1YKLB

Protocatechuate 3,4-dioxygenase y408c mutant bound to dhb
Total Genus 55
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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
55
sequence length
238
structure length
238
Chain Sequence
PAQDNSRFVIRDRNWHPKALTPDYKTSIARSPRQALVSIPQSISETTGPNFSHLGFGAHDHDLLLNFNNGGLPIGERIIVAGRVVDQYGKPVPNTLVEMWQANAGGRCRHKNDRYLAPLDPNFGGVGRCLTDSDGYYSFRTIKPGPYPWRNGPNDWRPAHIHFGISGPSIATKLITQLYFEGDPLIPMCPIVKSIANPEAVQQLIAKLDMNNANPMDCLAYRFDIVLRGQRKTHFENC
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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

After clicking on a point (x,y) in the genus matrix above, a subchain from x to y is shown in color.

molecule tags Oxidoreductase
molecule keywords Protocatechuate 3,4-dioxygenase alpha chain
publication title Roles of the equatorial tyrosyl iron ligand of protocatechuate 3,4-dioxygenase in catalysis
pubmed doi rcsb
source organism Pseudomonas putida
total genus 55
structure length 238
sequence length 238
chains with identical sequence D, F, H, J, L
ec nomenclature ec 1.13.11.3: Protocatechuate 3,4-dioxygenase.
pdb deposition date 2005-01-18

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
ClassArchitectureTopologyHomologyDomain
2.60.130.10 Mainly Beta Sandwich Protocatechuate 3,4-Dioxygenase, subunit A Aromatic compound dioxygenase 1yklB00
4WHRF 2XSUA 2PCDA 3PCDA 3LKTM 3I51A 1EO9A 3I4YA 4WHSD 5TD3A 3MI5A 2BUUB 3LKTA 3PCGM 1EOBB 1EOBA 3PCJM 2XSRA 1TMXA 3MV6M 3PCGA 1EOAB 4ILVA 3PCMM 3MFLM 1YKKA 3LXVM 3PCJA 4WHPD 4WHRB 2BUXA 2BURA 2BURB 3PCMA 1DLQA 3MFLA 2BUVB 1DMHA 3LXVA 3HJ8A 1EO2B 3HHXA 1YKNA 1YKNB 3PCHM 3O6JA 2BUUA 4WHOD 3MV4M 3PCBM 3MI1M 1DLTA 2BOYA 3PCKM 3N9TA 3PCFM 2BUTA 2BUTB 1EOAA 3PCBA 2XSVA 3PCKA 3HJSA 4WHRA 3PCFA 3MV6A 3LMXM 3PCEM 3TH1A 3PCNM 2BUVA 2BUYA 2BUYB 3PCCA 3PCIM 3LMXA 3PCEA 1EO2A 3PCNA 1DLMA 1YKLB 3HGIA 4WHQA 2AZQA 2BUWA 2BUWB 3PCAM 4WHQB 1S9AA 4WHSB 3HHYA 3O32A 4ILTA 3PCIA 3T67M 3PCHA 1YKMB 3MV4A 1EOCB 1EOCA 3T63M 3MI1A 3O5UA 3I4VA 3HJQA 3O6RA 3MI5M 2BV0A 2BV0B 3T63A 4WHPB 4WHPA 1EO9B 2BUZA 2BUZB 3PCLM 1YKPB 1YKPA 1YKLA 3PCLA 1YKOA 1YKOB 3HKPA 4WHSA 3PCCM 3PCDM 2BUQB 2BUQA 4WHOB 4WHOA 3PCAA 2BUMB 2BUMA 1YKKB 2PCDM 1YKMA 3T67A 2BUXB
chains in the Genus database with same CATH superfamily
4WHRF 2XSUA 2PCDA 3PCDA 3LKTM 3I51A 1EO9A 3I4YA 4WHSD 5TD3A 3MI5A 2BUUB 3LKTA 3PCGM 1EOBB 1EOBA 3PCJM 2XSRA 1TMXA 3MV6M 3PCGA 1EOAB 4ILVA 3PCMM 3MFLM 1YKKA 3LXVM 3PCJA 4WHPD 4WHRB 2BUXA 2BURA 2BURB 3PCMA 1DLQA 3MFLA 2BUVB 1DMHA 3LXVA 3HJ8A 1EO2B 3HHXA 1YKNA 1YKNB 3PCHM 3O6JA 2BUUA 4WHOD 3MV4M 3PCBM 3MI1M 1DLTA 2BOYA 3PCKM 3N9TA 3PCFM 2BUTA 2BUTB 1EOAA 3PCBA 2XSVA 3PCKA 3HJSA 4WHRA 3PCFA 3MV6A 3LMXM 3PCEM 3TH1A 3PCNM 2BUVA 2BUYA 2BUYB 3PCCA 3PCIM 3LMXA 3PCEA 1EO2A 3PCNA 1DLMA 1YKLB 3HGIA 4WHQA 2AZQA 2BUWA 2BUWB 3PCAM 4WHQB 1S9AA 4WHSB 3HHYA 3O32A 4ILTA 3PCIA 3T67M 3PCHA 1YKMB 3MV4A 1EOCB 1EOCA 3T63M 3MI1A 3O5UA 3I4VA 3HJQA 3O6RA 3MI5M 2BV0A 2BV0B 3T63A 4WHPB 4WHPA 1EO9B 2BUZA 2BUZB 3PCLM 1YKPB 1YKPA 1YKLA 3PCLA 1YKOA 1YKOB 3HKPA 4WHSA 3PCCM 3PCDM 2BUQB 2BUQA 4WHOB 4WHOA 3PCAA 2BUMB 2BUMA 1YKKB 2PCDM 1YKMA 3T67A 2BUXB
chains in the Genus database with same CATH topology
4WHRF 2XSUA 2PCDA 3PCDA 3LKTM 3I51A 1EO9A 3I4YA 4WHSD 5TD3A 3MI5A 2BUUB 3LKTA 3PCGM 1EOBB 1EOBA 3PCJM 2XSRA 1TMXA 3MV6M 3PCGA 1EOAB 4ILVA 3PCMM 3MFLM 1YKKA 3LXVM 3PCJA 4WHPD 4WHRB 2BUXA 2BURA 2BURB 3PCMA 1DLQA 3MFLA 2BUVB 1DMHA 3LXVA 3HJ8A 1EO2B 3HHXA 1YKNA 1YKNB 3PCHM 3O6JA 2BUUA 4WHOD 3MV4M 3PCBM 3MI1M 1DLTA 2BOYA 3PCKM 3N9TA 3PCFM 2BUTA 2BUTB 1EOAA 3PCBA 2XSVA 3PCKA 3HJSA 4WHRA 3PCFA 3MV6A 3LMXM 3PCEM 3TH1A 3PCNM 2BUVA 2BUYA 2BUYB 3PCCA 3PCIM 3LMXA 3PCEA 1EO2A 3PCNA 1DLMA 1YKLB 3HGIA 4WHQA 2AZQA 2BUWA 2BUWB 3PCAM 4WHQB 1S9AA 4WHSB 3HHYA 3O32A 4ILTA 3PCIA 3T67M 3PCHA 1YKMB 3MV4A 1EOCB 1EOCA 3T63M 3MI1A 3O5UA 3I4VA 3HJQA 3O6RA 3MI5M 2BV0A 2BV0B 3T63A 4WHPB 4WHPA 1EO9B 2BUZA 2BUZB 3PCLM 1YKPB 1YKPA 1YKLA 3PCLA 1YKOA 1YKOB 3HKPA 4WHSA 3PCCM 3PCDM 2BUQB 2BUQA 4WHOB 4WHOA 3PCAA 2BUMB 2BUMA 1YKKB 2PCDM 1YKMA 3T67A 2BUXB
chains in the Genus database with same CATH homology


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