3CCL W;  3W7X A;  1YJN W;  1MWS A;  3ZG5 A;  3CCU W;  5M1A A;  3DLL W;  1YJ9 W;  5GAD a;  1JJ2 V;  3CCS W;  1VQ8 W;  1DD4 A;  2OTL W;  3GW1 A;  5CA3 A;  4WFN W;  1KD1 X;  1MWR A;  3W7S A;  4U67 W;  5JVG W;  1Q81 X;  3CCQ W;  1S72 W;  1MBX C;  3CMA W;  1YIJ W;  3CPW V;  3W7U A;  5DM7 W;  1K8A X;  1K73 X;  4BL3 A;  1KQS V;  3PIO W;  3CD6 W;  1Q86 X;  5HL7 W;  3CC2 W;  5M18 A;  3G1B A;  1K9M X;  3GQ1 A;  1VQL W;  3CCJ W;  1R6Q C;  5GAH a;  4WF9 W;  3CF5 W;  3CME W;  3O1F B;  2QEX W;  1R6O C; 
#chains in the Genus database with same CATH homology
 3CCE W;  1VQN W;  3G6E W;  1VQ5 W;  4WFA W;  4IO9 W;  1VQK W;  1QVG V;  3PIP W;  1Q7Y X;  4C1N A;  1BXY A;  2ZJQ W;  1VQP W;  3CCM W;  4UY8 Z;  1VQO W;  1VQ6 W;  1NJI X;  1YIT W;  1VQM W;  1KC8 X;  1VQ4 W;  1N8R X;  2OTJ W;  3CCR W;  3CXC V;  3G4S W;  3I56 W;  3J7Z Z;  4WFB W;  4IOC W;  3OW2 V;  1YI2 W;  4WCE W;  5JVH W;  1QVF V;  5GAG a;  5DM6 W;  1YHQ W;  1M90 X;  3G71 W;  1YJW W;  4IOA W;  2QA4 W;  1VQ9 W;  5GAE a;  2ZJP W;  1M1K X;  1VQ7 W;  1W2B V;  2ZJR W;  1Q82 X;  3CC7 W;  3CC4 W;  3CCV W;  3I55 W;  3CCL W;  1YJN W;  3CCU W;  3DLL W;  1YJ9 W;  5GAD a;  1JJ2 V;  3CCS W;  1VQ8 W;  2OTL W;  4WFN W;  1KD1 X;  4U67 W;  5JVG W;  1Q81 X;  3CCQ W;  1S72 W;  3CMA W;  1YIJ W;  3CPW V;  5DM7 W;  1K8A X;  1K73 X;  1KQS V;  3PIO W;  3CD6 W;  1Q86 X;  5HL7 W;  3CC2 W;  1K9M X;  1VQL W;  3CCJ W;  5GAH a;  4WF9 W;  3CF5 W;  3CME W;  2QEX 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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1VQ9W

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations