2BUU | Genus

Total Genus 54

Loading diagram...

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	54
sequence length	238
structure length	238
Chain Sequence	IIWGAYAQRNTEDHPPAYAPGYKTSVLRSPKNALISIAETLSEVTAPHFSADKFGPKDNDLILNYAKDGLPIGERVIVHGYVRDQFGRPVKNALVEVWQANASGRYRHPNDQYIGAMDPNFGGCGRMLTDDNGYYVFRTIKPGPYPWRNRINEWSPAHIHFSLIADGWAQRLISQFYFEGDTLIDSCPILKTIPSEQQRRALIALEDKSNFIEADSRCYRFDITLRGRRATYFENDLT

Loading diagram...

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__5073322308147223__ initializing

Jmol getValue debug null

Jmol getValue logLevel null

Jmol getValue allowjavascript null

AppletRegistry.checkIn(jmolApplet0__5073322308147223__)

vwrOptions:

{ "name":"jmolApplet0","applet":true,"documentBase":"https://genus.fuw.edu.pl/view/2BUU/B/","platform":"J.awtjs2d.Platform","fullName":"jmolApplet0__5073322308147223__","codePath":"https:/static/js/j2s/","display":"jmolApplet0_canvas2d","signedApplet":"true","appletReadyCallback":"Jmol._readyCallback","statusListener":"[J.appletjs.Jmol object]","syncId":"5073322308147223","bgcolor":"white" }

setting document base to "https://genus.fuw.edu.pl/view/2BUU/B/"

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__5073322308147223__ ready

script 1 started

platformSpeed = 8

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

publication title	Crystallographic Studies of Intradiol Dioxygenases. rcsb
molecule keywords	PROTOCATECHUATE 3,4-DIOXYGENASE ALPHA CHAIN
molecule tags	Oxidoreductase
source organism	Acinetobacter calcoaceticus
total genus	54
structure length	238
sequence length	238
ec nomenclature	ec 1.13.11.3: Protocatechuate 3,4-dioxygenase.
pdb deposition date	2005-06-17

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
B	PF00775	Dioxygenase_C	Dioxygenase
B	PF12391	PCDO_beta_N	Protocatechuate 3,4-dioxygenase beta subunit N terminal

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

cath code	Class	Architecture	Topology	Homology	Domain
2.60.130.10	Mainly Beta	Sandwich	Protocatechuate 3,4-Dioxygenase, subunit A	Aromatic compound dioxygenase	2buuB00

2PCDA 1EO9A 2BUMB 3N9TA 2BUZB 3PCGM 3LMXA 2BUUA 2BUWA 5TD3A 1YKPB 3PCJM 3PCDM 3MI5A 3MFLM 3T63A 2BURB 3LKTM 4WHQB 4WHPB 3PCCA 2BUYB 2BUVA 1YKNA 2BUWB 2BV0A 3HJQA 4WHRA 2BUTB 3HJSA 3PCBM 4ILVA 1YKKA 3MV4M 3PCNA 3I4YA 3T67A 3PCLM 1EOCB 3MI1A 3PCEA 1TMXA 1YKLA 1YKNB 1YKMA 2XSRA 3PCFM 4WHSB 2PCDM 4WHRB 2BUQA 3PCIM 4ILTA 4WHOB 3LMXM 3MV6M 1EO9B 2AZQA 3PCGA 3PCMA 1DLMA 2BUUB 3PCJA 1YKLB 3PCDA 3T63M 3LXVM 1S9AA 3MFLA 2BUQB 3PCKA 1EOBA 3PCCM 2BUXA 1EOAA 2BUVB 3PCHM 3HHXA 2BUZA 3PCAA 2BV0B 3T67M 3MI1M 1YKPA 3MV4A 2BOYA 1YKKB 3PCLA 1YKOA 1EOAB 3O6JA 3I4VA 3MI5M 4WHPD 2BURA 3I51A 4WHQA 1YKMB 4WHPA 1DLQA 1EO2A 3PCIA 2XSUA 2BUYA 2XSVA 3MV6A 3LKTA 3PCMM 1YKOB 3O32A 3HHYA 1DMHA 3HKPA 2BUTA 4WHRF 3PCKM 3O5UA 3LXVA 2BUMA 3PCNM 1EOCA 1EO2B 3PCBA 3O6RA 4WHSD 3PCEM 1DLTA 1EOBB 2BUXB 3TH1A 3HJ8A 4WHOD 4WHSA 3PCAM 3HGIA 3PCHA 4WHOA 3PCFA
chains in the Genus database with same CATH superfamily

#chains in the Genus database with same CATH superfamily
 2PCD A;  1EO9 A;  2BUM B;  3N9T A;  2BUZ B;  3PCG M;  3LMX A;  2BUU A;  2BUW A;  5TD3 A;  1YKP B;  3PCJ M;  3PCD M;  3MI5 A;  3MFL M;  3T63 A;  2BUR B;  3LKT M;  4WHQ B;  4WHP B;  3PCC A;  2BUY B;  2BUV A;  1YKN A;  2BUW B;  2BV0 A;  3HJQ A;  4WHR A;  2BUT B;  3HJS A;  3PCB M;  4ILV A;  1YKK A;  3MV4 M;  3PCN A;  3I4Y A;  3T67 A;  3PCL M;  1EOC B;  3MI1 A;  3PCE A;  1TMX A;  1YKL A;  1YKN B;  1YKM A;  2XSR A;  3PCF M;  4WHS B;  2PCD M;  4WHR B;  2BUQ A;  3PCI M;  4ILT A;  4WHO B;  3LMX M;  3MV6 M;  1EO9 B;  2AZQ A;  3PCG A;  3PCM A;  1DLM A;  2BUU B;  3PCJ A;  1YKL B;  3PCD A;  3T63 M;  3LXV M;  1S9A A;  3MFL A;  2BUQ B;  3PCK A;  1EOB A;  3PCC M;  2BUX A;  1EOA A;  2BUV B;  3PCH M;  3HHX A;  2BUZ A;  3PCA A;  2BV0 B;  3T67 M;  3MI1 M;  1YKP A;  3MV4 A;  2BOY A;  1YKK B;  3PCL A;  1YKO A;  1EOA B;  3O6J A;  3I4V A;  3MI5 M;  4WHP D;  2BUR A;  3I51 A;  4WHQ A;  1YKM B;  4WHP A;  1DLQ A;  1EO2 A;  3PCI A;  2XSU A;  2BUY A;  2XSV A;  3MV6 A;  3LKT A;  3PCM M;  1YKO B;  3O32 A;  3HHY A;  1DMH A;  3HKP A;  2BUT A;  4WHR F;  3PCK M;  3O5U A;  3LXV A;  2BUM A;  3PCN M;  1EOC A;  1EO2 B;  3PCB A;  3O6R A;  4WHS D;  3PCE M;  1DLT A;  1EOB B;  2BUX B;  3TH1 A;  3HJ8 A;  4WHO D;  4WHS A;  3PCA M;  3HGI A;  3PCH A;  4WHO A;  3PCF A; 
#chains in the Genus database with same CATH topology
 2PCD A;  1EO9 A;  2BUM B;  3N9T A;  2BUZ B;  3PCG M;  3LMX A;  2BUU A;  2BUW A;  5TD3 A;  1YKP B;  3PCJ M;  3PCD M;  3MI5 A;  3MFL M;  3T63 A;  2BUR B;  3LKT M;  4WHQ B;  4WHP B;  3PCC A;  2BUY B;  2BUV A;  1YKN A;  2BUW B;  2BV0 A;  3HJQ A;  4WHR A;  2BUT B;  3HJS A;  3PCB M;  4ILV A;  1YKK A;  3MV4 M;  3PCN A;  3I4Y A;  3T67 A;  3PCL M;  1EOC B;  3MI1 A;  3PCE A;  1TMX A;  1YKL A;  1YKN B;  1YKM A;  2XSR A;  3PCF M;  4WHS B;  2PCD M;  4WHR B;  2BUQ A;  3PCI M;  4ILT A;  4WHO B;  3LMX M;  3MV6 M;  1EO9 B;  2AZQ A;  3PCG A;  3PCM A;  1DLM A;  2BUU B;  3PCJ A;  1YKL B;  3PCD A;  3T63 M;  3LXV M;  1S9A A;  3MFL A;  2BUQ B;  3PCK A;  1EOB A;  3PCC M;  2BUX A;  1EOA A;  2BUV B;  3PCH M;  3HHX A;  2BUZ A;  3PCA A;  2BV0 B;  3T67 M;  3MI1 M;  1YKP A;  3MV4 A;  2BOY A;  1YKK B;  3PCL A;  1YKO A;  1EOA B;  3O6J A;  3I4V A;  3MI5 M;  4WHP D;  2BUR A;  3I51 A;  4WHQ A;  1YKM B;  4WHP A;  1DLQ A;  1EO2 A;  3PCI A;  2XSU A;  2BUY A;  2XSV A;  3MV6 A;  3LKT A;  3PCM M;  1YKO B;  3O32 A;  3HHY A;  1DMH A;  3HKP A;  2BUT A;  4WHR F;  3PCK M;  3O5U A;  3LXV A;  2BUM A;  3PCN M;  1EOC A;  1EO2 B;  3PCB A;  3O6R A;  4WHS D;  3PCE M;  1DLT A;  1EOB B;  2BUX B;  3TH1 A;  3HJ8 A;  4WHO D;  4WHS A;  3PCA M;  3HGI A;  3PCH A;  4WHO A;  3PCF A; 
#chains in the Genus database with same CATH homology
 2PCD A;  1EO9 A;  2BUM B;  3N9T A;  2BUZ B;  3PCG M;  3LMX A;  2BUU A;  2BUW A;  5TD3 A;  1YKP B;  3PCJ M;  3PCD M;  3MI5 A;  3MFL M;  3T63 A;  2BUR B;  3LKT M;  4WHQ B;  4WHP B;  3PCC A;  2BUY B;  2BUV A;  1YKN A;  2BUW B;  2BV0 A;  3HJQ A;  4WHR A;  2BUT B;  3HJS A;  3PCB M;  4ILV A;  1YKK A;  3MV4 M;  3PCN A;  3I4Y A;  3T67 A;  3PCL M;  1EOC B;  3MI1 A;  3PCE A;  1TMX A;  1YKL A;  1YKN B;  1YKM A;  2XSR A;  3PCF M;  4WHS B;  2PCD M;  4WHR B;  2BUQ A;  3PCI M;  4ILT A;  4WHO B;  3LMX M;  3MV6 M;  1EO9 B;  2AZQ A;  3PCG A;  3PCM A;  1DLM A;  2BUU B;  3PCJ A;  1YKL B;  3PCD A;  3T63 M;  3LXV M;  1S9A A;  3MFL A;  2BUQ B;  3PCK A;  1EOB A;  3PCC M;  2BUX A;  1EOA A;  2BUV B;  3PCH M;  3HHX A;  2BUZ A;  3PCA A;  2BV0 B;  3T67 M;  3MI1 M;  1YKP A;  3MV4 A;  2BOY A;  1YKK B;  3PCL A;  1YKO A;  1EOA B;  3O6J A;  3I4V A;  3MI5 M;  4WHP D;  2BUR A;  3I51 A;  4WHQ A;  1YKM B;  4WHP A;  1DLQ A;  1EO2 A;  3PCI A;  2XSU A;  2BUY A;  2XSV A;  3MV6 A;  3LKT A;  3PCM M;  1YKO B;  3O32 A;  3HHY A;  1DMH A;  3HKP A;  2BUT A;  4WHR F;  3PCK M;  3O5U A;  3LXV A;  2BUM A;  3PCN M;  1EOC A;  1EO2 B;  3PCB A;  3O6R A;  4WHS D;  3PCE M;  1DLT A;  1EOB B;  2BUX B;  3TH1 A;  3HJ8 A;  4WHO D;  4WHS A;  3PCA M;  3HGI A;  3PCH A;  4WHO A;  3PCF 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...

2BUUB

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

pfam database annotations