4DDN | Genus

Total Genus 26

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	26
sequence length	154
structure length	154
Chain Sequence	MALQLAAHSDARSGPVGSNGGQFWSFRPVRPLNKIVLSFSGSPDQTLNLISITFSSNPTDIITVGGVGPEPLTYTETVNIDGDIIEISGMIANYKGYNVIRSIKFTTNKKEYGPYGANAGTPFNIKIPDGNKIVGFFGNSGWYVDAIGAYYTAK

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__4213675388623215__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jmolApplet0__4213675388623215__)

vwrOptions:

{ "name":"jmolApplet0","applet":true,"documentBase":"https://genus.fuw.edu.pl/view/4DDN/A/","platform":"J.awtjs2d.Platform","fullName":"jmolApplet0__4213675388623215__","codePath":"https:/static/js/j2s/","display":"jmolApplet0_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"4213675388623215","bgcolor":"white" }

setting document base to "https://genus.fuw.edu.pl/view/4DDN/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__4213675388623215__ 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	Sugar binding protein
source organism	Ipomoea batatas
publication title	Ipomoelin, a jacalin-related lectin with a compact tetrameric association and versatile carbohydrate binding properties regulated by its N terminus. pubmed doi rcsb
molecule keywords	Ipomoelin
total genus	26
structure length	154
sequence length	154
chains with identical sequence	B, C, D
ec nomenclature
pdb deposition date	2012-01-19

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF01419	Jacalin	Jacalin-like lectin domain

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

cath code	Class	Architecture	Topology	Homology	Domain
2.100.10.30	Mainly Beta	Aligned Prism	Vitelline Membrane Outer Layer Protein I, subunit A	Jacalin-like lectin domain	4ddnA00

5JM1A 3MITA 1VBPA 4AKDA 2GUCA 1WS4A 4AKBA 1ZGRA 2NU5A 1KU8A 2GUDA 1TP8A 1OUWA 2BMZA 1JOTA 4PITA 3R50A 5BN6E 3VZGA 3MIUA 3VZEA 3WOBA 4WOGA 1X1VA 3WOCA 2GUEA 3LKYA 1UGXA 4R6PA 1J4SA 1UGWA 3O44A 5J4TA 5EXGA 4DDNA 2GUXA 5J4XA 1XEZA 4PIFA 3VZFA 3LLYA 1KUJA 1VBOA 1WS4C 4R6QA 4MQ0A 1WS5A 1UH1A 5AV7A 1C3NA 1M26A 1UGYA 1UH0A 3R52A 3APAA 2HYQA 1WS5C 3AQGA 3P8SA 2JZ4A 1J4TA 5J51A 3R51A 1UGYC 4R6NA 1UGWC 4GX7A 5J50A 1J4UA 1XXRA 2HYRA 4PIKA 1TOQA 1C3MA 2GTYA 4R6RA 2BN0A 3LL2A 1PXDA 3VY7A 1C3KA 3MIVA 2NUOA 1XXQA 4PIUA 3VY6A 3LLZA 3LM1A 4AK4A 4AKCA 3LL1A 1ZGSA 4R6OA 1JACA 2BMYA 3LL0A
chains in the Genus database with same CATH superfamily

5JM1A 1DLCA 3MITA 1I5PA 1VBPA 4AKDA 2GUCA 1WS4A 4AKBA 1ZGRA 2NU5A 1KU8A 2GUDA 1TP8A 1OUWA 2BMZA 1JOTA 4PITA 3R50A 5BN6E 3VZGA 3MIUA 3VZEA 3WOBA 4WOGA 1X1VA 1JI6A 3WOCA 2GUEA 3LKYA 1UGXA 4R6PA 4W8JA 1J4SA 1UGWA 3O44A 5J4TA 5EXGA 4DDNA 2GUXA 5J4XA 1XEZA 4PIFA 3TOWA 3VZFA 3LLYA 1KUJA 1VBOA 2BMYA 1WS4C 4R6QA 4MQ0A 1WS5A 2C9KA 1UH1A 5AV7A 1C3NA 1M26A 1UGYA 1UH0A 4ARYA 3R52A 3APAA 4QX3A 2HYQA 1WS5C 3AQGA 3P8SA 2JZ4A 1J4TA 5J51A 3R51A 1UGYC 4R6NA 3EB7A 1UGWC 4GX7A 5J50A 1J4UA 1XXRA 2HYRA 4PIKA 1TOQA 1C3MA 2GTYA 1VMOA 2BN0A 4R6RA 3LL2A 1PXDA 1CIYA 3VY7A 1C3KA 3MIVA 2NUOA 4QX1A 4QX2A 4ARXA 1XXQA 4PIUA 4D8MA 3VY6A 3LLZA 3LM1A 4AK4A 4AKCA 2QP2A 3LL1A 4MOAA 1ZGSA 4QX0A 4R6OA 1JACA 1W99A 3LL0A
chains in the Genus database with same CATH topology

#chains in the Genus database with same CATH superfamily
 5JM1 A;  3MIT A;  1VBP A;  4AKD A;  2GUC A;  1WS4 A;  4AKB A;  1ZGR A;  2NU5 A;  1KU8 A;  2GUD A;  1TP8 A;  1OUW A;  2BMZ A;  1JOT A;  4PIT A;  3R50 A;  5BN6 E;  3VZG A;  3MIU A;  3VZE A;  3WOB A;  4WOG A;  1X1V A;  3WOC A;  2GUE A;  3LKY A;  1UGX A;  4R6P A;  1J4S A;  1UGW A;  3O44 A;  5J4T A;  5EXG A;  4DDN A;  2GUX A;  5J4X A;  1XEZ A;  4PIF A;  3VZF A;  3LLY A;  1KUJ A;  1VBO A;  1WS4 C;  4R6Q A;  4MQ0 A;  1WS5 A;  1UH1 A;  5AV7 A;  1C3N A;  1M26 A;  1UGY A;  1UH0 A;  3R52 A;  3APA A;  2HYQ A;  1WS5 C;  3AQG A;  3P8S A;  2JZ4 A;  1J4T A;  5J51 A;  3R51 A;  1UGY C;  4R6N A;  1UGW C;  4GX7 A;  5J50 A;  1J4U A;  1XXR A;  2HYR A;  4PIK A;  1TOQ A;  1C3M A;  2GTY A;  4R6R A;  2BN0 A;  3LL2 A;  1PXD A;  3VY7 A;  1C3K A;  3MIV A;  2NUO A;  1XXQ A;  4PIU A;  3VY6 A;  3LLZ A;  3LM1 A;  4AK4 A;  4AKC A;  3LL1 A;  1ZGS A;  4R6O A;  1JAC A;  2BMY A;  3LL0 A; 
#chains in the Genus database with same CATH topology
 5JM1 A;  1DLC A;  3MIT A;  1I5P A;  1VBP A;  4AKD A;  2GUC A;  1WS4 A;  4AKB A;  1ZGR A;  2NU5 A;  1KU8 A;  2GUD A;  1TP8 A;  1OUW A;  2BMZ A;  1JOT A;  4PIT A;  3R50 A;  5BN6 E;  3VZG A;  3MIU A;  3VZE A;  3WOB A;  4WOG A;  1X1V A;  1JI6 A;  3WOC A;  2GUE A;  3LKY A;  1UGX A;  4R6P A;  4W8J A;  1J4S A;  1UGW A;  3O44 A;  5J4T A;  5EXG A;  4DDN A;  2GUX A;  5J4X A;  1XEZ A;  4PIF A;  3TOW A;  3VZF A;  3LLY A;  1KUJ A;  1VBO A;  2BMY A;  1WS4 C;  4R6Q A;  4MQ0 A;  1WS5 A;  2C9K A;  1UH1 A;  5AV7 A;  1C3N A;  1M26 A;  1UGY A;  1UH0 A;  4ARY A;  3R52 A;  3APA A;  4QX3 A;  2HYQ A;  1WS5 C;  3AQG A;  3P8S A;  2JZ4 A;  1J4T A;  5J51 A;  3R51 A;  1UGY C;  4R6N A;  3EB7 A;  1UGW C;  4GX7 A;  5J50 A;  1J4U A;  1XXR A;  2HYR A;  4PIK A;  1TOQ A;  1C3M A;  2GTY A;  1VMO A;  2BN0 A;  4R6R A;  3LL2 A;  1PXD A;  1CIY A;  3VY7 A;  1C3K A;  3MIV A;  2NUO A;  4QX1 A;  4QX2 A;  4ARX A;  1XXQ A;  4PIU A;  4D8M A;  3VY6 A;  3LLZ A;  3LM1 A;  4AK4 A;  4AKC A;  2QP2 A;  3LL1 A;  4MOA A;  1ZGS A;  4QX0 A;  4R6O A;  1JAC A;  1W99 A;  3LL0 A; 
#chains in the Genus database with same CATH homology
 5JM1 A;  3MIT A;  1VBP A;  4AKD A;  2GUC A;  1WS4 A;  4AKB A;  1ZGR A;  2NU5 A;  1KU8 A;  2GUD A;  1TP8 A;  1OUW A;  2BMZ A;  1JOT A;  4PIT A;  3R50 A;  5BN6 E;  3VZG A;  3MIU A;  3VZE A;  3WOB A;  4WOG A;  1X1V A;  3WOC A;  2GUE A;  3LKY A;  1UGX A;  4R6P A;  1J4S A;  1UGW A;  3O44 A;  5J4T A;  5EXG A;  4DDN A;  2GUX A;  5J4X A;  1XEZ A;  4PIF A;  3VZF A;  3LLY A;  1KUJ A;  1VBO A;  1WS4 C;  4R6Q A;  4MQ0 A;  1WS5 A;  1UH1 A;  5AV7 A;  1C3N A;  1M26 A;  1UGY A;  1UH0 A;  3R52 A;  3APA A;  2HYQ A;  1WS5 C;  3AQG A;  3P8S A;  2JZ4 A;  1J4T A;  5J51 A;  3R51 A;  1UGY C;  4R6N A;  1UGW C;  4GX7 A;  5J50 A;  1J4U A;  1XXR A;  2HYR A;  4PIK A;  1TOQ A;  1C3M A;  2GTY A;  4R6R A;  2BN0 A;  3LL2 A;  1PXD A;  3VY7 A;  1C3K A;  3MIV A;  2NUO A;  1XXQ A;  4PIU A;  3VY6 A;  3LLZ A;  3LM1 A;  4AK4 A;  4AKC A;  3LL1 A;  1ZGS A;  4R6O A;  1JAC A;  2BMY A;  3LL0 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...

4DDNA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations