1EOB | Genus

Total Genus 43

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	43
sequence length	202
structure length	202
Chain Sequence	ELKETPSQTGGPYVHIGLLPKQANIEVFEHNLDNNLVQDNTQGQRIRLEGQVFDGLGLPLRDVLIEIWQADTNGVYPSQADTQGKQVDPNFLGWGRTGADFGTGFWSFNTIKPGAVPGRKGSTQAPHISLIIFARGINIGLHTRVYFDDEAEANAKDPVLNSIEWATRRQTLVAKREERDGEVVYRFDIRIQGENETVFFDI

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

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Viewer cachePut cache://localLOAD_/file/5cfb142c56e559ced255c078/pdb.gz

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The Resolver thinks Pdb

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Time for openFile(/file/5cfb142c56e559ced255c078/pdb.gz): 1314 ms

reading 202 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

202 atoms created

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

Time for creating model: 21 ms

Adding embedded #jmolscript: select ({0:201});backbone only;select *;

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

publication title	Structure of Acinetobacter strain ADP1 protocatechuate 3, 4-dioxygenase at 2.2 A resolution: implications for the mechanism of an intradiol dioxygenase. pubmed doi rcsb
molecule keywords	PROTOCATECHUATE 3,4-DIOXYGENASE ALPHA CHAIN
molecule tags	Oxidoreductase
source organism	Acinetobacter sp.
total genus	43
structure length	202
sequence length	202
ec nomenclature	ec 1.13.11.3: Protocatechuate 3,4-dioxygenase.
pdb deposition date	2000-03-22

pfam database annotations

chain	Pfam Accession Code	Pfam Family Identifier	Pfam Description
A	PF00775	Dioxygenase_C	Dioxygenase

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	1eobA00

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

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

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similar chains in the Genus database (?% sequence similarity)

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similar chains in the pdb database (?% sequence similarity)

#similar chains in the Genus database (?% sequence similarity)
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#similar chains, but unknotted
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1EOBA

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

Chord Diagram

connected with : NaN

pfam database annotations