3EAA | Genus

Total Genus 23

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	23
sequence length	162
structure length	162
Chain Sequence	AFDTYIKLDKVDGESTDDKHKKWIEVLGFAWGAGNECTMESGTQGLNTGKAMMSVLRVTKWMDCASVKLASAAVQGQNFPTLELEICTQAGDKFAFCIYKFTHVAVSSYQCSGATGGSDRPQETIDFAYKEVTWEYVPQDQNGKAGGKIGPEGWSLITNKKK

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__1048822423178377__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jmolApplet0__1048822423178377__)

vwrOptions:

{ "name":"jmolApplet0","applet":true,"documentBase":"https://genus.fuw.edu.pl/view/3EAA/A/","platform":"J.awtjs2d.Platform","fullName":"jmolApplet0__1048822423178377__","codePath":"https:/static/js/j2s/","display":"jmolApplet0_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"1048822423178377","bgcolor":"white" }

setting document base to "https://genus.fuw.edu.pl/view/3EAA/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__1048822423178377__ ready

script 1 started

platformSpeed = 8

Viewer cachePut cache://localLOAD_/file/5cfebcbb43c3b43a63c791b0/pdb.gz

Viewer cachePut https://genus.fuw.edu.pl/file/5cfebcbb43c3b43a63c791b0/pdb.gz

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

publication title	Structural basis for the secretion of EvpC: a key type VI secretion system protein from Edwardsiella tarda pubmed doi rcsb
molecule keywords	EvpC
molecule tags	Unknown function
source organism	Edwardsiella tarda
total genus	23
structure length	162
sequence length	162
chains with identical sequence	B
ec nomenclature
pdb deposition date	2008-08-25

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF05638	T6SS_HCP	Type VI secretion system effector, Hcp

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

cath code	Class	Architecture	Topology	Homology	Domain
2.30.110.20	Mainly Beta	Roll	Pnp Oxidase; Chain A	Hcp1-like	3eaaA00

4TV4A 3V4HA 4HKHA 4W64A 1Y12A 3HE1A 3EAAA
chains in the Genus database with same CATH superfamily

4ZKYA 2D37A 3PFTA 1XXOA 4MTKA 4HKHA 1YOAA 3R5RA 3R5LA 3R5PA 5ESCA 2PTFA 3FKHA 5CHOA 3A20A 2OL5A 2QCKA 1WLIA 3AWHA 2ECRA 4Z85A 1W3PA 2NR4A 2RDEA 4R82A 3U34A 2Q9KA 1W3QA 2L1TA 3K87A 4HMTA 1FLMA 3IN6A 4HMUA 1W9AA 1VL7A 1Y30A 3E4VA 2K4QA 4HX6A 2D36A 2ARZA 2I02A 2VPAA 4F07A 2HTIA 4XHYA 2GUJA 4HMXA 2FURA 4YBNA 3ZODA 1NRGA 2FHQA 4W64A 2IMLA 3BA3A 1W3OA 4HMWA 2D5MA 2QEAA 3K88A 3VY5A 3KYFA 3GASA 1WV4A 1EJEA 3K86A 3V4HA 1G79A 4L82A 3ZOHA 2ED4A 3DNHA 3ZOEA 1AXJA 1XHNA 3CP3A 2R6VA 2ASFA 4N7RC 3BPKA 3NFWA 3HY8A 2HQ9A 3KYGA 2X1KA 3ZOGA 4IRAA 3HE1A 4UHVA 2HHZA 1G76A 2AQ6A 3A6QA 4TV4A 3U0IA 2GJGA 1T9MA 3R5WA 3U35A 4QVBA 3H96A 2R0XA 1TY9A 4Y9IA 3VY2A 1JNWA 3SWJA 1W3RA 1I0SA 3FGEA 3ZOCA 2ECUA 1WLKA 1Y12A 1G78A 2E83A 3EC6A 2RE7A 4HMSA 3BNKA 1WGBA 2D38A 3TGVA 1USFA 3R5YA 4HMVA 1DNLA 1RZ0A 3HMZA 1RZ1A 3CB0A 2IABA 3DMBA 1YLNA 2HQ7A 3DB0A 5BNCA 2OU5A 2IG6A 3R5ZA 2FG9A 3ZOFA 2I51A 2HTDA 1I0RA 1CI0A 4YWNA 5CHEC 3F7EA 3RH7A 3VYAA 3U5WA 4XJ2A 5JABA 1USCA 3EAAA 3AMFA 3B5MA 1G77A 1RFEA 2P5ZX 2X1JA 2A2JA 3A6RA
chains in the Genus database with same CATH topology

4TV4A 3V4HA 4HKHA 4W64A 1Y12A 3HE1A 3EAAA
chains in the Genus database with same CATH homology

#chains in the Genus database with same CATH superfamily
 4TV4 A;  3V4H A;  4HKH A;  4W64 A;  1Y12 A;  3HE1 A;  3EAA A; 
#chains in the Genus database with same CATH topology
 4ZKY A;  2D37 A;  3PFT A;  1XXO A;  4MTK A;  4HKH A;  1YOA A;  3R5R A;  3R5L A;  3R5P A;  5ESC A;  2PTF A;  3FKH A;  5CHO A;  3A20 A;  2OL5 A;  2QCK A;  1WLI A;  3AWH A;  2ECR A;  4Z85 A;  1W3P A;  2NR4 A;  2RDE A;  4R82 A;  3U34 A;  2Q9K A;  1W3Q A;  2L1T A;  3K87 A;  4HMT A;  1FLM A;  3IN6 A;  4HMU A;  1W9A A;  1VL7 A;  1Y30 A;  3E4V A;  2K4Q A;  4HX6 A;  2D36 A;  2ARZ A;  2I02 A;  2VPA A;  4F07 A;  2HTI A;  4XHY A;  2GUJ A;  4HMX A;  2FUR A;  4YBN A;  3ZOD A;  1NRG A;  2FHQ A;  4W64 A;  2IML A;  3BA3 A;  1W3O A;  4HMW A;  2D5M A;  2QEA A;  3K88 A;  3VY5 A;  3KYF A;  3GAS A;  1WV4 A;  1EJE A;  3K86 A;  3V4H A;  1G79 A;  4L82 A;  3ZOH A;  2ED4 A;  3DNH A;  3ZOE A;  1AXJ A;  1XHN A;  3CP3 A;  2R6V A;  2ASF A;  4N7R C;  3BPK A;  3NFW A;  3HY8 A;  2HQ9 A;  3KYG A;  2X1K A;  3ZOG A;  4IRA A;  3HE1 A;  4UHV A;  2HHZ A;  1G76 A;  2AQ6 A;  3A6Q A;  4TV4 A;  3U0I A;  2GJG A;  1T9M A;  3R5W A;  3U35 A;  4QVB A;  3H96 A;  2R0X A;  1TY9 A;  4Y9I A;  3VY2 A;  1JNW A;  3SWJ A;  1W3R A;  1I0S A;  3FGE A;  3ZOC A;  2ECU A;  1WLK A;  1Y12 A;  1G78 A;  2E83 A;  3EC6 A;  2RE7 A;  4HMS A;  3BNK A;  1WGB A;  2D38 A;  3TGV A;  1USF A;  3R5Y A;  4HMV A;  1DNL A;  1RZ0 A;  3HMZ A;  1RZ1 A;  3CB0 A;  2IAB A;  3DMB A;  1YLN A;  2HQ7 A;  3DB0 A;  5BNC A;  2OU5 A;  2IG6 A;  3R5Z A;  2FG9 A;  3ZOF A;  2I51 A;  2HTD A;  1I0R A;  1CI0 A;  4YWN A;  5CHE C;  3F7E A;  3RH7 A;  3VYA A;  3U5W A;  4XJ2 A;  5JAB A;  1USC A;  3EAA A;  3AMF A;  3B5M A;  1G77 A;  1RFE A;  2P5Z X;  2X1J A;  2A2J A;  3A6R A; 
#chains in the Genus database with same CATH homology
 4TV4 A;  3V4H A;  4HKH A;  4W64 A;  1Y12 A;  3HE1 A;  3EAA 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...

3EAAA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations