4K6W | Genus

Total Genus 42

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	42
sequence length	183
structure length	183
Chain Sequence	TRTLWTTPDTSPNCTIAQDKDSKLTLVLTKCGSQILANVSLIVVAGKYHIINNKTNPKIKSFTIKLLFNKNGVLLDNSNLGKAYWNFRSGNSNVSTAYEKAIGFMPNLVAYPKPSNSKKYARDIVYGTIYLGGKPDQPAVIKTTFNQETGCEYSITFNFSWSKTYENVEFETTSFTFSYIAQE

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__52277974389955__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jmolApplet0__52277974389955__)

vwrOptions:

{ "name":"jmolApplet0","applet":true,"documentBase":"https://genus.fuw.edu.pl/view/4K6W/A/","platform":"J.awtjs2d.Platform","fullName":"jmolApplet0__52277974389955__","codePath":"https:/static/js/j2s/","display":"jmolApplet0_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"52277974389955","bgcolor":"white" }

setting document base to "https://genus.fuw.edu.pl/view/4K6W/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__52277974389955__ ready

script 1 started

platformSpeed = 8

Viewer cachePut cache://localLOAD_/file/5d0061973211b37b140fe37d/pdb.gz

Viewer cachePut https://genus.fuw.edu.pl/file/5d0061973211b37b140fe37d/pdb.gz

FileManager.getAtomSetCollectionFromFile(/file/5d0061973211b37b140fe37d/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/5d0061973211b37b140fe37d/pdb.gz): 138 ms

reading 183 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

183 atoms created

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

Time for creating model: 20 ms

Adding embedded #jmolscript: select ({0:182});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	Viral protein
source organism	Human adenovirus 37
publication title	Triazole linker-based trivalent sialic acid inhibitors of adenovirus type 37 infection of human corneal epithelial cells. pubmed doi rcsb
molecule keywords	Fiber protein
total genus	42
structure length	183
sequence length	183
chains with identical sequence	B, C
ec nomenclature
pdb deposition date	2013-04-16

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF00541	Adeno_knob	Adenoviral fibre protein (knob domain)

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

cath code	Class	Architecture	Topology	Homology	Domain
2.60.90.10	Mainly Beta	Sandwich	Adenovirus Type 5 Fiber Protein (Receptor Binding Domain)	Adenovirus pIV-related, attachment domain	4k6wA00

1KNBA 4WYJA 2WBVA 1UXEA 3QNDA 2BZUA 1P6AA 1UXBA 2BZVA 1KACA 3EXWA 1NOBA 2J2JA 2W9LC 3O8EA 4K6UA 2WGUA 1UXAA 4K6VA 3EXVA 1H7ZA 4XQBA 2J1KC 2J12A 2WSTA 4XL8A 3CNCA 2O39A 3F0YA 3N0IA 1P69A 4K6TA 3L89A 4K6WA 4LIYA 4XQAA 2WGTA 3L88A 2QLKA 1QIUA 4ZDGA 2WBWA 4ATZA 1QHVA 3BQ4A
chains in the Genus database with same CATH superfamily

4GU3A 1KNBA 4WYJA 4GU4A 2WBVA 1UXEA 2VRSA 2BZUA 3QNDA 1P6AA 1UXBA 2BZVA 1KACA 3EXWA 2VTWA 1NOBA 2OJ5A 2J2JA 2W9LC 3O8EA 2OJ6A 2WGUA 4K6UA 1UXAA 2BT7A 4K6VA 3EOYA 3EXVA 1H7ZA 4CW8A 4XQBA 2J1KC 2J12A 2WSTA 4XL8A 3CNCA 2O39A 3F0YA 2BT8A 3N0IA 1P69A 2JJLA 2IUMA 5MHSA 4K6TA 4D62A 3L89A 4K6WA 4LIYA 2IUNA 4XQAA 3S6XA 3ZPEA 2WGTA 3L88A 3ZPFA 4D63A 2QLKA 1QIUA 4ODBA 4ZDGA 1KKEA 2BSFA 2WBWA 4ATZA 1QHVA 3BQ4A 4XC5A
chains in the Genus database with same CATH topology

#chains in the Genus database with same CATH superfamily
 1KNB A;  4WYJ A;  2WBV A;  1UXE A;  3QND A;  2BZU A;  1P6A A;  1UXB A;  2BZV A;  1KAC A;  3EXW A;  1NOB A;  2J2J A;  2W9L C;  3O8E A;  4K6U A;  2WGU A;  1UXA A;  4K6V A;  3EXV A;  1H7Z A;  4XQB A;  2J1K C;  2J12 A;  2WST A;  4XL8 A;  3CNC A;  2O39 A;  3F0Y A;  3N0I A;  1P69 A;  4K6T A;  3L89 A;  4K6W A;  4LIY A;  4XQA A;  2WGT A;  3L88 A;  2QLK A;  1QIU A;  4ZDG A;  2WBW A;  4ATZ A;  1QHV A;  3BQ4 A; 
#chains in the Genus database with same CATH topology
 4GU3 A;  1KNB A;  4WYJ A;  4GU4 A;  2WBV A;  1UXE A;  2VRS A;  2BZU A;  3QND A;  1P6A A;  1UXB A;  2BZV A;  1KAC A;  3EXW A;  2VTW A;  1NOB A;  2OJ5 A;  2J2J A;  2W9L C;  3O8E A;  2OJ6 A;  2WGU A;  4K6U A;  1UXA A;  2BT7 A;  4K6V A;  3EOY A;  3EXV A;  1H7Z A;  4CW8 A;  4XQB A;  2J1K C;  2J12 A;  2WST A;  4XL8 A;  3CNC A;  2O39 A;  3F0Y A;  2BT8 A;  3N0I A;  1P69 A;  2JJL A;  2IUM A;  5MHS A;  4K6T A;  4D62 A;  3L89 A;  4K6W A;  4LIY A;  2IUN A;  4XQA A;  3S6X A;  3ZPE A;  2WGT A;  3L88 A;  3ZPF A;  4D63 A;  2QLK A;  1QIU A;  4ODB A;  4ZDG A;  1KKE A;  2BSF A;  2WBW A;  4ATZ A;  1QHV A;  3BQ4 A;  4XC5 A; 
#chains in the Genus database with same CATH homology
 1KNB A;  4WYJ A;  2WBV A;  1UXE A;  3QND A;  2BZU A;  1P6A A;  1UXB A;  2BZV A;  1KAC A;  3EXW A;  1NOB A;  2J2J A;  2W9L C;  3O8E A;  4K6U A;  2WGU A;  1UXA A;  4K6V A;  3EXV A;  1H7Z A;  4XQB A;  2J1K C;  2J12 A;  2WST A;  4XL8 A;  3CNC A;  2O39 A;  3F0Y A;  3N0I A;  1P69 A;  4K6T A;  3L89 A;  4K6W A;  4LIY A;  4XQA A;  2WGT A;  3L88 A;  2QLK A;  1QIU A;  4ZDG A;  2WBW A;  4ATZ A;  1QHV A;  3BQ4 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...

4K6WA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

pfam database annotations