4OMJ | Genus

Total Genus 103

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	103
sequence length	274
structure length	274
Chain Sequence	MSGRVGDLSPRQKEALAKFRENVQDVLPALPNPDDYFLLRWLRARSFDLQKSEAMLRKHVEFRKQKDIDNIISWQPPEVIQQYLSGGMCGYDLDGCPVWYDIIGPLDAKGLLFSASKQDLLRTKMRECELLLQECAHQTTKLGRKVETITIIYDCEGLGLKHLWKPAVEAYGEFLCMFEENYPETLKRLFVVKAPKLFPVAYNLIKPFLSEDTRKKIMVLGANWKEVLLKHISPDQVPVEYGGTMTDPDGNPKCKSKINYGGDIPRKYYVRDQV

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__841111394978345__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jmolApplet0__841111394978345__)

vwrOptions:

{ "name":"jmolApplet0","applet":true,"documentBase":"https://genus.fuw.edu.pl/view/4OMJ/A/","platform":"J.awtjs2d.Platform","fullName":"jmolApplet0__841111394978345__","codePath":"https:/static/js/j2s/","display":"jmolApplet0_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"841111394978345","bgcolor":"white" }

setting document base to "https://genus.fuw.edu.pl/view/4OMJ/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__841111394978345__ 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	Transport protein
source organism	Homo sapiens
publication title	Structural insights on cholesterol endosynthesis: Binding of squalene and 2,3-oxidosqualene to supernatant protein factor. pubmed doi rcsb
molecule keywords	SEC14-like protein 2
total genus	103
structure length	274
sequence length	274
chains with identical sequence	B
ec nomenclature
pdb deposition date	2014-01-27

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF00650	CRAL_TRIO	CRAL/TRIO domain

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

cath code	Class	Architecture	Topology	Homology	Domain
3.40.525.10	Alpha Beta	3-Layer(aba) Sandwich	Phosphatidylinositol Transfer Protein Sec14p	CRAL-TRIO lipid binding domain	4omjA00

4TLGA 3B7NA 4OMKA 3HY5A 3B7QA 4J7PA 4CIZA 3W67A 3PEGA 4J7QA 1R5LA 3Q8GA 3P7ZA 4OMJA 4CJ6A 3B7ZA 1OIPA 2D4QA 1AUAA 1OIZA 1OLMA 3W68A 3PG7A 4UYBA 1O6UA 4FMMA 2E2XA 4M8ZA 1OLME 3B74A 3HX3A
chains in the Genus database with same CATH superfamily

#chains in the Genus database with same CATH superfamily
 4TLG A;  3B7N A;  4OMK A;  3HY5 A;  3B7Q A;  4J7P A;  4CIZ A;  3W67 A;  3PEG A;  4J7Q A;  1R5L A;  3Q8G A;  3P7Z A;  4OMJ A;  4CJ6 A;  3B7Z A;  1OIP A;  2D4Q A;  1AUA A;  1OIZ A;  1OLM A;  3W68 A;  3PG7 A;  4UYB A;  1O6U A;  4FMM A;  2E2X A;  4M8Z A;  1OLM E;  3B74 A;  3HX3 A; 
#chains in the Genus database with same CATH topology
 4TLG A;  3B7N A;  4OMK A;  3HY5 A;  3B7Q A;  4J7P A;  4CIZ A;  3W67 A;  3PEG A;  4J7Q A;  1R5L A;  3Q8G A;  3P7Z A;  4OMJ A;  4CJ6 A;  3B7Z A;  1OIP A;  2D4Q A;  1AUA A;  1OIZ A;  1OLM A;  3W68 A;  3PG7 A;  4UYB A;  1O6U A;  4FMM A;  2E2X A;  4M8Z A;  1OLM E;  3B74 A;  3HX3 A; 
#chains in the Genus database with same CATH homology
 4TLG A;  3B7N A;  4OMK A;  3HY5 A;  3B7Q A;  4J7P A;  4CIZ A;  3W67 A;  3PEG A;  4J7Q A;  1R5L A;  3Q8G A;  3P7Z A;  4OMJ A;  4CJ6 A;  3B7Z A;  1OIP A;  2D4Q A;  1AUA A;  1OIZ A;  1OLM A;  3W68 A;  3PG7 A;  4UYB A;  1O6U A;  4FMM A;  2E2X A;  4M8Z A;  1OLM E;  3B74 A;  3HX3 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...

4OMJA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations