ViewGene
Locus Name:
GeneID:
Location:

GeneID:2124
TrivialName: PA14_00280
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_00280
PAO1 Ortholog Locus:PA0024
Sequence Length:918
Protein Length:305
Start: 25757
Stop: 26674
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG03414.1|AE004442_1 (AE004442) coproporphyrinogen III oxidase, aerobic [Pseudomonas aeruginosa PAO1]
Identities = 305/305 (100%), Positives = 305/305 (100%)
Sequence:
GTGACCGACCGTATCGCCGCTGTCAAAACCTACCTGCTCGACCTGCAAGACCGCATCTGCGCCGCCCTCGAG
GCGGAGGACGGCAAGGCCCGCTTCGCCGAGGACGCCTGGGAGCGTCCGGCCGGTGGCGGCGGACGGACGCGG
GTAATCGGCGACGGCGCATTGATCGAGAAGGGCGGGGTGAATTTTTCCCACGTCTTCGGCGATAGCCTGCCG
CCCTCGGCCAGCGCCCATCGGCCGGAACTGGCCGGGCGCGGTTTCCAGGCGCTCGGCGTGTCGCTGGTGATC
CATCCGGAAAACCCCCACGTGCCGACTTCCCATGCCAACGTGCGTTTCTTCTGCGCCGAGAAGGAAGGCGAG
GAGCCGGTCTGGTGGTTCGGCGGCGGCTTCGACCTGACCCCCTACTACGCCCACGAGGAAGACTGCGTGCAT
TGGCACCGGGTCGCTCGCGACGCCTGCGCGCCGTTCGGCGCGGACGTCTATCCGCGCTACAAGGAATGGTGC
GACCGCTACTTCCATCTCAAGCACCGCAACGAGCCGCGCGGCATCGGCGGCCTGTTCTTCGACGACCTCAAC
CAGTGGGACTTCGACACCTGCTTCGCCTTCATCCGCGCTATCGGCGACGCCTATATCGACGCCTACCTGCCG
ATCGTCCAGCGCCGCAAGCACACGCCGTTCGATGAACGGCAGCGAGAGTTCCAGGCCTATCGTCGCGGTCGC
TACGTGGAGTTCAACCTGGTCTTCGATCGTGGCACCCTGTTCGGCCTGCAGTCCGGCGGCCGTACCGAATCG
ATCCTGATGTCGTTGCCGCCGCAGGTGCGCTGGGGCTATGACTGGAAACCCGAGCCGGGCAGCGAGGAAGCG
CGCCTGACCGAGTATTTCCTCGCCGACCGCGATTGGCTCGCCGGCCAGCCCTGA
Translation:
MTDRIAAVKTYLLDLQDRICAALEAEDGKARFAEDAWERPAGGGGRTRVIGDGALIEKGGVNFSHVFGDSLP
PSASAHRPELAGRGFQALGVSLVIHPENPHVPTSHANVRFFCAEKEGEEPVWWFGGGFDLTPYYAHEEDCVH
WHRVARDACAPFGADVYPRYKEWCDRYFHLKHRNEPRGIGGLFFDDLNQWDFDTCFAFIRAIGDAYIDAYLP
IVQRRKHTPFDERQREFQAYRRGRYVEFNLVFDRGTLFGLQSGGRTESILMSLPPQVRWGYDWKPEPGSEEA
RLTEYFLADRDWLAGQP*
AnnotationID:2132GeneID:2124
AnnotatorUID: diggins
Modification Date/Time: 2005-03-22 13:01:01
Gene Name:hemF
Confidence Code:2
GeneProduct:coproporphyrinogen III oxidase, aerobic
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(4) Biosynthesis of cofactors, prosthetic groups and carriers
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:pfam01218,COG0408
Secondary Functional Category(ies):
EC Number:1.3.3.3
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN65707.1|AE016197_5 (AE016774) coproporphyrinogen III oxidase, aerobic [Pseudomonas
           putida KT2440]
          Length = 303

 Score =  570 bits (1468), Expect = e-162
 Identities = 262/301 (87%), Positives = 275/301 (91%)

>gb|AAO68125.1| (AE016835) coproporphyrinogen III oxidase [Salmonella enterica
           subsp. enterica serovar Typhi Ty2]
          Length = 299

 Score =  454 bits (1168), Expect = e-127
 Identities = 210/294 (71%), Positives = 242/294 (82%), Gaps = 2/294 (0%)

>gb|AAN81420.1|AE016764_102 (AE016764) Coproporphyrinogen III oxidase, aerobic [Escherichia
           coli CFT073]
          Length = 300

 Score =  453 bits (1165), Expect = e-127
 Identities = 208/294 (70%), Positives = 244/294 (82%), Gaps = 2/294 (0%)






 
Structural Features:
pfam01218, Coprogen_oxidas, Coproporphyrinogen III oxidase.
CD-Length = 306 residues, 100.0% aligned
Score =  517 bits (1333), Expect = 6e-148
Identities = 195/306 (63%), Positives = 234/306 (76%), Gaps = 5/306 (1%)

COG0408, HemF, Coproporphyrinogen III oxidase 
[Coenzyme metabolism]
CD-Length = 303 residues,  99.3% aligned
Score =  494 bits (1272), Expect = 8e-141
Identities = 206/302 (68%), Positives = 245/302 (81%), Gaps = 2/302 (0%)






   
Genomic Context:






   
Comment:


















    ReferenceID:14505




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:21397




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:33392




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2124_cdd.html


    		




 
URL:

















    ReferenceID:35520




  
Author/Investigator(s):
        Troup B, Jahn M, Hungerer C, Jahn D.





  
Title:
        Isolation of the hemF operon containing the gene for the Escherichia coli aerobic coproporphyrinogen III oxidase by in vivo complementation of a yeast HEM13 mutant.




  
PubMed:
        8300522


MedLine:
        




    
Source:
J Bacteriol. 1994 Feb;176(3):673-80.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=8300522

















    ReferenceID:35521




  
Author/Investigator(s):
        Xu K, Elliott T.





  
Title:
        An oxygen-dependent coproporphyrinogen oxidase encoded by the hemF gene of Salmonella typhimurium.




  
PubMed:
        8349542


MedLine:
        




    
Source:
J Bacteriol. 1993 Aug;175(16):4990-9.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=8349542









           
Homologs By Global Alignment 

           

       



     
Gene ID:2124
           
Identity:

                               
                                   0%
                               
                                   10%
                               
                                   20%
                               
                                   30%
                               
                                   40%
                               
                                   50%
                               
                                   60%
                               
                                   70%
                               
                                   80%
                               
                                   90%
                               
                                   100%
                               
                             

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
3634
                           PA0024_tr
                           translation of PA0024
                           305
                           99.99
                           99.99
                           0
                           1689.0
     

     
     
111958
                           gb|AAG03414.1|AE004442_1
                           (AE004442) coproporphyrinogen III oxidase, aerobic [Pseudomonas aeruginosa PAO1]
                           305
                           99.67
                           99.99
                           0
                           1686.0
     

     
     
111959
                           emb|CAA59376.1|
                           (X85015) oxygen-dependent coproporphyrinogen III oxidase [Pseudomonas aeruginosa]
                           305
                           99.67
                           99.99
                           0
                           1686.0
     

     
     
111960
                           gb|AAN65707.1|AE016197_5
                           (AE016774) coproporphyrinogen III oxidase, aerobic [Pseudomonas putida KT2440]
                           305
                           86.22
                           90.81
                           2
                           1465.0
     

     
     
111961
                           gb|AAO53724.1|
                           (AE016856) coproporphyrinogen III oxidase, aerobic [Pseudomonas syringae pv. tomato str. DC3000]
                           305
                           82.95
                           88.85
                           1
                           1409.0
     

     






      

          
GC ORFID: 45126How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA0024Glimmer Score: 

          
Start: 5827094Stop: 5828011

          
Length: 918


          
Start Codon: GTGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA0024 translation of PA0024Homolog Bit Score 655.0

          
Other Homologs:  psyr_15may02_Scaffold2_revised_gene2984 (ORF: BLASTX 546.0), t_PA0024 (ORF: GLIMMER)

          
GC ORF Sequence

           
GTGACCGACCGTATCGCCGCTGTCAAAACCTACCTGCTCGACCTGCAAGACCGCATCTGCGCCGCCCTCGAG 
GCGGAGGACGGCAAGGCCCGCTTCGCCGAGGACGCCTGGGAGCGTCCGGCCGGTGGCGGCGGACGGACGCGG 
GTAATCGGCGACGGCGCATTGATCGAGAAGGGCGGGGTGAATTTTTCCCACGTCTTCGGCGATAGCCTGCCG 
CCCTCGGCCAGCGCCCATCGGCCGGAACTGGCCGGGCGCGGTTTCCAGGCGCTCGGCGTGTCGCTGGTGATC 
CATCCGGAAAACCCCCACGTGCCGACTTCCCATGCCAACGTGCGTTTCTTCTGCGCCGAGAAGGAAGGCGAG 
GAGCCGGTCTGGTGGTTCGGCGGCGGCTTCGACCTGACCCCCTACTACGCCCACGAGGAAGACTGCGTGCAT 
TGGCACCGGGTCGCTCGCGACGCCTGCGCGCCGTTCGGCGCGGACGTCTATCCGCGCTACAAGGAATGGTGC 
GACCGCTACTTCCATCTCAAGCACCGCAACGAGCCGCGCGGCATCGGCGGCCTGTTCTTCGACGACCTCAAC 
CAGTGGGACTTCGACACCTGCTTCGCCTTCATCCGCGCTATCGGCGACGCCTATATCGACGCCTACCTGCCG 
ATCGTCCAGCGCCGCAAGCACACGCCGTTCGATGAACGGCAGCGAGAGTTCCAGGCCTATCGTCGCGGTCGC 
TACGTGGAGTTCAACCTGGTCTTCGATCGTGGCACCCTGTTCGGCCTGCAGTCCGGCGGCCGTACCGAATCG 
ATCCTGATGTCGTTGCCGCCGCAGGTGCGCTGGGGCTATGACTGGAAACCCGAGCCGGGCAGCGAGGAAGCG 
CGCCTGACCGAGTATTTCCTCGCCGACCGCGATTGGCTCGCCGGCCAGCCCTGA