1O5E | Genus

Total Genus 21

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	21
sequence length	110
structure length	110
Chain Sequence	PLYPVQVSSADARLMVFDKTEGTWRLLCSSRSNARVAGLSCEEMGFLRALTHSELDVRTAGAAGTSGFFCVDEGRLPHTQRLLEVISVCDCPRGRFLAAICQDCGRRKLP

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__107319888994044__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jmolApplet0__107319888994044__)

vwrOptions:

{ "name":"jmolApplet0","applet":true,"documentBase":"https://genus.fuw.edu.pl/view/1O5E/L/","platform":"J.awtjs2d.Platform","fullName":"jmolApplet0__107319888994044__","codePath":"https:/static/js/j2s/","display":"jmolApplet0_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"107319888994044","bgcolor":"white" }

setting document base to "https://genus.fuw.edu.pl/view/1O5E/L/"

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__107319888994044__ ready

script 1 started

platformSpeed = 8

Viewer cachePut cache://localLOAD_/file/5cfbb2ab54417e14febbc084/pdb.gz

Viewer cachePut https://genus.fuw.edu.pl/file/5cfbb2ab54417e14febbc084/pdb.gz

FileManager.getAtomSetCollectionFromFile(/file/5cfbb2ab54417e14febbc084/pdb.gz)

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

The Resolver thinks Pdb

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

Time for openFile(/file/5cfbb2ab54417e14febbc084/pdb.gz): 389 ms

reading 110 atoms

ModelSet: haveSymmetry:false haveUnitcells:false haveFractionalCoord:false

1 model in this collection. Use getProperty "modelInfo" or getProperty "auxiliaryInfo" to inspect them.

Default Van der Waals type for model set to Jmol

110 atoms created

ModelSet: autobonding; use autobond=false to not generate bonds automatically

Time for creating model: 17 ms

Adding embedded #jmolscript: select ({0:109});backbone only;select *;

platformSpeed = 8

cartoonsFancy = true

sheetSmoothing = 1.0

traceAlpha = true

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

specularPower = 9

ambientPercent = 20

antialiasDisplay = true

Script completed

Jmol script terminated

loadScript /static/js/j2s/J/g3d/HermiteRenderer.js

loadScript /static/js/j2s/J/renderbio/BioMeshRenderer.js

loadScript /static/js/j2s/J/render/MeshRenderer.js

loadScript /static/js/j2s/J/shape/Mesh.js

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	Dissecting and designing inhibitor selectivity determinants at the S1 site using an artificial Ala190 protease (Ala190 uPA). pubmed doi rcsb
molecule keywords	Serine protease hepsin
molecule tags	Serine protease, hydrolase
source organism	Homo sapiens
total genus	21
structure length	110
sequence length	110
ec nomenclature	ec 3.4.21.106: Hepsin.
pdb deposition date	2003-09-09

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
L	PF09272	Hepsin-SRCR	Hepsin, SRCR domain

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

cath code	Class	Architecture	Topology	Homology	Domain
3.10.250.10	Alpha Beta	Roll	Mac-2 Binding Protein	SRCR-like domain	1o5eL00

2JA4A 5CE1A 5JFBA 2JP0A 1Z8GA 1BY2A 2JOPA 2OY3A 2OYAA 3T2NA 1O5EL 1O5FL 2OTTX 2XRCA 1P57A
chains in the Genus database with same CATH superfamily

2JA4A 5CE1A 5JFBA 2JP0A 1Z8GA 1BY2A 2JOPA 2OY3A 2OYAA 3T2NA 1O5EL 1O5FL 2OTTX 2XRCA 1P57A
chains in the Genus database with same CATH topology

2JA4A 5CE1A 5JFBA 2JP0A 1Z8GA 1BY2A 2JOPA 2OY3A 2OYAA 3T2NA 1O5EL 1O5FL 2OTTX 2XRCA 1P57A
chains in the Genus database with same CATH homology

#chains in the Genus database with same CATH superfamily
 2JA4 A;  5CE1 A;  5JFB A;  2JP0 A;  1Z8G A;  1BY2 A;  2JOP A;  2OY3 A;  2OYA A;  3T2N A;  1O5E L;  1O5F L;  2OTT X;  2XRC A;  1P57 A; 
#chains in the Genus database with same CATH topology
 2JA4 A;  5CE1 A;  5JFB A;  2JP0 A;  1Z8G A;  1BY2 A;  2JOP A;  2OY3 A;  2OYA A;  3T2N A;  1O5E L;  1O5F L;  2OTT X;  2XRC A;  1P57 A; 
#chains in the Genus database with same CATH homology
 2JA4 A;  5CE1 A;  5JFB A;  2JP0 A;  1Z8G A;  1BY2 A;  2JOP A;  2OY3 A;  2OYA A;  3T2N A;  1O5E L;  1O5F L;  2OTT X;  2XRC A;  1P57 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...

1O5EL

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations