1FLL | Genus

Total Genus 36

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	36
sequence length	205
structure length	205
Chain Sequence	LESVDKSAGQVARNTGLLESQLSRHDQMLSVHDIRLADMDLRFQVLETASYNGVLIWKIRDYKRRKQEAVMGKTLSLYSQPFYTGYFGYKMCARVYLNGDGMGKGTHLSLFFVIMRGEYDALLPWPFKQKVTLMLMDQGSSRRHLGDAFKPDPNSSSFKKPTGEMNIASGCPVFVAQTVLENGTYIKDDTIFIKVIVDTSDLPDP

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__960009568911538__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jmolApplet0__960009568911538__)

vwrOptions:

{ "name":"jmolApplet0","applet":true,"documentBase":"https://genus.fuw.edu.pl/view/1FLL/A/","platform":"J.awtjs2d.Platform","fullName":"jmolApplet0__960009568911538__","codePath":"https:/static/js/j2s/","display":"jmolApplet0_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"960009568911538","bgcolor":"white" }

setting document base to "https://genus.fuw.edu.pl/view/1FLL/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__960009568911538__ ready

script 1 started

platformSpeed = 8

Viewer cachePut cache://localLOAD_/file/5cfb20eeeadac7b76fe964c8/pdb.gz

Viewer cachePut https://genus.fuw.edu.pl/file/5cfb20eeeadac7b76fe964c8/pdb.gz

FileManager.getAtomSetCollectionFromFile(/file/5cfb20eeeadac7b76fe964c8/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/5cfb20eeeadac7b76fe964c8/pdb.gz): 65 ms

reading 205 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

205 atoms created

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

Time for creating model: 20 ms

Adding embedded #jmolscript: select ({0:204});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

molecule tags	Apoptosis
source organism	Homo sapiens
publication title	Molecular basis for CD40 signaling mediated by TRAF3. pubmed doi rcsb
molecule keywords	TNF RECEPTOR ASSOCIATED FACTOR 3
total genus	36
structure length	205
sequence length	205
chains with identical sequence	B
ec nomenclature	ec 2.3.2.27: RING-type E3 ubiquitin transferase.
pdb deposition date	2000-08-14

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

cath code	Class	Architecture	Topology	Homology	Domain
2.60.210.10	Mainly Beta	Sandwich	Apoptosis, Tumor Necrosis Factor Receptor Associated Protein 2; Chain A	Apoptosis, Tumor Necrosis Factor Receptor Associated Protein 2; Chain A	1fllA00

1K2FA 4KG9A 3HQMA 1FLKA 1F3VB 1FLLA 3MQRA 4GJHA 1KZZA 4GWNA 1D0AA 1YY6A 4X3GA 4Z8MA 4I7DA 3ZJBA 4YSIA 1LB5A 2GKWA 4GWMA 3HU6A 2FOOA 3HQLA 3HQIA 1CA9A 2FOPA 4JJQA 1CZZA 2F1WA 2CR2A 1QSCA 2AN6A 2A25A 4GHUA 5E1TA 1D0JA 3IVVA 3MQSC 3IVBA 1D01A 1LB6A 1ZMSA 2FOJA 4O1VA 3IVQA 2F1ZA 4K8UA 2F1XA 1L0AA 4M4EA 3HSVA 2XXNA 4CA1A 2F1YA 1D00A 1CZYA 1LB4A 1RF3A 4C9ZA 4I7CA 1YZEA 4I7BA 1CA4A 3HQHA 5H9MA
chains in the Genus database with same CATH superfamily

#chains in the Genus database with same CATH superfamily
 1K2F A;  4KG9 A;  3HQM A;  1FLK A;  1F3V B;  1FLL A;  3MQR A;  4GJH A;  1KZZ A;  4GWN A;  1D0A A;  1YY6 A;  4X3G A;  4Z8M A;  4I7D A;  3ZJB A;  4YSI A;  1LB5 A;  2GKW A;  4GWM A;  3HU6 A;  2FOO A;  3HQL A;  3HQI A;  1CA9 A;  2FOP A;  4JJQ A;  1CZZ A;  2F1W A;  2CR2 A;  1QSC A;  2AN6 A;  2A25 A;  4GHU A;  5E1T A;  1D0J A;  3IVV A;  3MQS C;  3IVB A;  1D01 A;  1LB6 A;  1ZMS A;  2FOJ A;  4O1V A;  3IVQ A;  2F1Z A;  4K8U A;  2F1X A;  1L0A A;  4M4E A;  3HSV A;  2XXN A;  4CA1 A;  2F1Y A;  1D00 A;  1CZY A;  1LB4 A;  1RF3 A;  4C9Z A;  4I7C A;  1YZE A;  4I7B A;  1CA4 A;  3HQH A;  5H9M A; 
#chains in the Genus database with same CATH topology
 1K2F A;  4KG9 A;  3HQM A;  1FLK A;  1F3V B;  1FLL A;  3MQR A;  4GJH A;  1KZZ A;  4GWN A;  1D0A A;  1YY6 A;  4X3G A;  4Z8M A;  4I7D A;  3ZJB A;  4YSI A;  1LB5 A;  2GKW A;  4GWM A;  3HU6 A;  2FOO A;  3HQL A;  3HQI A;  1CA9 A;  2FOP A;  4JJQ A;  1CZZ A;  2F1W A;  2CR2 A;  1QSC A;  2AN6 A;  2A25 A;  4GHU A;  5E1T A;  1D0J A;  3IVV A;  3MQS C;  3IVB A;  1D01 A;  1LB6 A;  1ZMS A;  2FOJ A;  4O1V A;  3IVQ A;  2F1Z A;  4K8U A;  2F1X A;  1L0A A;  4M4E A;  3HSV A;  2XXN A;  4CA1 A;  2F1Y A;  1D00 A;  1CZY A;  1LB4 A;  1RF3 A;  4C9Z A;  4I7C A;  1YZE A;  4I7B A;  1CA4 A;  3HQH A;  5H9M A; 
#chains in the Genus database with same CATH homology
 1K2F A;  4KG9 A;  3HQM A;  1FLK A;  1F3V B;  1FLL A;  3MQR A;  4GJH A;  1KZZ A;  4GWN A;  1D0A A;  1YY6 A;  4X3G A;  4Z8M A;  4I7D A;  3ZJB A;  4YSI A;  1LB5 A;  2GKW A;  4GWM A;  3HU6 A;  2FOO A;  3HQL A;  3HQI A;  1CA9 A;  2FOP A;  4JJQ A;  1CZZ A;  2F1W A;  2CR2 A;  1QSC A;  2AN6 A;  2A25 A;  4GHU A;  5E1T A;  1D0J A;  3IVV A;  3MQS C;  3IVB A;  1D01 A;  1LB6 A;  1ZMS A;  2FOJ A;  4O1V A;  3IVQ A;  2F1Z A;  4K8U A;  2F1X A;  1L0A A;  4M4E A;  3HSV A;  2XXN A;  4CA1 A;  2F1Y A;  1D00 A;  1CZY A;  1LB4 A;  1RF3 A;  4C9Z A;  4I7C A;  1YZE A;  4I7B A;  1CA4 A;  3HQH A;  5H9M 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...

1FLLA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization