4WHRB

Anhydride reaction intermediate trapped in protocatechuate 3,4-dioxygenase (pseudomonas putida) at ph 8.5
Total Genus 55

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
237
Chain Sequence
PAQDNSRFVIRDRNWHPKALTPDYKTSIARSPRQALVSIPQSISETTGPNFSHLGFGAHDHDLLLNFNNGGLPIGERIIVAGRVVDQYGKPVPNTLVEMWQANAGGRYRHKNDRYLAPLDPNFGGVGRLTDSDGYYSFRTIKPGPYPWRNGPNDWRPAHIHFGISGPSIATKLITQLYFEGDPLIPMCPIVKSIANPEAVQQLIAKLDMNNANPMDCLAYRFDIVLRGQRKTHFENC

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.

publication title Crystal structures of alkylperoxo and anhydride intermediates in an intradiol ring-cleaving dioxygenase.
pubmed doi rcsb
molecule keywords Protocatechuate 3,4-dioxygenase alpha chain
molecule tags Oxidoreductase
source organism Pseudomonas putida
total genus 55
structure length 237
sequence length 238
chains with identical sequence D
ec nomenclature ec 1.13.11.3: Protocatechuate 3,4-dioxygenase.
pdb deposition date 2014-09-23

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 4whrB00
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
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 topology
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 homology


 
#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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