3T91 | Genus

Total Genus 40

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	40
sequence length	224
structure length	210
Chain Sequence	AMSYRVSTGAAHAAKGGGLVSGDSYSMMELGARKYAAAISDGRAHFESNETIKLLEKILESGIDEKIAIKTINSILSLRIYSTLDLSIIDLQDASCKFLKVGSTPSFIKRGDQVMKVQASIINEFDVEVVSEQLKAGDLLIMMSDGIFEGPKHVENHDLWMKRKMKGLKTNDPQEIADLLMEEVIRTRSGQIEDDMTVVVVRIDHNTPKW

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__7272763032582423__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jmolApplet0__7272763032582423__)

vwrOptions:

{ "name":"jmolApplet0","applet":true,"documentBase":"https://genus.fuw.edu.pl/view/3T91/A/","platform":"J.awtjs2d.Platform","fullName":"jmolApplet0__7272763032582423__","codePath":"https:/static/js/j2s/","display":"jmolApplet0_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"7272763032582423","bgcolor":"white" }

setting document base to "https://genus.fuw.edu.pl/view/3T91/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__7272763032582423__ ready

script 1 started

platformSpeed = 8

Viewer cachePut cache://localLOAD_/file/5d03090e6ce9cf02e6076129/pdb.gz

Viewer cachePut https://genus.fuw.edu.pl/file/5d03090e6ce9cf02e6076129/pdb.gz

FileManager.getAtomSetCollectionFromFile(/file/5d03090e6ce9cf02e6076129/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/5d03090e6ce9cf02e6076129/pdb.gz): 239 ms

reading 210 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

210 atoms created

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

Time for creating model: 22 ms

Adding embedded #jmolscript: select ({0:209});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	Hydrolase
source organism	Bacillus subtilis
publication title	Structure of the phosphatase domain of the cell fate determinant SpoIIE from Bacillus subtilis. pubmed doi rcsb
molecule keywords	Stage II sporulation protein E
total genus	40
structure length	210
sequence length	224
chains with identical sequence	B
ec nomenclature	ec 3.1.3.16: Protein-serine/threonine phosphatase.
pdb deposition date	2011-08-02

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF07228	SpoIIE	Stage II sporulation protein E (SpoIIE)

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

cath code	Class	Architecture	Topology	Homology	Domain
3.60.40.10	Alpha Beta	4-Layer Sandwich	Phosphatase 2c; domain 1	PPM-type phosphatase domain	3t91A00

3W41A 4LGAB 3ES2A 3NMVB 3W45A 1TXOA 3D8KA 4WVOB 2V06A 4YZHA 3F79A 3QN1B 3JRQA 3KE6A 3KB3B 4RAGA 3RNRA 3FXJA 3W44A 2POMA 5ITIA 2XZVA 5JO1B 4LGBB 4RAFA 3W43A 2CM1A 3UJGB 5D2UA 4DA1A 3RT0A 2J86A 1A6QA 2PNQA 2JFRA 3W40A 2IQ1A 3T9QA 4JNDA 3PU9A 2J82A 2JFSA 3KDJB 4N0GA 5F1MA 3FXKA 3T91A 5JO2B 2ISNA 3FXLA 2J4OA 3EQ2A 2POPA 3W42A 2I44A 3ZVUB 3MQ3A 2Y09A 3NMNB 3ZT9A 3FXOA 3UJLB 2PK0A 2JFTA 2I0OA 2P8EA 4OICB 3FXMA 4LA7B 4LG5B 4YZGA 3NMTB 3UJKA 4DS8B 2IRMA 4RA2A 3N3CA
chains in the Genus database with same CATH superfamily

3W41A 4LGAB 3ES2A 3NMVB 3W45A 1TXOA 3D8KA 4WVOB 2V06A 4YZHA 3F79A 3QN1B 3JRQA 3KE6A 3KB3B 4RAGA 3RNRA 3FXJA 3W44A 2POMA 5ITIA 2XZVA 5JO1B 4LGBB 4RAFA 3W43A 2CM1A 3UJGB 5D2UA 4DA1A 3RT0A 2J86A 1A6QA 2PNQA 2JFRA 3W40A 2IQ1A 3T9QA 4JNDA 3PU9A 2J82A 2JFSA 3KDJB 4N0GA 5F1MA 3FXKA 3T91A 5JO2B 2ISNA 3FXLA 2J4OA 4IIPA 3EQ2A 2POPA 3W42A 2I44A 3ZVUB 3MQ3A 2Y09A 3NMNB 3ZT9A 4IIKA 3FXOA 3UJLB 2PK0A 2JFTA 2I0OA 2P8EA 4OICB 3FXMA 4LA7B 4LG5B 4YZGA 3NMTB 3UJKA 4DS8B 2IRMA 4RA2A 3N3CA
chains in the Genus database with same CATH topology

#chains in the Genus database with same CATH superfamily
 3W41 A;  4LGA B;  3ES2 A;  3NMV B;  3W45 A;  1TXO A;  3D8K A;  4WVO B;  2V06 A;  4YZH A;  3F79 A;  3QN1 B;  3JRQ A;  3KE6 A;  3KB3 B;  4RAG A;  3RNR A;  3FXJ A;  3W44 A;  2POM A;  5ITI A;  2XZV A;  5JO1 B;  4LGB B;  4RAF A;  3W43 A;  2CM1 A;  3UJG B;  5D2U A;  4DA1 A;  3RT0 A;  2J86 A;  1A6Q A;  2PNQ A;  2JFR A;  3W40 A;  2IQ1 A;  3T9Q A;  4JND A;  3PU9 A;  2J82 A;  2JFS A;  3KDJ B;  4N0G A;  5F1M A;  3FXK A;  3T91 A;  5JO2 B;  2ISN A;  3FXL A;  2J4O A;  3EQ2 A;  2POP A;  3W42 A;  2I44 A;  3ZVU B;  3MQ3 A;  2Y09 A;  3NMN B;  3ZT9 A;  3FXO A;  3UJL B;  2PK0 A;  2JFT A;  2I0O A;  2P8E A;  4OIC B;  3FXM A;  4LA7 B;  4LG5 B;  4YZG A;  3NMT B;  3UJK A;  4DS8 B;  2IRM A;  4RA2 A;  3N3C A; 
#chains in the Genus database with same CATH topology
 3W41 A;  4LGA B;  3ES2 A;  3NMV B;  3W45 A;  1TXO A;  3D8K A;  4WVO B;  2V06 A;  4YZH A;  3F79 A;  3QN1 B;  3JRQ A;  3KE6 A;  3KB3 B;  4RAG A;  3RNR A;  3FXJ A;  3W44 A;  2POM A;  5ITI A;  2XZV A;  5JO1 B;  4LGB B;  4RAF A;  3W43 A;  2CM1 A;  3UJG B;  5D2U A;  4DA1 A;  3RT0 A;  2J86 A;  1A6Q A;  2PNQ A;  2JFR A;  3W40 A;  2IQ1 A;  3T9Q A;  4JND A;  3PU9 A;  2J82 A;  2JFS A;  3KDJ B;  4N0G A;  5F1M A;  3FXK A;  3T91 A;  5JO2 B;  2ISN A;  3FXL A;  2J4O A;  4IIP A;  3EQ2 A;  2POP A;  3W42 A;  2I44 A;  3ZVU B;  3MQ3 A;  2Y09 A;  3NMN B;  3ZT9 A;  4IIK A;  3FXO A;  3UJL B;  2PK0 A;  2JFT A;  2I0O A;  2P8E A;  4OIC B;  3FXM A;  4LA7 B;  4LG5 B;  4YZG A;  3NMT B;  3UJK A;  4DS8 B;  2IRM A;  4RA2 A;  3N3C A; 
#chains in the Genus database with same CATH homology
 3W41 A;  4LGA B;  3ES2 A;  3NMV B;  3W45 A;  1TXO A;  3D8K A;  4WVO B;  2V06 A;  4YZH A;  3F79 A;  3QN1 B;  3JRQ A;  3KE6 A;  3KB3 B;  4RAG A;  3RNR A;  3FXJ A;  3W44 A;  2POM A;  5ITI A;  2XZV A;  5JO1 B;  4LGB B;  4RAF A;  3W43 A;  2CM1 A;  3UJG B;  5D2U A;  4DA1 A;  3RT0 A;  2J86 A;  1A6Q A;  2PNQ A;  2JFR A;  3W40 A;  2IQ1 A;  3T9Q A;  4JND A;  3PU9 A;  2J82 A;  2JFS A;  3KDJ B;  4N0G A;  5F1M A;  3FXK A;  3T91 A;  5JO2 B;  2ISN A;  3FXL A;  2J4O A;  3EQ2 A;  2POP A;  3W42 A;  2I44 A;  3ZVU B;  3MQ3 A;  2Y09 A;  3NMN B;  3ZT9 A;  3FXO A;  3UJL B;  2PK0 A;  2JFT A;  2I0O A;  2P8E A;  4OIC B;  3FXM A;  4LA7 B;  4LG5 B;  4YZG A;  3NMT B;  3UJK A;  4DS8 B;  2IRM A;  4RA2 A;  3N3C 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...

3T91A

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

pfam database annotations