3DSE | Genus

Total Genus 123

Loading diagram...

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	123
sequence length	416
structure length	394
Chain Sequence	PFVNKQFNYKDPVNGVDIAYIKIPNAGQMQPVKAFKIHNKIWVIPERDTFTNPEEGDLNPPPEAKQVPVSYYDSTYLSTDNEKDNYLKGVTKLFERIYSTDLGRMLLTSIVRGIPFWGGSTIDTELKVIDTNCINVIQPDGSYRSEELNLVIIGPSADIIQFECKSFGHEVLNLTRNGYGSTQYIRFSPDFTFGFEEGAGKFATDPAVTLAHELIHAGHRLYGIAINPNRVFKEVSFEELRTFGGHDAKFIDSLQENEFRLYYYNKFKDIASTLNKAKSIVGTTASLQYMKNVFKEKYLLSEDTSGKFSVDKLKFDKLYKMLTEIYTEDNFVKFFKVLNRKTYLNFDKAVFKINIVPKVNYTIYDGFNLRNTNLAANFNGQNTEINNMNFTKLK

Loading diagram...

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__0239570750315106__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jmolApplet0__0239570750315106__)

vwrOptions:

{ "name":"jmolApplet0","applet":true,"documentBase":"https://genus.fuw.edu.pl/view/3DSE/A/","platform":"J.awtjs2d.Platform","fullName":"jmolApplet0__0239570750315106__","codePath":"https:/static/js/j2s/","display":"jmolApplet0_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"0239570750315106","bgcolor":"white" }

setting document base to "https://genus.fuw.edu.pl/view/3DSE/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__0239570750315106__ 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	Hydrolase
source organism	Clostridium botulinum
publication title	A Potent Peptidomimetic Inhibitor of Botulinum Neurotoxin Serotype A Has a Very Different Conformation than SNAP-25 Substrate pubmed doi rcsb
molecule keywords	Botulinum neurotoxin type A
total genus	123
structure length	394
sequence length	416
ec nomenclature	ec 3.4.24.69: Bontoxilysin.
pdb deposition date	2008-07-11

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

cath code	Class	Architecture	Topology	Homology	Domain
3.90.1240.10	Alpha Beta	Alpha-Beta Complex	Zincin-like	Metalloproteases ("zincins"), catalytic domain like	3dseA00

1XTFA 3DEBA 3ZUQA 3DDBA 3QW8A 2ETFA 1F31A 2FPQA 3V0AB 4J1LA 1ZKXA 3QJ0A 2G7KA 2IMAA 2G7QA 4ZJXA 1ZL6A 3BWIA 1XTGA 3K3QB 3NF3A 1T3CA 3QW7A 1S0CA 2NZ9A 1ZN3A 1S0FA 2G7PA 3BONA 4ZKTB 3BOOA 4ELCA 1S0GA 3C8BA 1G9DA 3V0AA 2XHLA 3DS9A 3ZURA 2G7NA 1S0EA 3DDAA 3FIIA 3FFZA 5BQNA 3BOKA 2IMCA 2QN0A 2ISGA 2NP0A 3VUOA 1F82A 1I1EA 1ZB7A 3ZUSA 1T3AA 1ZKWA 4EJ5A 4HEVA 1S0BA 1ZL5A 2ISHA 1YVGA 1EPWA 1S0DA 3QIZA 3V0BB 3QW5A 3FIEA 3BTAA 4KTXA 3D3XA 3C88A 1Z7HA 2A97A 2ISEA 2ILPA 1G9BA 1G9CA 1E1HA 3QIXA 2NYYA 4KS6A 1G9AA 5BQMA 2IMBA 3DSEA 2W2DA 4KUFA 3QW6A 3C89A 4EL4A 3C8AA 3V0BA 2A8AA 3QIYA
chains in the Genus database with same CATH superfamily

1XTFA 3DEBA 3ZUQA 3DDBA 3QW8A 2ETFA 1F31A 2FPQA 3V0AB 4J1LA 1ZKXA 3QJ0A 2G7KA 2IMAA 2G7QA 4ZJXA 1ZL6A 3BWIA 1XTGA 3K3QB 3NF3A 1T3CA 3QW7A 1S0CA 2NZ9A 1ZN3A 1S0FA 3E11A 2G7PA 3BONA 4ZKTB 3BOOA 4ELCA 4JIUA 1S0GA 3C8BA 1G9DA 3V0AA 2XHLA 3DS9A 2EJQA 3ZURA 2G7NA 1S0EA 3DDAA 3FIIA 3FFZA 5BQNA 3BOKA 2IMCA 2QN0A 2ISGA 2NP0A 3VUOA 1F82A 1I1EA 1ZB7A 2YPTA 3ZUSA 1T3AA 1ZKWA 4EJ5A 4HEVA 1S0BA 1ZL5A 2ISHA 1YVGA 4JIXA 1EPWA 1S0DA 3QIZA 3V0BB 3CQBA 3QW5A 3FIEA 3BTAA 4KTXA 4QHFA 3D3XA 3C88A 1Z7HA 2A97A 2ISEA 2ILPA 1G9BA 1G9CA 1E1HA 3QIXA 2NYYA 4KS6A 1G9AA 2IMBA 3DSEA 4IL3A 5BQMA 4AW6A 2W2DA 3QW6A 4KUFA 3C89A 4EL4A 3C8AA 3V0BA 2A8AA 3QIYA
chains in the Genus database with same CATH topology

#chains in the Genus database with same CATH superfamily
 1XTF A;  3DEB A;  3ZUQ A;  3DDB A;  3QW8 A;  2ETF A;  1F31 A;  2FPQ A;  3V0A B;  4J1L A;  1ZKX A;  3QJ0 A;  2G7K A;  2IMA A;  2G7Q A;  4ZJX A;  1ZL6 A;  3BWI A;  1XTG A;  3K3Q B;  3NF3 A;  1T3C A;  3QW7 A;  1S0C A;  2NZ9 A;  1ZN3 A;  1S0F A;  2G7P A;  3BON A;  4ZKT B;  3BOO A;  4ELC A;  1S0G A;  3C8B A;  1G9D A;  3V0A A;  2XHL A;  3DS9 A;  3ZUR A;  2G7N A;  1S0E A;  3DDA A;  3FII A;  3FFZ A;  5BQN A;  3BOK A;  2IMC A;  2QN0 A;  2ISG A;  2NP0 A;  3VUO A;  1F82 A;  1I1E A;  1ZB7 A;  3ZUS A;  1T3A A;  1ZKW A;  4EJ5 A;  4HEV A;  1S0B A;  1ZL5 A;  2ISH A;  1YVG A;  1EPW A;  1S0D A;  3QIZ A;  3V0B B;  3QW5 A;  3FIE A;  3BTA A;  4KTX A;  3D3X A;  3C88 A;  1Z7H A;  2A97 A;  2ISE A;  2ILP A;  1G9B A;  1G9C A;  1E1H A;  3QIX A;  2NYY A;  4KS6 A;  1G9A A;  5BQM A;  2IMB A;  3DSE A;  2W2D A;  4KUF A;  3QW6 A;  3C89 A;  4EL4 A;  3C8A A;  3V0B A;  2A8A A;  3QIY A; 
#chains in the Genus database with same CATH topology
 1XTF A;  3DEB A;  3ZUQ A;  3DDB A;  3QW8 A;  2ETF A;  1F31 A;  2FPQ A;  3V0A B;  4J1L A;  1ZKX A;  3QJ0 A;  2G7K A;  2IMA A;  2G7Q A;  4ZJX A;  1ZL6 A;  3BWI A;  1XTG A;  3K3Q B;  3NF3 A;  1T3C A;  3QW7 A;  1S0C A;  2NZ9 A;  1ZN3 A;  1S0F A;  3E11 A;  2G7P A;  3BON A;  4ZKT B;  3BOO A;  4ELC A;  4JIU A;  1S0G A;  3C8B A;  1G9D A;  3V0A A;  2XHL A;  3DS9 A;  2EJQ A;  3ZUR A;  2G7N A;  1S0E A;  3DDA A;  3FII A;  3FFZ A;  5BQN A;  3BOK A;  2IMC A;  2QN0 A;  2ISG A;  2NP0 A;  3VUO A;  1F82 A;  1I1E A;  1ZB7 A;  2YPT A;  3ZUS A;  1T3A A;  1ZKW A;  4EJ5 A;  4HEV A;  1S0B A;  1ZL5 A;  2ISH A;  1YVG A;  4JIX A;  1EPW A;  1S0D A;  3QIZ A;  3V0B B;  3CQB A;  3QW5 A;  3FIE A;  3BTA A;  4KTX A;  4QHF A;  3D3X A;  3C88 A;  1Z7H A;  2A97 A;  2ISE A;  2ILP A;  1G9B A;  1G9C A;  1E1H A;  3QIX A;  2NYY A;  4KS6 A;  1G9A A;  2IMB A;  3DSE A;  4IL3 A;  5BQM A;  4AW6 A;  2W2D A;  3QW6 A;  4KUF A;  3C89 A;  4EL4 A;  3C8A A;  3V0B A;  2A8A A;  3QIY A; 
#chains in the Genus database with same CATH homology
 1XTF A;  3DEB A;  3ZUQ A;  3DDB A;  3QW8 A;  2ETF A;  1F31 A;  2FPQ A;  3V0A B;  4J1L A;  1ZKX A;  3QJ0 A;  2G7K A;  2IMA A;  2G7Q A;  4ZJX A;  1ZL6 A;  3BWI A;  1XTG A;  3K3Q B;  3NF3 A;  1T3C A;  3QW7 A;  1S0C A;  2NZ9 A;  1ZN3 A;  1S0F A;  2G7P A;  3BON A;  4ZKT B;  3BOO A;  4ELC A;  1S0G A;  3C8B A;  1G9D A;  3V0A A;  2XHL A;  3DS9 A;  3ZUR A;  2G7N A;  1S0E A;  3DDA A;  3FII A;  3FFZ A;  5BQN A;  3BOK A;  2IMC A;  2QN0 A;  2ISG A;  2NP0 A;  3VUO A;  1F82 A;  1I1E A;  1ZB7 A;  3ZUS A;  1T3A A;  1ZKW A;  4EJ5 A;  4HEV A;  1S0B A;  1ZL5 A;  2ISH A;  1YVG A;  1EPW A;  1S0D A;  3QIZ A;  3V0B B;  3QW5 A;  3FIE A;  3BTA A;  4KTX A;  3D3X A;  3C88 A;  1Z7H A;  2A97 A;  2ISE A;  2ILP A;  1G9B A;  1G9C A;  1E1H A;  3QIX A;  2NYY A;  4KS6 A;  1G9A A;  5BQM A;  2IMB A;  3DSE A;  2W2D A;  4KUF A;  3QW6 A;  3C89 A;  4EL4 A;  3C8A A;  3V0B A;  2A8A A;  3QIY 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...

3DSEA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN