3CCQ | Genus

Total Genus 50

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	50
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

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Viewer cachePut cache://localLOAD_/file/5d188b390e0d33ed108afc5c/pdb.gz

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The Resolver thinks Pdb

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Time for openFile(/file/5d188b390e0d33ed108afc5c/pdb.gz): 1395 ms

reading 154 atoms

ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false

1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.

Default Van der Waals type for model set to Jmol

154 atoms created

ModelSet: autobonding; use autobond=false to not generate bonds automatically

Time for creating model: 19 ms

Adding embedded #jmolscript: select ({0:153});backbone only;select *;

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	Mutations outside the anisomycin-binding site can make ribosomes drug-resistant. pubmed doi rcsb
molecule keywords	50S ribosomal protein L2P
total genus	50
structure length	154
sequence length	154
ec nomenclature
pdb deposition date	2008-02-26

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	3ccqW02
3.30.1390.20	Alpha Beta	2-Layer Sandwich	Ribosomal Protein L30; Chain: A,	Ribosomal protein L30, ferredoxin-like fold domain	3ccqW01

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

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

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

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

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations