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Table 1 Sequences included at each HMM profile

From: Insights into the evolution of enzyme substrate promiscuity after the discovery of (βα)8 isomerase evolutionary intermediates from a diverse metagenome

 

HMM profile

UniProt entry1

Organisms

Iter2

Iter3

Iter4

Iter5

Iter6

Iter7

RF

P16250

Streptomyces coelicolor

X

X

X

X

X

X

X

Q47QS4

Thermobifida fusca

X

X

X

X

X

X

X

A6WCU8

Kinecococcus radiotolerans

X

X

X

X

X

X

X

A0LTS5

Acidothermus cellulolyticus

X

X

X

X

X

X

X

Q5YYP5

Nocardia farcinica

X

      

A1T8W5

Mycobacterium vanbaaleni

X

      

A4FLL9

Saccharopolyspora erythrea

 

X

X

X

X

X

X

B1MBX5

Mycobacterium abscessus

 

X

X

X

X

X

X

Q9CC56

Mycobacterium leprae

 

X

X

X

X

X

X

A0JUZ7

Arthrobacter sp.

  

X

X

X

X

X

B1VDA6

Rhodococcus erythroplis

  

X

X

X

X

X

A8LX58

Salinispora arenicola

  

X

X

X

X

X

A1SL57

Nocardioides sp.

  

X

X

X

X

X

Q4JW54

Corynebacterium jeikeium

  

X

X

X

X

X

Q2J8L2

Frankia sp.

  

X

X

X

X

X

A4AHK5

marine actinobacteria

   

X

X

X

X

C5C9W9

Micrococcus luteus

   

X

X

X

X

J2ZMD0

Actinomyces naeslundi

   

X

X

X

X

A5CSK6

Clavibacter michiganensis

   

X

X

X

X

A3TLY4

Janibacter sp.

   

X

X

X

X

Q6AE15

Leifsonia xyli

   

X

X

X

X

Q8G4S5

Bifidobacterium longum

    

X

X

X

Q6A8L1

Propionibacterium acnes

    

X

X

X

A7BD07

Actynomyces odontolyticus

    

X

X

 

Q7N8D1

Photorhabdus luminescens

    

X

X

 

B1I557

Desulforudis audaxviator

     

X

 

Q2RGW1

Moorella thermoacetica

     

X

 

A5CZ74

Pelotomaculum thermoprpionicum

     

X

 

A4J708

Desulfotomaculum reducens

     

X

 

B1SQW0

Geobacillus sp.

     

X

 

B0TDM8

Heliobacterium modesticaldum

     

X

 

A4ISR3

Geobacillus thermodentrificans

     

X

 

Q2B721

Bacillus sp.

     

X

 

P74561

Synechocystis sp.

     

X

 

A0YW53

Lyngbya sp.

     

X

 

O35006

Bacillus subtilis

     

X

 
  1. 1Accession number into Uniprot. The PriA homologs from the class Actinobacteria are highlighted in bold. HisA homologues from Firmicutes, Proteobacteria and Cyanobacteria are not shadowed. The sequences included in each HMM profile are shown as X. Iter# (from 2 till 7) refers to the number of iteration made to construct the HMM. RF stands for ReFined model obtained after iteration 6