ViewGene
Locus Name:
GeneID:
Location:

GeneID:2597
TrivialName: PA14_45540
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_45540
PAO1 Ortholog Locus:PA1461
Sequence Length:891
Protein Length:296
Start: 4052928
Stop: 4052038
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG04850.1|AE004575_9 (AE004575) probable chemotaxis protein [Pseudomonas aeruginosa PAO1]
Identities = 296/296 (100%), Positives = 296/296 (100%)
Sequence:
ATGCAGCGTCGCCGTCGCCACCAGGAGGAACACGAGAACCACGAACGCTGGCTGGTTTCCTATGCCGATTTC
ATCACCCTGTTGTTCGCCTTCTTCGTGGTGATGTATTCGATTTCCTCGATCAACGAGGGCAAGTACAAGATC
CTCTCGGAGACCCTCACCGGGGTGTTCAACCAGCCCGACCGCTCGTTGAAGCCGATTCCCATCGGCGACGAG
CGGCCGCGCACCACCGAGCCGGAGCGCACCAGCGTCGAGGAGCAGCCCAGCGACAACGCGGCCAGCGCCGAC
TCGCTGGAGCGGATCGCCGACAGCGTGCGCGATGCCTTCGGCGACTTGATCGCCTCCGACCAGTTGAGCGTG
CGCGGCAACGAGCTGTGGATCGAGATCACTCTCAATTCCAGCCTGCTGTTTCCCAGCGGCGATGCGCTGCCC
AACGATGCCGCCTTCGATATCGTCGAGAAGGTCGCCAAGATCCTGGCGCCCTACAAGAACCCGATCCATGTC
GAGGGCTTCACCGACGACGTGCCGATCCATAGCCCGCGCTATCCCACCAACTGGGAACTGTCGGCGGCGCGG
GCGGCGAGCATCGTCCGCCTGCTCGGCAACGATGGGGTCGAGCCGTCGCGGATGGCTGCGGTGGGCTATGGT
GAATTTCAACCGGTGGCAGACAATGCCAGCGCCGAAGGGCGGGCGAAGAACCGCCGGGTGGTGCTGGTGATC
TCGCGCAACCTGGAGGTACGGCGCAGCGTCAGCGGGGTCGGCAGCGGCAAGGCGCAGCCGGATTCGGCGCTC
CGCCACGCAGGCTCGGCAGCTGGCACGCAAGCTGCAGATACTGGCGGTACGCCGGCGCCCGCGCCGGCAACC
GTCAATTCCCCGTCGCCTTCGCCATGA
Translation:
MQRRRRHQEEHENHERWLVSYADFITLLFAFFVVMYSISSINEGKYKILSETLTGVFNQPDRSLKPIPIGDE
RPRTTEPERTSVEEQPSDNAASADSLERIADSVRDAFGDLIASDQLSVRGNELWIEITLNSSLLFPSGDALP
NDAAFDIVEKVAKILAPYKNPIHVEGFTDDVPIHSPRYPTNWELSAARAASIVRLLGNDGVEPSRMAAVGYG
EFQPVADNASAEGRAKNRRVVLVISRNLEVRRSVSGVGSGKAQPDSALRHAGSAAGTQAADTGGTPAPAPAT
VNSPSPSP*
AnnotationID:2605GeneID:2597
AnnotatorUID: danlee
Modification Date/Time: 2006-01-31 14:02:22
Gene Name:motD
Confidence Code:1
GeneProduct:chemotaxis protein, MotD
Cell Localization:(4) Inner membrane protein
Synonyms:
Cell Localization Confidence Code:2
MolecularFunction:
Functional Category:(10) Chemotaxis
Alternate Gene Product Name:flagellar motor protein MotB
Functional Category Confidence Code:5
COGs:COG1360,pfam00691
Secondary Functional Category(ies):Motility & Attachment
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN69914.1|AE016630_5 (AE016790) flagellar motor protein MotB [Pseudomonas putida KT2440]
          Length = 285

 Score =  390 bits (1001), Expect = e-108
 Identities = 195/284 (68%), Positives = 229/284 (80%), Gaps = 4/284 (1%)

>gb|AAO55503.1| (AE016862) motB protein [Pseudomonas syringae pv. tomato str.
           DC3000]
          Length = 295

 Score =  385 bits (990), Expect = e-106
 Identities = 195/297 (65%), Positives = 234/297 (78%), Gaps = 8/297 (2%)








 
Structural Features:
COG1360, MotB, Flagellar motor protein [Cell motility and secretion]
CD-Length = 244 residues,  99.6% aligned
Score =  206 bits (525), Expect = 2e-54
Identities = 87/245 (35%), Positives = 139/245 (56%), Gaps = 4/245 (1%)

pfam00691, OmpA, OmpA family. 
The Pfam entry also includes MotB and related proteins.
CD-Length = 96 residues, 100.0% aligned
Score = 78.8 bits (194), Expect = 7e-16







   
Genomic Context:






   
Comment:
wrt naming of motAB and motCD genes, PMID: 15629949 (Toutain, Zegans and O’Toole, 2005) agrees with 
PAO1 and PA14 annotations, but disagrees with PMID 15375113 (Doyle, Hawkins and McCarter, 2004).



















    ReferenceID:5197




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:22342




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:37366




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:2597_cdd.html


    		




 
URL:

















    ReferenceID:37960




  
Author/Investigator(s):
        Kato J, Nakamura T, Kuroda A, Ohtake H.





  
Title:
        Cloning and characterization of chemotaxis genes in Pseudomonas aeruginosa.




  
PubMed:
        10052136


MedLine:
        




    
Source:
Biosci Biotechnol Biochem. 1999 Jan;63(1):155-61.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=10052136

















    ReferenceID:38178




  
Author/Investigator(s):
        Doyle TB, Hawkins AC, McCarter LL.





  
Title:
        The complex flagellar torque generator of Pseudomonas aeruginosa.




  
PubMed:
        15375113


MedLine:
        




    
Source:
J Bacteriol. 2004 Oct;186(19):6341-50.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=15375113









           
Homologs By Global Alignment 

           

       



     
Gene ID:2597
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
4306
                           PA1461_tr
                           translation of PA1461
                           296
                           99.99
                           99.99
                           0
                           1511.0
     

     
     
126229
                           gb|AAG04850.1|AE004575_9
                           (AE004575) probable chemotaxis protein [Pseudomonas aeruginosa PAO1]
                           296
                           99.99
                           99.99
                           0
                           1511.0
     

     
     
126230
                           dbj|BAA33552.1|
                           (AB012767) ORF2 [Pseudomonas aeruginosa]
                           296
                           99.99
                           99.99
                           0
                           1511.0
     

     
     
126231
                           gb|AAN69914.1|AE016630_5
                           (AE016790) flagellar motor protein MotB [Pseudomonas putida KT2440]
                           300
                           67.33
                           78.33
                           19
                           1009.0
     

     
     
126233
                           gb|AAC08067.1|
                           (AF031898) MotB [Pseudomonas putida]
                           300
                           66.33
                           78.33
                           19
                           996.0
     

     






      

          
GC ORFID: 45599How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA1461Glimmer Score: 

          
Start: 900981Stop: 901871

          
Length: 891


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA1461 translation of PA1461Homolog Bit Score 586.0

          
Other Homologs:  psyr_15may02_Scaffold8_revised_gene7945 (ORF: BLASTX 381.0), t_PA1461 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGCAGCGTCGCCGTCGCCACCAGGAGGAACACGAGAACCACGAACGCTGGCTGGTTTCCTATGCCGATTTC 
ATCACCCTGTTGTTCGCCTTCTTCGTGGTGATGTATTCGATTTCCTCGATCAACGAGGGCAAGTACAAGATC 
CTCTCGGAGACCCTCACCGGGGTGTTCAACCAGCCCGACCGCTCGTTGAAGCCGATTCCCATCGGCGACGAG 
CGGCCGCGCACCACCGAGCCGGAGCGCACCAGCGTCGAGGAGCAGCCCAGCGACAACGCGGCCAGCGCCGAC 
TCGCTGGAGCGGATCGCCGACAGCGTGCGCGATGCCTTCGGCGACTTGATCGCCTCCGACCAGTTGAGCGTG 
CGCGGCAACGAGCTGTGGATCGAGATCACTCTCAATTCCAGCCTGCTGTTTCCCAGCGGCGATGCGCTGCCC 
AACGATGCCGCCTTCGATATCGTCGAGAAGGTCGCCAAGATCCTGGCGCCCTACAAGAACCCGATCCATGTC 
GAGGGCTTCACCGACGACGTGCCGATCCATAGCCCGCGCTATCCCACCAACTGGGAACTGTCGGCGGCGCGG 
GCGGCGAGCATCGTCCGCCTGCTCGGCAACGATGGGGTCGAGCCGTCGCGGATGGCTGCGGTGGGCTATGGT 
GAATTTCAACCGGTGGCAGACAATGCCAGCGCCGAAGGGCGGGCGAAGAACCGCCGGGTGGTGCTGGTGATC 
TCGCGCAACCTGGAGGTACGGCGCAGCGTCAGCGGGGTCGGCAGCGGCAAGGCGCAGCCGGATTCGGCGCTC 
CGCCACGCAGGCTCGGCAGCTGGCACGCAAGCTGCAGATACTGGCGGTACGCCGGCGCCCGCGCCGGCAACC 
GTCAATTCCCCGTCGCCTTCGCCATGA