ViewGene
Locus Name:
GeneID:
Location:

GeneID:3369
TrivialName: PA14_23650
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_23650
PAO1 Ortholog Locus:PA3128
Sequence Length:747
Protein Length:248
Start: 2058144
Stop: 2057398
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG06516.1|AE004737_2 (AE004737) probable short-chain dehydrogenase [Pseudomonas aeruginosa PAO1]
Identities = 246/248 (99%), Positives = 247/248 (99%)
Sequence:
ATGCGCAACGTCATGCTGATCACCGGAGCCAGCCGCGGCATCGGCGCCGCCACCGCTCTGCTCGCCGCCGAG
CGCGGCTATGCGGTCGTCCTCAACTATCTGCGCAACCGCGAGGCCGCCGAAGCGCTGCGCCAGCGCATCGAG
CGCCAGGGCGGCGAAGCCCTGGCGGTGGCGGCCGACGTAGCCGAGGAAGGCGATGTCGAGCGGCTGTTCGCC
GCCATCGACGAACGTTTCGGCCGCCTCGACGTGCTGGTCAACAACGCCGGCATGCTGGAAGCGCAGACGCGC
CTGGAAAACATCGACGCGGCGCGCCTGCACAGGGTATTCGCGACCAACGTGACCGGCAGCTTCCTCTGCGCC
CGCGAGGCGGTGAAGCGCCTGTCGACCCGCCACGGCGGGCACGGCGGCAGCATCGTCAACGTATCCTCGATG
GCCTCGCGGCTGGGATCGCCCAACGAATACATCGACTATGCCGCCGCCAAGGGCGCCATCGACAGCATGACC
ATCGGGCTGGCCAGGGAAGTGGCGGCGGAGGGTATCCGGGTCAACGCGGTGCGGCCCGGACTGATCGATACC
GAGATCCACGCCAGCGGCGGCGAGCCCGGCCGTATCGAACGCCTGAAGGGCGGCATACCGCTAGGACGCGGC
GGCACGGCGGAGGAAGTCGCGCGGGCGATTCTCTGGCTGGCGTCGGACGAAGCCAGCTACAGCACTGGCACC
TTCATCGATGTCAGCGGCGGCCGCTAG
Translation:
MRNVMLITGASRGIGAATALLAAERGYAVVLNYLRNREAAEALRQRIERQGGEALAVAADVAEEGDVERLFA
AIDERFGRLDVLVNNAGMLEAQTRLENIDAARLHRVFATNVTGSFLCAREAVKRLSTRHGGHGGSIVNVSSM
ASRLGSPNEYIDYAAAKGAIDSMTIGLAREVAAEGIRVNAVRPGLIDTEIHASGGEPGRIERLKGGIPLGRG
GTAEEVARAILWLASDEASYSTGTFIDVSGGR*
AnnotationID:3377GeneID:3369
AnnotatorUID: diggins
Modification Date/Time: 2005-04-13 08:08:28
Gene Name:
Confidence Code:3
GeneProduct:putative short-chain dehydrogenase
Cell Localization:()
Synonyms:ygfF
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(20) Putative enzymes
Alternate Gene Product Name:putative oxidoreductase
Functional Category Confidence Code:5
COGs:pfam00106,COG1028,COG0300,COG4221
Secondary Functional Category(ies):Secondary metabolites biosynthesis, transport, and catabolism
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>emb|CAE34992.1| (BX640451) short chain dehydrogenase [Bordetella bronchiseptica]
          Length = 254

 Score =  333 bits (855), Expect = 4e-91
 Identities = 162/245 (66%), Positives = 204/245 (83%)

>gb|AAP18194.1| (AE016988) putative oxidoreductase [Shigella flexneri 2a str.
           2457T]
          Length = 247

 Score =  300 bits (768), Expect = 5e-81
 Identities = 148/245 (60%), Positives = 192/245 (78%)

>gb|AAC75940.1| (AE000373) putative oxidoreductase [Escherichia coli K12]
          Length = 247

 Score =  299 bits (766), Expect = 9e-81
 Identities = 147/245 (60%), Positives = 192/245 (78%)






 
Structural Features:
pfam00106, adh_short, short chain dehydrogenase.
CD-Length = 247 residues,  99.2% aligned
Score =  176 bits (447), Expect = 2e-45
Identities = 107/251 (42%), Positives = 132/251 (52%), Gaps = 15/251 (5%)

COG1028, FabG, Dehydrogenases with different specificities 
(related to short-chain alcohol dehydrogenases) 
CD-Length = 251 residues,  98.4% aligned
Score =  159 bits (402), Expect = 3e-40
Identities = 112/254 (44%), Positives = 138/254 (54%), Gaps = 13/254 (5%)

COG0300, DltE, Short-chain dehydrogenases of various substrate specificities 
CD-Length = 265 residues,  80.4% aligned
Score =  132 bits (333), Expect = 5e-32
Identities = 69/224 (30%), Positives = 103/224 (45%), Gaps = 12/224 (5%)

COG4221, COG4221, Short-chain alcohol dehydrogenase of unknown specificity 
CD-Length = 246 residues,  89.4% aligned
Score =  124 bits (313), Expect = 9e-30
Identities = 89/228 (39%), Positives = 119/228 (52%), Gaps = 8/228 (3%)






   
Genomic Context:






   
Comment:


















    ReferenceID:6741




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:23883




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:32393




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:3369_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:3369
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
5397
                           PA3128_tr
                           translation of PA3128
                           248
                           99.19
                           99.59
                           0
                           1215.0
     

     
     
151001
                           gb|AAG06516.1|AE004737_2
                           (AE004737) probable short-chain dehydrogenase [Pseudomonas aeruginosa PAO1]
                           248
                           99.19
                           99.59
                           0
                           1215.0
     

     
     
151002
                           emb|CAE34992.1|
                           (BX640451) short chain dehydrogenase [Bordetella bronchiseptica] [Bordetella bronchiseptica RB50]
                           254
                           63.77
                           80.31
                           6
                           853.0
     

     
     
151003
                           emb|CAE39439.1|
                           (BX640435) short chain dehydrogenase [Bordetella parapertussis]
                           254
                           63.77
                           80.31
                           6
                           853.0
     

     
     
151004
                           emb|CAE13272.1|
                           (BX571862) unnamed protein product [Photorhabdus luminescens subsp. laumondii TTO1]
                           248
                           60.48
                           77.01
                           0
                           772.0
     

     






      

          
GC ORFID: 46371How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA3128Glimmer Score: 

          
Start: 2895787Stop: 2896533

          
Length: 747


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TAGTruncated Stop: 

          
Homolog: t_PA3128 translation of PA3128Homolog Bit Score 472.0

          
Other Homologs:  psyr_15may02_Scaffold1_revised_gene1408 (ORF: BLASTX 288.0), psyr_15may02_Scaffold1_revised_gene1264 (ORF: BLASTX 170.0), psyr_15may02_Scaffold8_revised_gene7838 (ORF: BLASTX 161.0), t_PA3128 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGCGCAACGTCATGCTGATCACCGGAGCCAGCCGCGGCATCGGCGCCGCCACCGCTCTGCTCGCCGCCGAG 
CGCGGCTATGCGGTCGTCCTCAACTATCTGCGCAACCGCGAGGCCGCCGAAGCGCTGCGCCAGCGCATCGAG 
CGCCAGGGCGGCGAAGCCCTGGCGGTGGCGGCCGACGTAGCCGAGGAAGGCGATGTCGAGCGGCTGTTCGCC 
GCCATCGACGAACGTTTCGGCCGCCTCGACGTGCTGGTCAACAACGCCGGCATGCTGGAAGCGCAGACGCGC 
CTGGAAAACATCGACGCGGCGCGCCTGCACAGGGTATTCGCGACCAACGTGACCGGCAGCTTCCTCTGCGCC 
CGCGAGGCGGTGAAGCGCCTGTCGACCCGCCACGGCGGGCACGGCGGCAGCATCGTCAACGTATCCTCGATG 
GCCTCGCGGCTGGGATCGCCCAACGAATACATCGACTATGCCGCCGCCAAGGGCGCCATCGACAGCATGACC 
ATCGGGCTGGCCAGGGAAGTGGCGGCGGAGGGTATCCGGGTCAACGCGGTGCGGCCCGGACTGATCGATACC 
GAGATCCACGCCAGCGGCGGCGAGCCCGGCCGTATCGAACGCCTGAAGGGCGGCATACCGCTAGGACGCGGC 
GGCACGGCGGAGGAAGTCGCGCGGGCGATTCTCTGGCTGGCGTCGGACGAAGCCAGCTACAGCACTGGCACC 
TTCATCGATGTCAGCGGCGGCCGCTAG