6TYS | KnotProt

6TYSA

A potent cross-neutralizing antibody targeting the fusion glycoprotein inhibits nipah virus and hendra virus infection

Image from the <span class='capital'>rcsb pdb</span> (www.rcsb.org)

Warning

Chain breaks within knot 3₁ (displayed as a gray area on the plot and as '-' on the sequence). The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.

Genus: 131

Slipknot S +3₁

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setting document base to "https://knotprot.cent.uw.edu.pl/view/6tys/A/"

Jmol Version: 14.29.13 2018-04-17 17:17

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callback set for APPLETREADYCallback Jmol._readyCallback APPLETREADY

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language=en_US

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Jmol applet jmolApplet1__2609120659345585__ ready

Help Knotting data interpretation Full screen

					Knot core range	Knot core length	Knot tails range	Slipknot tails range	Slipknot loops range	N-end length	C-end length	Type
view details				+3₁	28-242	215	1-27	249-454	243-248	27	206	slipknot

Chain Sequence

ILHYEKLSKIGLVKGVTRKYKIKSNPLTKDIVIKMIPNVSNMSQCTGSVMENYKTRLNGILTPIKGALEIYKNCTHDL---------------GVIMAGVCIGIATAAQITAGVALYEAMKNADNINKLKSSIESTNEAVVKLQETAEKTVYVLTALQDYINTNLVPTIDKISCKQTELSLDLALSKYLSDLLFVFGPNLQDPVSNSMTIQAISQAFGGNYETLLRTLGYATEDFDDLLESDSITGQIIYVDLSSYYIIVRVYFPILTEIQQAYIQELLPVSFNNDNSEWISIVPNFILVRNTLISNIEIGFCLITKRSVICNQDYATPMTNNMRECLTGSTEKCPRELVVSSHVPRFALSNGVLFANCISVTCQCQTTGRAISQSGEQTLLMIDNTTCPTAVLGNVIISLGKYLGSVNYNSEGIAIGPPVFTDKVDISSQISSMNQSLQQSKD

Whole chain analysis

Help Knotoid data interpretation Full screen

Subchain analysis

Knotoid cutoff: 0.5

Knotoid matrix content: 1

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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__2609120659345585__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jmolApplet0__2609120659345585__)

vwrOptions:

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setting document base to "https://knotprot.cent.uw.edu.pl/view/6tys/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

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Jmol getValue popupMenu null

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Jmol getValue loadInline null

Jmol getValue load null

Jmol applet jmolApplet0__2609120659345585__ ready

script 1 started

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Viewer cachePut cache://localLOAD_/static/knot_data/6tys/A/6tys_A.pdb.gz

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FileManager.getAtomSetCollectionFromFile(/static/knot_data/6tys/A/6tys_A.pdb.gz)

The Resolver thinks Pdb

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

Time for openFile(/static/knot_data/6tys/A/6tys_A.pdb.gz): 248 ms

reading 447 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

447 atoms created

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

Time for creating model: 46 ms

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

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

FileManager.getAtomSetCollectionFromFile(/static/knot_data/6tys/A/6tys_A.pdb.gz)

The Resolver thinks Pdb

Time for openFile(/static/knot_data/6tys/A/6tys_A.pdb.gz): 16 ms

reading 447 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

447 atoms created

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

Time for creating model: 17 ms

Adding embedded #jmolscript: select ({0:446});backbone only;select *;

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cartoonsFancy = true

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traceAlpha = true

specularPower = 9

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Script completed

Jmol script terminated

Help Knotoid subchains data interpretation Full screen

					Knot core range	Knot core length	Knot tails range	Slipknot tails range	Slipknot loops range	N-end length	C-end length	Type
view details				2.1	34-247	214	1-33	261-462	248-260	33	202	slipknot

sequence length	462
structure length	447
publication title	An antibody against the F glycoprotein inhibits Nipah and Hendra virus infections. pubmed doi rcsb
molecule tags	Viral protein/immune system
molecule keywords	Fusion glycoprotein F0
source organism	Nipah virus
missing residues	79-93
total genus	Genus: 131
ec nomenclature
pdb deposition date	2019-08-09
KnotProt deposition date	2019-10-17

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

5EVMA 8DMJA
similar chains in the KnotProt database (40% sequence similarity)

6T3FF 7KI4A 7UPAA 7UPKA 8DO4A 8RVNB 9LNGA
similar chains in the pdb database (40% sequence similarity)

#similar chains in the KnotProt database (40% sequence similarity)
5EVM A; 
#similar chains, but unknotted
8DMJ A; 
#similar chains in the pdb database (40% sequence similarity)
6T3F F; 7KI4 A; 7UPA A; 7UPK A; 8DO4 A; 8RVN B; 9LNG A;

How to cite

KnotProt | Interdisciplinary Laboratory of Biological Systems Modelling

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6TYSA

Slipknot S +31

Chain Sequence

Slipknot S +3₁