2OG6 | Genus

Total Genus 101

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	101
sequence length	323
structure length	323
Chain Sequence	SRYDVTLDQSDAELVEEIAWKLATQATGRPDDAEWVEAARNAWHAWPATLRRDLAGFRRDSGPDGAIVLRGLPVDSMGLPPTPRVNGSVQREASLGAAVLLMTACGLGDPGAFLPEKNGALVQDVVPVPGMEEFQGNAGSTLLTFHNENAFHEHRPDFVMLLCLRADPTGRAGLRTACVRRVLPLLSDSTVDALWAPEFRTAPPPSFQLSGPEEAPAPVLLGDRSDPDLRVDLAATEPVTERAAEALRELQAHFDATAVTHRLLPGELAIVDNRVTVHGRTEFTPRYDGTDRWLQRTFVLTDLRRSRAMRPADGYVLGAAPQP

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

loadScript /static/js/j2s/core/package.js

loadScript /static/js/j2s/core/corejmol.z.js

loadScript /static/js/j2s/core/corescript.z.js

JSmol exec jmolApplet0 start applet null

Jmol JavaScript applet jmolApplet0__1589589378287588__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jmolApplet0__1589589378287588__)

vwrOptions:

{ "name":"jmolApplet0","applet":true,"documentBase":"https://genus.fuw.edu.pl/view/2OG6/A/","platform":"J.awtjs2d.Platform","fullName":"jmolApplet0__1589589378287588__","codePath":"https:/static/js/j2s/","display":"jmolApplet0_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"1589589378287588","bgcolor":"white" }

setting document base to "https://genus.fuw.edu.pl/view/2OG6/A/"

Jmol Version: 14.29.13 2018-04-17 17:17

java.vendor: Java2Script (HTML5)

java.version: 2018-01-28 23:38:52 (JSmol/j2s)

os.name: Mozilla/5.0 AppleWebKit/537.36 (KHTML, like Gecko; compatible; ClaudeBot/1.0; +claudebot@anthropic.com)

Access: ALL

memory: 0.0/0.0

processors available: 1

useCommandThread: false

appletId:jmolApplet0 (signed)

Jmol getValue emulate null

defaults = "Jmol"

Jmol getValue boxbgcolor null

Jmol getValue bgcolor white

backgroundColor = "white"

Jmol getValue ANIMFRAMECallback null

Jmol getValue APPLETREADYCallback Jmol._readyCallback

APPLETREADYCallback = "Jmol._readyCallback"

callback set for APPLETREADYCallback Jmol._readyCallback APPLETREADY

Jmol getValue ATOMMOVEDCallback null

Jmol getValue AUDIOCallback null

Jmol getValue CLICKCallback null

Jmol getValue DRAGDROPCallback null

Jmol getValue ECHOCallback null

Jmol getValue ERRORCallback null

Jmol getValue EVALCallback null

Jmol getValue HOVERCallback null

Jmol getValue IMAGECallback null

Jmol getValue LOADSTRUCTCallback null

Jmol getValue MEASURECallback null

Jmol getValue MESSAGECallback null

Jmol getValue MINIMIZATIONCallback null

Jmol getValue SERVICECallback null

Jmol getValue PICKCallback null

Jmol getValue RESIZECallback null

Jmol getValue SCRIPTCallback null

Jmol getValue SYNCCallback null

Jmol getValue STRUCTUREMODIFIEDCallback null

Jmol getValue doTranslate null

language=en_US

Jmol getValue popupMenu null

Jmol getValue script null

Jmol getValue loadInline null

Jmol getValue load null

Jmol applet jmolApplet0__1589589378287588__ ready

script 1 started

platformSpeed = 8

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	Oxidoreductase, electron transport
source organism	Streptomyces coelicolor a3(2)
publication title	Mechanistic and structural basis of stereospecific Cbeta-hydroxylation in calcium-dependent antibiotic, a daptomycin-type lipopeptide pubmed doi rcsb
molecule keywords	asparagine oxygenase
total genus	101
structure length	323
sequence length	323
ec nomenclature	ec 1.14.11.39: L-asparagine oxygenase.
pdb deposition date	2007-01-05

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF02668	TauD	Taurine catabolism dioxygenase TauD, TfdA family

Image from the rcsb pdb (www.rcsb.org)

cath code	Class	Architecture	Topology	Homology	Domain
3.60.130.10	Alpha Beta	4-Layer Sandwich	Double-stranded beta-helix	Clavaminate synthase-like	2og6A00

4FFAA 1VZ4A 1DS1A 4CWDA 1OIJC 4M23A 3V15A 2OG5A 2R6SA 4J5IA 4YLMX 3EATX 4M26A 1GY9A 4M25A 4Y0EA 1DS0A 4M2EA 4BHIA 1VZ5A 2Q4AA 2WBPA 3V17A 4BHFA 3MS5A 5KEUA 1NX8A 4BG1A 4C8RA 2OG6A 5HSXA 3PVJA 1NX4A 1OIJB 1OIHA 1OS7A 1Y0ZA 1DRTA 4CVYA 5J92A 3O2GA 1GVGA 4OJ8A 3N6WA 4M2FA 1OIKA 2WBOA 4M27A 1OTJA 3SWTA 1JR7A 1OIIA 1DRYA 1GQWA 4C5WA 4BHGA 3R1JA 1OIJA 4BGMA 2WBQA 2OG7A 4NE0A 4M2IA 4M2CA 4BGKA 4M2GA
chains in the Genus database with same CATH superfamily

4FFAA 1VZ4A 1DS1A 4CWDA 1OIJC 4M23A 3V15A 2OG5A 2R6SA 4J5IA 4YLMX 3EATX 4M26A 1PG6A 1GY9A 4M25A 4Y0EA 1DS0A 4M2EA 4BHIA 1VZ5A 2Q4AA 2WBPA 3V17A 4BHFA 1YOXA 3MS5A 5KEUA 1NX8A 4BG1A 4C8RA 2OG6A 5HSXA 3PVJA 1NX4A 1OIJB 1OIHA 1OS7A 1Y0ZA 1DRTA 4CVYA 5J92A 3O2GA 1GVGA 4OJ8A 3N6WA 4M2FA 1OIKA 2WBOA 4M27A 1OTJA 3SWTA 1JR7A 1OIIA 1DRYA 1GQWA 4C5WA 4BHGA 3R1JA 1OIJA 4BGMA 2WBQA 2OG7A 4NE0A 4M2IA 4M2CA 4BGKA 4M2GA
chains in the Genus database with same CATH topology

1VZ4A 4YLMX 2R6SA 1DS0A 1VZ5A 1H2LA 2Q4AA 4BHFA 2W0XA 5KEUA 1NX8A 1H2NA 3PVJA 1NX4A 1OIJB 1OS7A 5JWPA 2WA4A 2YDEA 3R1JA 4BGMA 4NE0A 4CWDA 1MZFA 4J5IA 3EATX 4Y0EA 2WBPA 2WA3A 1OIHA 1DRTA 3O2GA 4NR1A 1GVGA 4M2FA 1JR7A 2CGOA 1GQWA 1H2KA 4M2CA 4BGKA 4B7EA 1OIJC 2YC0A 4M23A 2OG5A 4Z1VA 4M26A 4M25A 4M2EA 3OD4A 1YCIA 3V17A 4AI8A 3D8CA 2OG6A 3P3NA 3KCYA 4CVYA 5J92A 4JAAA 4OJ8A 3N6WA 4B7KA 2CGNA 1MZEA 1H2MA 2WBOA 2OG7A 4M2IA 4BHGA 4M2GA 4FFAA 1DS1A 3V15A 1GY9A 4BHIA 2XUMA 4BIOA 1IZ3A 4Z2WA 3MS5A 3P3PA 4BG1A 5HSXA 3KCXA 1Y0ZA 4M27A 3SWTA 1OIKA 1OTJA 1OIIA 1DRYA 4C5WA 1OIJA 2WBQA 4C8RA 2ILMA 2Y0IA
chains in the Genus database with same CATH homology

#chains in the Genus database with same CATH superfamily
 4FFA A;  1VZ4 A;  1DS1 A;  4CWD A;  1OIJ C;  4M23 A;  3V15 A;  2OG5 A;  2R6S A;  4J5I A;  4YLM X;  3EAT X;  4M26 A;  1GY9 A;  4M25 A;  4Y0E A;  1DS0 A;  4M2E A;  4BHI A;  1VZ5 A;  2Q4A A;  2WBP A;  3V17 A;  4BHF A;  3MS5 A;  5KEU A;  1NX8 A;  4BG1 A;  4C8R A;  2OG6 A;  5HSX A;  3PVJ A;  1NX4 A;  1OIJ B;  1OIH A;  1OS7 A;  1Y0Z A;  1DRT A;  4CVY A;  5J92 A;  3O2G A;  1GVG A;  4OJ8 A;  3N6W A;  4M2F A;  1OIK A;  2WBO A;  4M27 A;  1OTJ A;  3SWT A;  1JR7 A;  1OII A;  1DRY A;  1GQW A;  4C5W A;  4BHG A;  3R1J A;  1OIJ A;  4BGM A;  2WBQ A;  2OG7 A;  4NE0 A;  4M2I A;  4M2C A;  4BGK A;  4M2G A; 
#chains in the Genus database with same CATH topology
 4FFA A;  1VZ4 A;  1DS1 A;  4CWD A;  1OIJ C;  4M23 A;  3V15 A;  2OG5 A;  2R6S A;  4J5I A;  4YLM X;  3EAT X;  4M26 A;  1PG6 A;  1GY9 A;  4M25 A;  4Y0E A;  1DS0 A;  4M2E A;  4BHI A;  1VZ5 A;  2Q4A A;  2WBP A;  3V17 A;  4BHF A;  1YOX A;  3MS5 A;  5KEU A;  1NX8 A;  4BG1 A;  4C8R A;  2OG6 A;  5HSX A;  3PVJ A;  1NX4 A;  1OIJ B;  1OIH A;  1OS7 A;  1Y0Z A;  1DRT A;  4CVY A;  5J92 A;  3O2G A;  1GVG A;  4OJ8 A;  3N6W A;  4M2F A;  1OIK A;  2WBO A;  4M27 A;  1OTJ A;  3SWT A;  1JR7 A;  1OII A;  1DRY A;  1GQW A;  4C5W A;  4BHG A;  3R1J A;  1OIJ A;  4BGM A;  2WBQ A;  2OG7 A;  4NE0 A;  4M2I A;  4M2C A;  4BGK A;  4M2G A; 
#chains in the Genus database with same CATH homology
 1VZ4 A;  4YLM X;  2R6S A;  1DS0 A;  1VZ5 A;  1H2L A;  2Q4A A;  4BHF A;  2W0X A;  5KEU A;  1NX8 A;  1H2N A;  3PVJ A;  1NX4 A;  1OIJ B;  1OS7 A;  5JWP A;  2WA4 A;  2YDE A;  3R1J A;  4BGM A;  4NE0 A;  4CWD A;  1MZF A;  4J5I A;  3EAT X;  4Y0E A;  2WBP A;  2WA3 A;  1OIH A;  1DRT A;  3O2G A;  4NR1 A;  1GVG A;  4M2F A;  1JR7 A;  2CGO A;  1GQW A;  1H2K A;  4M2C A;  4BGK A;  4B7E A;  1OIJ C;  2YC0 A;  4M23 A;  2OG5 A;  4Z1V A;  4M26 A;  4M25 A;  4M2E A;  3OD4 A;  1YCI A;  3V17 A;  4AI8 A;  3D8C A;  2OG6 A;  3P3N A;  3KCY A;  4CVY A;  5J92 A;  4JAA A;  4OJ8 A;  3N6W A;  4B7K A;  2CGN A;  1MZE A;  1H2M A;  2WBO A;  2OG7 A;  4M2I A;  4BHG A;  4M2G A;  4FFA A;  1DS1 A;  3V15 A;  1GY9 A;  4BHI A;  2XUM A;  4BIO A;  1IZ3 A;  4Z2W A;  3MS5 A;  3P3P A;  4BG1 A;  5HSX A;  3KCX A;  1Y0Z A;  4M27 A;  3SWT A;  1OIK A;  1OTJ A;  1OII A;  1DRY A;  4C5W A;  1OIJ A;  2WBQ A;  4C8R A;  2ILM A;  2Y0I A;

...loading similar chains, please wait...
similar chains in the Genus database (?% sequence similarity)

...loading similar chains, please wait...
similar chains in the pdb database (?% sequence similarity)

#similar chains in the Genus database (?% sequence similarity)
...loading similar chains, please wait...
#similar chains, but unknotted
...loading similar chains, please wait...
#similar chains in the pdb database (?% sequence similarity)
...loading similar chains, please wait...

2OG6A

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations