5TK9 | Genus

Total Genus 70

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	70
sequence length	191
structure length	191
Chain Sequence	SSLLDIIYQLRQVPRWDGSFQFEKEDVSQHSFSVIAISHILCELKETLEGKKINKEKLLLYALYHDVTEVVSTHIISPVKKNSILKDPFNAFREQIKNSLFDNLPITLSDTLSTILNNNDLEIQEIVEHADHVDAYCKSCIEVHRGNKDFISIQRSLGDKLDNLTKEYPYLKEFQNLFLKDFPLENKNYRY

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__09592034191927334__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jmolApplet0__09592034191927334__)

vwrOptions:

{ "name":"jmolApplet0","applet":true,"documentBase":"https://genus.fuw.edu.pl/view/5TK9/A/","platform":"J.awtjs2d.Platform","fullName":"jmolApplet0__09592034191927334__","codePath":"https:/static/js/j2s/","display":"jmolApplet0_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"09592034191927334","bgcolor":"white" }

setting document base to "https://genus.fuw.edu.pl/view/5TK9/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__09592034191927334__ ready

script 1 started

platformSpeed = 8

Viewer cachePut cache://localLOAD_/file/5d01c1a361551dfd2cf6d4da/pdb.gz

Viewer cachePut https://genus.fuw.edu.pl/file/5d01c1a361551dfd2cf6d4da/pdb.gz

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	Metal binding protein
source organism	Bacillus megaterium
publication title	An HD domain phosphohydrolase active site tailored for oxetanocin-A biosynthesis. pubmed doi rcsb
molecule keywords	OxsA protein
total genus	70
structure length	191
sequence length	191
ec nomenclature
pdb deposition date	2016-10-06

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF01966	HD	HD domain

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

cath code	Class	Architecture	Topology	Homology	Domain
1.10.3210.10	Mainly Alpha	Orthogonal Bundle	Hypothetical protein af1432	Hypothetical protein af1432	5tk9A00

4N71A 5AO0A 3TMCA 1U6ZA 2HEKA 1YNBA 4TO6A 3P3QA 1YOYA 2PGSA 5TK7A 4ME4A 2PARA 1XX7A 3MEMA 5AO2A 5TK9A 3CCGA 3BG2A 4QG1A 4BZCA 3IRHA 4MCWA 4TNXA 3MZOA 4QG0A 3M1TA 3LJXA 2DQBA 5TKAA 4XDSA 4MLNA 3TM8A 2PAQA 4X9EA 4TO1A 5AO1A 4MDZA 4TO4A 4QFXA 3NQWA 4RXQA 2OGIA 3U1NA 4RXOA 1VQRA 4BZBA 4QG4A 4L7WA 2O6IA 4R8ZA 3TMDA 5TK6A 4TNRA 2O08A 4QG2A 2GZ4A 3TMBA 4RXRA 3I7AA 4QFZA 4MLMA 4RXSA 4RXPA 4LRLA 3HI0A 4ZWGA 2CQZA 4L1JA 4TNZA 4TO0A 4L7EA 4DMBA 4Q7HA 4TNQA 3KH1A 4N6WA 4TO3A 2Q14A 2PAUA 4TNYA 5AO4A 3NR1A 3RF0A 4TNPA 1VJ7A 4TO5A 4QFYA 5TK8A 5AO3A 2FLOA 4MZ7A 3HC1A 2PQ7A 4TO2A 4ZWEA 4L1JB
chains in the Genus database with same CATH superfamily

4N71A 5AO0A 3TMCA 1U6ZA 2HEKA 4QQWA 1YNBA 4TO6A 3P3QA 1YOYA 4QQXA 2PGSA 5TK7A 4ME4A 2PARA 3S4LA 1XX7A 3MEMA 3KQ5A 5AO2A 5TK9A 3CCGA 3BG2A 4QG1A 4BZCA 3IRHA 4MCWA 4TNXA 3MZOA 4QG0A 3M1TA 3LJXA 2DQBA 5TKAA 4XDSA 4MLNA 3TM8A 2PAQA 4X9EA 4TO1A 5AO1A 4MDZA 4TO4A 4QFXA 3NQWA 4RXQA 4Q2CA 4QQYA 2OGIA 3U1NA 4RXOA 1VQRA 4BZBA 4QG4A 4L7WA 2O6IA 4R8ZA 3TMDA 5TK6A 4TNRA 2O08A 4QG2A 4QQZA 2GZ4A 3TMBA 4RXRA 3I7AA 4QFZA 4MLMA 4RXSA 4RXPA 3SKDA 4LRLA 3HI0A 4ZWGA 2CQZA 3GW7A 4L1JA 4TNZA 4TO0A 4L7EA 4DMBA 4Q2DA 4Q7HA 4TNQA 3KH1A 4N6WA 4TO3A 2Q14A 2PAUA 4TNYA 3SK9A 5AO4A 3NR1A 3RF0A 4TNPA 1VJ7A 4TO5A 4QFYA 5TK8A 5AO3A 2FLOA 4MZ7A 3HC1A 2PQ7A 4TO2A 4ZWEA 4L1JB
chains in the Genus database with same CATH topology

#chains in the Genus database with same CATH superfamily
 4N71 A;  5AO0 A;  3TMC A;  1U6Z A;  2HEK A;  1YNB A;  4TO6 A;  3P3Q A;  1YOY A;  2PGS A;  5TK7 A;  4ME4 A;  2PAR A;  1XX7 A;  3MEM A;  5AO2 A;  5TK9 A;  3CCG A;  3BG2 A;  4QG1 A;  4BZC A;  3IRH A;  4MCW A;  4TNX A;  3MZO A;  4QG0 A;  3M1T A;  3LJX A;  2DQB A;  5TKA A;  4XDS A;  4MLN A;  3TM8 A;  2PAQ A;  4X9E A;  4TO1 A;  5AO1 A;  4MDZ A;  4TO4 A;  4QFX A;  3NQW A;  4RXQ A;  2OGI A;  3U1N A;  4RXO A;  1VQR A;  4BZB A;  4QG4 A;  4L7W A;  2O6I A;  4R8Z A;  3TMD A;  5TK6 A;  4TNR A;  2O08 A;  4QG2 A;  2GZ4 A;  3TMB A;  4RXR A;  3I7A A;  4QFZ A;  4MLM A;  4RXS A;  4RXP A;  4LRL A;  3HI0 A;  4ZWG A;  2CQZ A;  4L1J A;  4TNZ A;  4TO0 A;  4L7E A;  4DMB A;  4Q7H A;  4TNQ A;  3KH1 A;  4N6W A;  4TO3 A;  2Q14 A;  2PAU A;  4TNY A;  5AO4 A;  3NR1 A;  3RF0 A;  4TNP A;  1VJ7 A;  4TO5 A;  4QFY A;  5TK8 A;  5AO3 A;  2FLO A;  4MZ7 A;  3HC1 A;  2PQ7 A;  4TO2 A;  4ZWE A;  4L1J B; 
#chains in the Genus database with same CATH topology
 4N71 A;  5AO0 A;  3TMC A;  1U6Z A;  2HEK A;  4QQW A;  1YNB A;  4TO6 A;  3P3Q A;  1YOY A;  4QQX A;  2PGS A;  5TK7 A;  4ME4 A;  2PAR A;  3S4L A;  1XX7 A;  3MEM A;  3KQ5 A;  5AO2 A;  5TK9 A;  3CCG A;  3BG2 A;  4QG1 A;  4BZC A;  3IRH A;  4MCW A;  4TNX A;  3MZO A;  4QG0 A;  3M1T A;  3LJX A;  2DQB A;  5TKA A;  4XDS A;  4MLN A;  3TM8 A;  2PAQ A;  4X9E A;  4TO1 A;  5AO1 A;  4MDZ A;  4TO4 A;  4QFX A;  3NQW A;  4RXQ A;  4Q2C A;  4QQY A;  2OGI A;  3U1N A;  4RXO A;  1VQR A;  4BZB A;  4QG4 A;  4L7W A;  2O6I A;  4R8Z A;  3TMD A;  5TK6 A;  4TNR A;  2O08 A;  4QG2 A;  4QQZ A;  2GZ4 A;  3TMB A;  4RXR A;  3I7A A;  4QFZ A;  4MLM A;  4RXS A;  4RXP A;  3SKD A;  4LRL A;  3HI0 A;  4ZWG A;  2CQZ A;  3GW7 A;  4L1J A;  4TNZ A;  4TO0 A;  4L7E A;  4DMB A;  4Q2D A;  4Q7H A;  4TNQ A;  3KH1 A;  4N6W A;  4TO3 A;  2Q14 A;  2PAU A;  4TNY A;  3SK9 A;  5AO4 A;  3NR1 A;  3RF0 A;  4TNP A;  1VJ7 A;  4TO5 A;  4QFY A;  5TK8 A;  5AO3 A;  2FLO A;  4MZ7 A;  3HC1 A;  2PQ7 A;  4TO2 A;  4ZWE A;  4L1J B; 
#chains in the Genus database with same CATH homology
 4N71 A;  5AO0 A;  3TMC A;  1U6Z A;  2HEK A;  4QQW A;  1YNB A;  4TO6 A;  3P3Q A;  1YOY A;  4QQX A;  2PGS A;  5TK7 A;  4ME4 A;  2PAR A;  3S4L A;  1XX7 A;  3MEM A;  3KQ5 A;  5AO2 A;  5TK9 A;  3CCG A;  3BG2 A;  4QG1 A;  4BZC A;  3IRH A;  4MCW A;  4TNX A;  3MZO A;  4QG0 A;  3M1T A;  3LJX A;  2DQB A;  5TKA A;  4XDS A;  4MLN A;  3TM8 A;  2PAQ A;  4X9E A;  4TO1 A;  5AO1 A;  4MDZ A;  4TO4 A;  4QFX A;  3NQW A;  4RXQ A;  4Q2C A;  4QQY A;  2OGI A;  3U1N A;  4RXO A;  1VQR A;  4BZB A;  4QG4 A;  4L7W A;  2O6I A;  4R8Z A;  3TMD A;  5TK6 A;  4TNR A;  2O08 A;  4QG2 A;  4QQZ A;  2GZ4 A;  3TMB A;  4RXR A;  3I7A A;  4QFZ A;  4MLM A;  4RXS A;  4RXP A;  3SKD A;  4LRL A;  3HI0 A;  4ZWG A;  2CQZ A;  3GW7 A;  4L1J A;  4TNZ A;  4TO0 A;  4L7E A;  4DMB A;  4Q2D A;  4Q7H A;  4TNQ A;  3KH1 A;  4N6W A;  4TO3 A;  2Q14 A;  2PAU A;  4TNY A;  3SK9 A;  5AO4 A;  3NR1 A;  3RF0 A;  4TNP A;  1VJ7 A;  4TO5 A;  4QFY A;  5TK8 A;  5AO3 A;  2FLO A;  4MZ7 A;  3HC1 A;  2PQ7 A;  4TO2 A;  4ZWE A;  4L1J B;

...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...

5TK9A

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations