ViewGene
Locus Name:
GeneID:
Location:

GeneID:3577
TrivialName: PA14_25440
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_25440
PAO1 Ortholog Locus:PA2987
Sequence Length:684
Protein Length:227
Start: 2223532
Stop: 2224215
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG06375.1|AE004724_4 (AE004724) probable ATP-binding component of ABC transporter [Pseudomonas aeruginosa PAO1]
Identities = 226/227 (99%), Positives = 226/227 (99%)
Sequence:
ATGAATGACAAGTCGGTGCTGAGTTGCCGCAACCTGAGCAAGAGCTACGACGAGGGGCCGCAATCGGTGCAG
GTGCTGTCCGGTGTCGAGTTGAACCTGCTGCCTGGGGAGCGGGTGGCTATCGTCGGCAGCTCCGGTTCGGGC
AAGAGCACCTTGCTGAACATGCTCGGCGGCCTGGACACGCCCTCCGCCGGCAGCGTCTGGCTCGCCGGCGAG
GAACTCTCGGCGCTGAACGAGACGGCCCGCGGGCTGCTGCGCAACCGCGCGCTGGGCTTCGTCTACCAGTTC
CACCACCTGTTGCCGGAGTTCACCGCCCTGGAGAACGTCTGCATGCCGCTGTTGATCGGCCGCACGCCGATC
ACCGAAGCCCGCCAGCGGGCGGCCGAGCTGCTGGAGCGGGTCGGGCTGGGGCATCGCCTGTCGCACAAGCCG
GCCGAGCTGTCCGGCGGCGAGCGCCAGCGGGTGGCGATCGCCCGCGCGCTGGTCAACCGTCCGCAGCTGGTA
CTGCTCGACGAGCCCACCGGCAACCTCGACCAGCATACCGCCCAGGGTATCCAGGAGCTGATGCTGGAACTG
AGCCGTTCGTTGCAGACCTCGTTCCTGGTGGTAACCCACGATCTCCAGCTGGCCGGGCACATGGATCGCATC
CTGCGCCTGGAAGAAGGCCGACTGATCGCCGCGTAG
Translation:
MNDKSVLSCRNLSKSYDEGPQSVQVLSGVELNLLPGERVAIVGSSGSGKSTLLNMLGGLDTPSAGSVWLAGE
ELSALNETARGLLRNRALGFVYQFHHLLPEFTALENVCMPLLIGRTPITEARQRAAELLERVGLGHRLSHKP
AELSGGERQRVAIARALVNRPQLVLLDEPTGNLDQHTAQGIQELMLELSRSLQTSFLVVTHDLQLAGHMDRI
LRLEEGRLIAA*
AnnotationID:3585GeneID:3577
AnnotatorUID: diggins
Modification Date/Time: 2005-05-10 06:06:21
Gene Name:
Confidence Code:3
GeneProduct:putative lipoprotein releasing system, ATP-binding protein
Cell Localization:(4) Inner membrane protein
Synonyms:lolD
Cell Localization Confidence Code:3
MolecularFunction:
Functional Category:(27) Transport of small molecules
Alternate Gene Product Name:putative ATP-binding protein ABC transporter
Functional Category Confidence Code:5
COGs:COG4181,COG1136,pfam00005
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO55627.1| (AE016863) lipoprotein releasing system, ATP-binding protein LolD
           [Pseudomonas syringae pv. tomato str. DC3000]
          Length = 227

 Score =  371 bits (952), Expect = e-102
 Identities = 187/227 (82%), Positives = 206/227 (90%)

>gb|AAN67768.1|AE016408_6 (AE016782) lipoprotein releasing system, ATP-binding protein
           [Pseudomonas putida KT2440]
          Length = 232

 Score =  368 bits (945), Expect = e-101
 Identities = 185/226 (81%), Positives = 204/226 (90%)

>emb|CAD14820.1| (AL646062) PROBABLE LIPOPROTEIN RELEASING SYSTEM ATP-BINDING ABC
           TRANSPORTER [Ralstonia solanacearum]
          Length = 244

 Score =  263 bits (673), Expect = 4e-70
 Identities = 136/222 (61%), Positives = 168/222 (75%)






 
Structural Features:
COG4181, Predicted ABC-type transport system involved in lysophospholipase L1 biosynthesis, 
ATPase component 
[Secondary metabolites biosynthesis, transport, and catabolism]
CD-Length = 228 residues,  99.1% aligned
Score =  232 bits (594), Expect = 2e-62
Identities = 116/226 (51%), Positives = 151/226 (66%)

COG1136, SalX, ABC-type antimicrobial peptide transport system, 
ATPase component [Defense mechanisms]
CD-Length = 226 residues,  97.3% aligned
Score =  276 bits (708), Expect = 1e-75
Identities = 108/220 (49%), Positives = 155/220 (70%), Gaps = 1/220 (0%)

pfam00005, ABC_tran, ABC transporter. 
CD-Length = 183 residues, 100.0% aligned
Score =  158 bits (400), Expect = 6e-40
Identities = 84/189 (44%), Positives = 118/189 (62%), Gaps = 8/189 (4%)






   
Genomic Context:






   
Comment:
other possible gene name: ycfV


















    ReferenceID:7157




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:24299




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:36067




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:3577_cdd.html


    		




 
URL:

















    ReferenceID:38123




  
Author/Investigator(s):
        Narita S, Tanaka K, Matsuyama S, Tokuda H.





  
Title:
        Disruption of lolCDE, encoding an ATP-binding cassette transporter, is lethal for Escherichia coli and prevents release of lipoproteins from the inner membrane.




  
PubMed:
        11844772


MedLine:
        




    
Source:
J Bacteriol. 2002 Mar;184(5):1417-22.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=11844772

















    ReferenceID:38124




  
Author/Investigator(s):
        Yakushi T, Masuda K, Narita S, Matsuyama S, Tokuda H.





  
Title:
        A new ABC transporter mediating the detachment of lipid-modified proteins from membranes.




  
PubMed:
        10783239


MedLine:
        




    
Source:
Nat Cell Biol. 2000 Apr;2(4):212-8.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=10783239









           
Homologs By Global Alignment 

           

       



     
Gene ID:3577
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
5718
                           PA2987_tr
                           translation of PA2987
                           227
                           99.55
                           99.55
                           0
                           1129.0
     

     
     
159245
                           gb|AAG06375.1|AE004724_4
                           (AE004724) probable ATP-binding component of ABC transporter [Pseudomonas aeruginosa PAO1]
                           227
                           99.55
                           99.55
                           0
                           1129.0
     

     
     
159246
                           gb|AAO55627.1|
                           (AE016863) lipoprotein releasing system, ATP-binding protein LolD [Pseudomonas syringae pv. tomato str. DC3000]
                           227
                           82.37
                           90.74
                           0
                           952.0
     

     
     
159247
                           gb|AAN67768.1|AE016408_6
                           (AE016782) lipoprotein releasing system, ATP-binding protein [Pseudomonas putida KT2440]
                           232
                           79.74
                           87.93
                           5
                           944.0
     

     
     
159248
                           gb|AAQ60631.1|
                           (AE016920) probable ATP-binding component, ABC transporter [Chromobacterium violaceum ATCC 12472]
                           232
                           65.51
                           77.58
                           7
                           749.0
     

     






      

          
GC ORFID: 46579How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA2987Glimmer Score: 

          
Start: 2730393Stop: 2729710

          
Length: 684


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TAGTruncated Stop: 

          
Homolog: t_PA2987 translation of PA2987Homolog Bit Score 439.0

          
Other Homologs:  psyr_15may02_Scaffold1_revised_gene899 (ORF: BLASTX 374.0), t_PA2857 (ORF: BLASTX 207.0), t_PA4594 (ORF: BLASTX 202.0), psyr_15may02_Scaffold5_revised_gene5985 (ORF: BLASTX 157.0), t_PA0374 (ORF: BLASTX 139.0), psyr_15may02_Scaffold13_revised_gene2121 (ORF: BLASTX 114.0), t_PA2987 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGAATGACAAGTCGGTGCTGAGTTGCCGCAACCTGAGCAAGAGCTACGACGAGGGGCCGCAATCGGTGCAG 
GTGCTGTCCGGTGTCGAGTTGAACCTGCTGCCTGGGGAGCGGGTGGCTATCGTCGGCAGCTCCGGTTCGGGC 
AAGAGCACCTTGCTGAACATGCTCGGCGGCCTGGACACGCCCTCCGCCGGCAGCGTCTGGCTCGCCGGCGAG 
GAACTCTCGGCGCTGAACGAGACGGCCCGCGGGCTGCTGCGCAACCGCGCGCTGGGCTTCGTCTACCAGTTC 
CACCACCTGTTGCCGGAGTTCACCGCCCTGGAGAACGTCTGCATGCCGCTGTTGATCGGCCGCACGCCGATC 
ACCGAAGCCCGCCAGCGGGCGGCCGAGCTGCTGGAGCGGGTCGGGCTGGGGCATCGCCTGTCGCACAAGCCG 
GCCGAGCTGTCCGGCGGCGAGCGCCAGCGGGTGGCGATCGCCCGCGCGCTGGTCAACCGTCCGCAGCTGGTA 
CTGCTCGACGAGCCCACCGGCAACCTCGACCAGCATACCGCCCAGGGTATCCAGGAGCTGATGCTGGAACTG 
AGCCGTTCGTTGCAGACCTCGTTCCTGGTGGTAACCCACGATCTCCAGCTGGCCGGGCACATGGATCGCATC 
CTGCGCCTGGAAGAAGGCCGACTGATCGCCGCGTAG