3PCDM

Protocatechuate 3,4-dioxygenase y447h mutant
Total Genus 56

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
56
sequence length
236
structure length
233
Chain Sequence
PAQDNSRFVIRDRNWHPKALTPDYKTSIARSPRQALVSIPQSISETTGPNFSHLGFGAHDHDLLLNFGLPIGERIIVAGRVVDQYGKPVPNTLVEMWQANAGGRYRHKNDRYLAPLDPNFGGVGRCLTDSDGYYSFRTIKPGPHPWRNGPNDWRPAHIHFGISGPSIATKLITQLYFEGDPLIPMCPIVKSIANPEAVQQLIAKLDMNNANPMDCLAYRFDIVLRGQRKTHFE

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 The axial tyrosinate Fe3+ ligand in protocatechuate 3,4-dioxygenase influences substrate binding and product release: evidence for new reaction cycle intermediates.
pubmed doi rcsb
molecule keywords PROTOCATECHUATE 3,4-DIOXYGENASE
molecule tags Dioxygenase
source organism Pseudomonas putida
total genus 56
structure length 233
sequence length 236
chains with identical sequence N, O, P, Q, R
ec nomenclature ec 1.13.11.3: Protocatechuate 3,4-dioxygenase.
pdb deposition date 1997-11-24

pfam database annotations

chain Pfam Accession Code Pfam Family Identifier Pfam Description
M PF00775 Dioxygenase_C Dioxygenase
M 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 3pcdM00
3PCDM 2BUYA 4WHPB 3LKTA 1S9AA 2BUVB 3PCCM 3MI5A 4WHRF 4WHSB 3PCEM 4WHOA 3PCDA 4WHRB 2BURA 3PCCA 2XSUA 4WHQB 1YKPB 3PCEA 1YKNA 3O6JA 1EO2B 4WHOD 2PCDM 1YKOB 3TH1A 1EO9A 2BUXB 2BUTB 3MFLA 2BUWB 3LKTM 3MI5M 3HKPA 2BUYB 3MI1M 4WHOB 3PCIM 3HJQA 3MV6M 2BURB 3LMXM 1YKKA 3MI1A 1YKNB 2XSVA 3PCIA 3MV6A 3PCHM 3LMXA 3MFLM 3PCJM 3PCFM 1EO9B 1EOBA 3PCHA 3MV4M 3PCJA 4ILVA 1YKLA 1EOAA 1DLMA 3PCFA 3LXVA 3PCGM 2BV0A 2XSRA 3MV4A 3PCKM 3PCAA 3PCGA 2BOYA 1YKKB 2AZQA 3PCKA 3N9TA 2BUUA 2BUQA 1YKMA 2BUMA 2BUZA 1EOBB 3LXVM 3O32A 1YKLB 1EOAB 3HJ8A 1EOCA 3I51A 3T63M 1DLQA 3PCMM 2BV0B 3PCAM 1DMHA 3PCBA 3O5UA 3O6RA 3T67A 3T63A 3HHXA 4WHPA 3PCMA 2BUVA 5TD3A 3I4VA 3HGIA 4WHSA 3PCNM 2BUUB 3PCLM 4WHRA 3HJSA 2BUQB 4ILTA 1YKMB 2BUMB 4WHQA 1YKPA 4WHPD 1DLTA 3PCNA 2BUZB 4WHSD 3PCLA 1EO2A 1TMXA 1YKOA 1EOCB 2BUXA 3PCBM 2PCDA 2BUTA 3HHYA 3T67M 3I4YA 2BUWA
chains in the Genus database with same CATH superfamily
3PCDM 2BUYA 4WHPB 3LKTA 1S9AA 2BUVB 3PCCM 3MI5A 4WHRF 4WHSB 3PCEM 4WHOA 3PCDA 4WHRB 2BURA 3PCCA 2XSUA 4WHQB 1YKPB 3PCEA 1YKNA 3O6JA 1EO2B 4WHOD 2PCDM 1YKOB 3TH1A 1EO9A 2BUXB 2BUTB 3MFLA 2BUWB 3LKTM 3MI5M 3HKPA 2BUYB 3MI1M 4WHOB 3PCIM 3HJQA 3MV6M 2BURB 3LMXM 1YKKA 3MI1A 1YKNB 2XSVA 3PCIA 3MV6A 3PCHM 3LMXA 3MFLM 3PCJM 3PCFM 1EO9B 1EOBA 3PCHA 3MV4M 3PCJA 4ILVA 1YKLA 1EOAA 1DLMA 3PCFA 3LXVA 3PCGM 2BV0A 2XSRA 3MV4A 3PCKM 3PCAA 3PCGA 2BOYA 1YKKB 2AZQA 3PCKA 3N9TA 2BUUA 2BUQA 1YKMA 2BUMA 2BUZA 1EOBB 3LXVM 3O32A 1YKLB 1EOAB 3HJ8A 1EOCA 3I51A 3T63M 1DLQA 3PCMM 2BV0B 3PCAM 1DMHA 3PCBA 3O5UA 3O6RA 3T67A 3T63A 3HHXA 4WHPA 3PCMA 2BUVA 5TD3A 3I4VA 3HGIA 4WHSA 3PCNM 2BUUB 3PCLM 4WHRA 3HJSA 2BUQB 4ILTA 1YKMB 2BUMB 4WHQA 1YKPA 4WHPD 1DLTA 3PCNA 2BUZB 4WHSD 3PCLA 1EO2A 1TMXA 1YKOA 1EOCB 2BUXA 3PCBM 2PCDA 2BUTA 3HHYA 3T67M 3I4YA 2BUWA
chains in the Genus database with same CATH topology
3PCDM 2BUYA 4WHPB 3LKTA 1S9AA 2BUVB 3PCCM 3MI5A 4WHRF 4WHSB 3PCEM 4WHOA 3PCDA 4WHRB 2BURA 3PCCA 2XSUA 4WHQB 1YKPB 3PCEA 1YKNA 3O6JA 1EO2B 4WHOD 2PCDM 1YKOB 3TH1A 1EO9A 2BUXB 2BUTB 3MFLA 2BUWB 3LKTM 3MI5M 3HKPA 2BUYB 3MI1M 4WHOB 3PCIM 3HJQA 3MV6M 2BURB 3LMXM 1YKKA 3MI1A 1YKNB 2XSVA 3PCIA 3MV6A 3PCHM 3LMXA 3MFLM 3PCJM 3PCFM 1EO9B 1EOBA 3PCHA 3MV4M 3PCJA 4ILVA 1YKLA 1EOAA 1DLMA 3PCFA 3LXVA 3PCGM 2BV0A 2XSRA 3MV4A 3PCKM 3PCAA 3PCGA 2BOYA 1YKKB 2AZQA 3PCKA 3N9TA 2BUUA 2BUQA 1YKMA 2BUMA 2BUZA 1EOBB 3LXVM 3O32A 1YKLB 1EOAB 3HJ8A 1EOCA 3I51A 3T63M 1DLQA 3PCMM 2BV0B 3PCAM 1DMHA 3PCBA 3O5UA 3O6RA 3T67A 3T63A 3HHXA 4WHPA 3PCMA 2BUVA 5TD3A 3I4VA 3HGIA 4WHSA 3PCNM 2BUUB 3PCLM 4WHRA 3HJSA 2BUQB 4ILTA 1YKMB 2BUMB 4WHQA 1YKPA 4WHPD 1DLTA 3PCNA 2BUZB 4WHSD 3PCLA 1EO2A 1TMXA 1YKOA 1EOCB 2BUXA 3PCBM 2PCDA 2BUTA 3HHYA 3T67M 3I4YA 2BUWA
chains in the Genus database with same CATH homology


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