4X2S | KnotProt

4X2SA

Crystal structure of 276s/m395r-gltph in inward-facing conformation

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 The broken part of the chain has been replaced by a straight segment, which may affect what knot types are detected - be careful with interpreting results.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: 118

Slipknot S +3₁

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callback set for APPLETREADYCallback Jmol._readyCallback APPLETREADY

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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	46-311	266	1-45	333-405	312-332	45	73	slipknot

Chain Sequence

VLQKILIGLILGAIVGLILGHYGYAHAVHTYVKPFGDLFVRLLKMLVMPIVFASLVVGAASISPARLGRVGVKIVVYYLLTSAFAVTLGIIMARLFNPGAGIHLAVGGQQFQPHQAPPLVHILLDIVPTNPFGALANGQVLPTIFFAIILGIAITYLMNSENEKVRKSAETLLDAINGLAEAMYKIVNGVMQYAPIGVFALIAYVMAEQGVHVVGELAKVTAAVYVGLTLQILLVYFVLLKIYGIDPISFIKHAKDAMLTAFVTSSSSGTLPVTMRVAKEMGISEGIYSFTLPLGATINMDGTALYQGVATFFIANALGSHLTVGQQLTIVLTAVLASIGTAGVPGAGAIMLAMVLHSVGLPLTDPNVAAAYAMILGIDAILDRGRTMVNVTGDLTGTAIVAKTE

Whole chain analysis

Help Knotoid data interpretation Full screen

Subchain analysis

Knotoid cutoff: 0.5

Knotoid matrix content: 1

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Jmol JavaScript applet jmolApplet0__568294079853096__ initializing

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AppletRegistry.checkIn(jmolApplet0__568294079853096__)

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setting document base to "https://knotprot.cent.uw.edu.pl/view/4x2s/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

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Jmol getValue LOADSTRUCTCallback null

Jmol getValue MEASURECallback null

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Jmol getValue SERVICECallback null

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Jmol getValue RESIZECallback null

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Jmol getValue doTranslate null

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Viewer cachePut cache://localLOAD_/static/knot_data/4x2s/A/4x2s_A.pdb.gz

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FileManager.getAtomSetCollectionFromFile(/static/knot_data/4x2s/A/4x2s_A.pdb.gz)

The Resolver thinks Pdb

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

Time for openFile(/static/knot_data/4x2s/A/4x2s_A.pdb.gz): 548 ms

reading 405 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

405 atoms created

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

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FileManager.getAtomSetCollectionFromFile(/static/knot_data/4x2s/A/4x2s_A.pdb.gz)

The Resolver thinks Pdb

Time for openFile(/static/knot_data/4x2s/A/4x2s_A.pdb.gz): 31 ms

reading 405 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

405 atoms created

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

Time for creating model: 75 ms

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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	3.1	44-305	262	1-43	340-405	306-339	43	66	slipknot
view details	2.1	38-351	314	1-37	363-405	352-362	37	43	slipknot
view details	2.1	42-354	313		1-38, 360-405	39-41, 355-359	38	46	slipknot
view details	1.1	54-311	258		1-45, 322-405	46-53, 312-321	45	84	slipknot
view details	1.1	51-333	283		1-45, 337-405	46-50, 334-336	45	69	slipknot
view details	1.1	56-325	270		1-47, 333-405	48-55, 326-332	47	73	slipknot
view details	2.1	56-321	266		1-52, 326-405	53-55, 322-325	52	80	slipknot

sequence length	405
structure length	405
publication title	Transport domain motions in a glutamate transporter homologue determine turnover rate doi rcsb
molecule tags	Transport protein
molecule keywords	425aa long hypothetical proton glutamate symport protein
source organism	Pyrococcus horikoshii
total genus	Genus: 118
ec nomenclature
pdb deposition date	2014-11-26
KnotProt deposition date	2015-02-05

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

1XFHA 2NWWA 2NWXA 4OYFA
similar chains in the KnotProt database (40% sequence similarity)

6UWFA 6UWLA 6X17A 7AHKA 9BH1A
similar chains in the pdb database (40% sequence similarity)

#similar chains in the KnotProt database (40% sequence similarity)
1XFH A; 2NWW A; 2NWX A; 4OYF A; 
#similar chains, but unknotted

#similar chains in the pdb database (40% sequence similarity)
6UWF A; 6UWL A; 6X17 A; 7AHK A; 9BH1 A;

How to cite

KnotProt | Interdisciplinary Laboratory of Biological Systems Modelling

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4X2SA

Slipknot S +31

Chain Sequence

Slipknot S +3₁