3MI5 | Genus

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	238
structure length	238
Chain Sequence	PAQDNSRFVIRDRNWHPKALTPDYKTSIARSPRQALVSIPQSISETTGPNFSHLGFGAHDHDLLLNFNNGGLPIGERIIVAGRVVDQYGKPVPNTLVEMWQANAGGRYRHKNDRYLAPLDPNFGGVGRCLTDSDGYYSFRTIKPGPHPWRNGPNDWRPAHIYFGISGPSIATKLITQLYFEGDPLIPMCPIVKSIANPEAVQQLIAKLDMNNANPMDCLAYRFDIVLRGQRKTHFENC

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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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

publication title	Axial Ligand Swapping In Double Mutant Maintains Intradiol-cleavage Chemistry in Protocatechuate 3,4-Dioxygenase rcsb
molecule keywords	Protocatechuate 3,4-dioxygenase alpha chain
molecule tags	Oxidoreductase
source organism	Pseudomonas putida
total genus	56
structure length	238
sequence length	238
chains with identical sequence	N, O, P, Q, R
ec nomenclature	ec 1.13.11.3: Protocatechuate 3,4-dioxygenase.
pdb deposition date	2010-04-09

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	Class	Architecture	Topology	Homology	Domain
2.60.130.10	Mainly Beta	Sandwich	Protocatechuate 3,4-Dioxygenase, subunit A	Aromatic compound dioxygenase	3mi5M00

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

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

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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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#similar chains in the pdb database (?% sequence similarity)
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3MI5M

Total Genus

sequence length

structure length

Chain Sequence

Structure visualization

pfam database annotations