5FMT | Genus

Total Genus 41

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	41
sequence length	134
structure length	134
Chain Sequence	GAASMCDNWQATIDTLQGASPVFDKPKLSQKLLEKPPFRFLHDVVTAVQQATGFAPGLYQGDELDGKAIQEKDAKVAYLKKIIEVVSMVLGEQCPARPNKIVAGLEPENTNIFLQMLGRACQKGNGAKAVQKVL

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__159466220793607__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jmolApplet0__159466220793607__)

vwrOptions:

{ "name":"jmolApplet0","applet":true,"documentBase":"https://genus.fuw.edu.pl/view/5FMT/A/","platform":"J.awtjs2d.Platform","fullName":"jmolApplet0__159466220793607__","codePath":"https:/static/js/j2s/","display":"jmolApplet0_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"159466220793607","bgcolor":"white" }

setting document base to "https://genus.fuw.edu.pl/view/5FMT/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__159466220793607__ ready

script 1 started

platformSpeed = 8

Viewer cachePut cache://localLOAD_/file/5d0111bb62bc07848fda800c/pdb.gz

Viewer cachePut https://genus.fuw.edu.pl/file/5d0111bb62bc07848fda800c/pdb.gz

FileManager.getAtomSetCollectionFromFile(/file/5d0111bb62bc07848fda800c/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/5d0111bb62bc07848fda800c/pdb.gz): 199 ms

reading 134 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

134 atoms created

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

Time for creating model: 18 ms

Adding embedded #jmolscript: select ({0:133});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

molecule tags	Protein transport
source organism	Chlamydomonas reinhardtii
publication title	Intraflagellar Transport Proteins 172, 80, 57, 54, 38, and 20 Form a Stable Tubulin-Binding Ift-B2 Complex. pubmed doi rcsb
molecule keywords	FLAGELLAR ASSOCIATED PROTEIN
total genus	41
structure length	134
sequence length	134
chains with identical sequence	B
ec nomenclature
pdb deposition date	2015-11-09

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF10243	MIP-T3	Microtubule-binding protein MIP-T3 CH-like domain

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

cath code	Class	Architecture	Topology	Homology	Domain
1.10.418.50	Mainly Alpha	Orthogonal Bundle	Actin-binding Protein, T-fimbrin; domain 1	Actin-binding Protein, T-fimbrin; domain 1	5fmtA01

5FMUA 5FMTA 2EQOA
chains in the Genus database with same CATH superfamily

3F7PA 1WIXA 4TXIA 1P5SA 3JAKM 1H67A 1V5KA 2K2RA 2VE7C 1WYLA 2IGPA 4B7LA 4DDPA 5A38A 3KMWB 4Q59A 1P2XA 2VE7A 2HKPA 2VZDA 4EDMA 2HL9A 2EQOA 2D89A 5A4BA 4LVPA 2R8UA 4Q57B 1BKRA 2D88A 3KY9A 2JV9A 2DK9A 2EE7A 2L3GA 3VP7A 1EUVA 4Q58A 2WA7A 1WYQA 1SH5A 2YRNA 2WA6A 5A37A 1DXXA 4LVRA 2K3SA 3JALM 1UEGA 1WKUA 3JARM 1QAGA 1PA7A 2HL8A 3HOCA 3EAYA 2VZCA 3HOPA 2D85A 2E9KA 3HORA 5A36A 3I6XA 2D86A 2D87A 1RT8A 1TJTA 5FMUA 2R0OA 2QJZA 3CO1A 5J8EA 2RR8A 3REPB 1SH6A 2EYNA 2WE6A 1WYMA 1WYRA 1WYPA 1UJOA 1VKAA 5FMTA 4EDLA 1AA2A 3KMUB 1BHDA 2WFNA 5L0OA 2VZIB 2WA5A 4EDNA 5BVRA 1WYOA 1WJOA 4TXKA 2QJXA 1AOAA 1WYNA 1PXYA 2EYIA 3FERA 1MB8A 2VZGB 2WDTA
chains in the Genus database with same CATH topology

2EQOA 1EUVA 2HL8A 2VE7A 4LVRA 2VE7C 2IGPA 5FMUA 2HKPA 2WE6A 3EAYA 4LVPA 4DDPA 5FMTA 2WDTA 3VP7A 2HL9A
chains in the Genus database with same CATH homology

#chains in the Genus database with same CATH superfamily
 5FMU A;  5FMT A;  2EQO A; 
#chains in the Genus database with same CATH topology
 3F7P A;  1WIX A;  4TXI A;  1P5S A;  3JAK M;  1H67 A;  1V5K A;  2K2R A;  2VE7 C;  1WYL A;  2IGP A;  4B7L A;  4DDP A;  5A38 A;  3KMW B;  4Q59 A;  1P2X A;  2VE7 A;  2HKP A;  2VZD A;  4EDM A;  2HL9 A;  2EQO A;  2D89 A;  5A4B A;  4LVP A;  2R8U A;  4Q57 B;  1BKR A;  2D88 A;  3KY9 A;  2JV9 A;  2DK9 A;  2EE7 A;  2L3G A;  3VP7 A;  1EUV A;  4Q58 A;  2WA7 A;  1WYQ A;  1SH5 A;  2YRN A;  2WA6 A;  5A37 A;  1DXX A;  4LVR A;  2K3S A;  3JAL M;  1UEG A;  1WKU A;  3JAR M;  1QAG A;  1PA7 A;  2HL8 A;  3HOC A;  3EAY A;  2VZC A;  3HOP A;  2D85 A;  2E9K A;  3HOR A;  5A36 A;  3I6X A;  2D86 A;  2D87 A;  1RT8 A;  1TJT A;  5FMU A;  2R0O A;  2QJZ A;  3CO1 A;  5J8E A;  2RR8 A;  3REP B;  1SH6 A;  2EYN A;  2WE6 A;  1WYM A;  1WYR A;  1WYP A;  1UJO A;  1VKA A;  5FMT A;  4EDL A;  1AA2 A;  3KMU B;  1BHD A;  2WFN A;  5L0O A;  2VZI B;  2WA5 A;  4EDN A;  5BVR A;  1WYO A;  1WJO A;  4TXK A;  2QJX A;  1AOA A;  1WYN A;  1PXY A;  2EYI A;  3FER A;  1MB8 A;  2VZG B;  2WDT A; 
#chains in the Genus database with same CATH homology
 2EQO A;  1EUV A;  2HL8 A;  2VE7 A;  4LVR A;  2VE7 C;  2IGP A;  5FMU A;  2HKP A;  2WE6 A;  3EAY A;  4LVP A;  4DDP A;  5FMT A;  2WDT A;  3VP7 A;  2HL9 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...

5FMTA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations