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


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