ViewGene
Locus Name:
GeneID:
Location:

GeneID:1729
TrivialName: PA14_64280
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_64280
PAO1 Ortholog Locus:
Sequence Length:1590
Protein Length:529
Start: 5728528
Stop: 5730117
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAO58315.1| (AE016873) branched-chain amino acid ABC transporter, permease protein [Pseudomonas syringae pv. tomato str. DC3000]
Identities = 390/521 (74%), Positives = 440/521 (84%), Gaps = 5/521 (0%)
Sequence:
ATGCCCCTTGCCCTCCTCACCCGCCCGCTCCAGGCCTGTGTCCTGGTCCTGGCCGCCCTTCTCGCGGTGGCG
GCCCACGCCGGACCGGCGCAGGACTTCGCCGCTGCCGACAACGGCGGTCGCGCCCACCTGCTCGAACACTGG
GCGGCGACGCCCGACGCCGATCGCCTGGCCTTTCTCGAAGCGCTGCGCCACAACCGCATTGCGCTGGACAGC
CGCCAGCAGCCATTCCTCCTCGGCGCCGACCAGCGTTTCCAGGCCGCCGAAGGCGACGCCCTGCCGGACGGC
GAGCCGAAGCCGCTGCGCCTGAACAATCGCCTGCGCGGCCTGCTCAACACCGCCCTGGCCAGCCACCAGTTG
GTGGCCAACGAAGTGCCGCTGCGGCAGGCCGCCGCGCAGCAGTTGCAGAAAACCGCCAAGGCCGCGCAACGG
CCGCTGCTCGAAGCGCGCCTGCGGATCGAGAGCGACGCTGGCGTGAAGGAAGCCCTCGGCCTGGCCCTGGCC
AACCTGCAACTCGGCGATCCCGACCCGGCGCTACGCCTTTCCGCCGTGCGCCTGCTCGGCGAGTCCGGCGAT
CCGCTGGCGCGAACCCGCCTGGAGAACCTGCTCGACCCGGCGGTGGAACCGGAGGAAGGCGTGCGCATCGCT
GCCGCCACCAGCCTGGCCCAGGTCAAGCGCCGGCTGCTGGTCGGCGACCTGCTCGGCCAGGCCTTCAGCGGC
CTGTCGCTGGGCTCGATCCTGCTGCTCGCGGCGCTCGGCCTGGCGATCACCTACGGCCTGCTCGGGGTGATC
AACATGGCCCACGGCGAAATGCTCATGCTCGGCGCCTACTCCACCTACGTGGTGCAACTGCTGTTCCAGCGC
CTGGCGCCGGAATGGCTGGCGCTCTACCCGTTGCTGGCGCTACCGGTGGCGTTCTGCGTCAGCGCCGCCATC
GGCATGGCCCTGGAGCGCACGGTGATCCGCCATCTCTACGGCCGGCCGCTGGAAACCCTGCTCGCCACCTGG
GGCATCAGCCTGGTGCTGATCCAACTGGTGCGGATGCTGTTCGGCGCACAGAACGTCGAGGTAGCCAACCCG
GCCTGGCTGTCCGGCGGCATCCAGGTGCTGCCGAACCTGGTGCTGCCGTGGAACCGCATCGTCATCATCGGC
TTCGCCCTGTTCGTGCTGCTCCTCACCTGGCTGCTGCTGAACCGCACGCGGCTCGGCCTGAACGTCCGCGCG
GTGACCCAGAACCGCAACATGGCGGCCTGCTGCGGGGTGCCCACAGGGCGCGTGGACATGCTCGCCTTCGGT
CTCGGCTCGGGCATCGCCGGGCTCGGCGGGGTAGCCCTGTCGCAGGTCGGCAACGTCGGCCCGGACCTCGGC
CAGGGCTACATCATCGACTCCTTCCTGGTGGTGGTGCTCGGCGGCGTCGGCCAGCTCGCCGGCAGCGTCCTC
GCCGCCTTCGGCCTCGGCGTGGCGAACAAGATCCTCGAACCGCAGATCGGCGCGGTGCTGGGCAAGATCCTG
ATCCTCGCGCTGATCGTCCTGTTCATCCAGAAACGCCCGCAGGGACTGTTCGCCCTGAAAGGGAGGGTCATC
GATTGA
Translation:
MPLALLTRPLQACVLVLAALLAVAAHAGPAQDFAAADNGGRAHLLEHWAATPDADRLAFLEALRHNRIALDS
RQQPFLLGADQRFQAAEGDALPDGEPKPLRLNNRLRGLLNTALASHQLVANEVPLRQAAAQQLQKTAKAAQR
PLLEARLRIESDAGVKEALGLALANLQLGDPDPALRLSAVRLLGESGDPLARTRLENLLDPAVEPEEGVRIA
AATSLAQVKRRLLVGDLLGQAFSGLSLGSILLLAALGLAITYGLLGVINMAHGEMLMLGAYSTYVVQLLFQR
LAPEWLALYPLLALPVAFCVSAAIGMALERTVIRHLYGRPLETLLATWGISLVLIQLVRMLFGAQNVEVANP
AWLSGGIQVLPNLVLPWNRIVIIGFALFVLLLTWLLLNRTRLGLNVRAVTQNRNMAACCGVPTGRVDMLAFG
LGSGIAGLGGVALSQVGNVGPDLGQGYIIDSFLVVVLGGVGQLAGSVLAAFGLGVANKILEPQIGAVLGKIL
ILALIVLFIQKRPQGLFALKGRVID*
AnnotationID:1738GeneID:1729
AnnotatorUID: diggins
Modification Date/Time: 2005-03-11 09:09:11
Gene Name:
Confidence Code:3
GeneProduct:putative branched-chain amino acid ABC transporter, permease protein
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(27) Transport of small molecules
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG0559,pfam02653
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO58315.1| (AE016873) branched-chain amino acid ABC transporter, permease
           protein [Pseudomonas syringae pv. tomato str. DC3000]
          Length = 529

 Score =  734 bits (1895), Expect = 0.0
 Identities = 390/521 (74%), Positives = 440/521 (84%), Gaps = 5/521 (0%)

>gb|AAM86552.1|AE013901_13 (AE013901) putative branched chain inner membrane permease of ABC
           transporter [Yersinia pestis KIM]
          Length = 538

 Score =  701 bits (1810), Expect = 0.0
 Identities = 362/509 (71%), Positives = 426/509 (83%), Gaps = 1/509 (0%)

>emb|CAC90029.1| (AJ414147) putative Branched-chain amino acid transport system,
           permease component [Yersinia pestis CO92]
          Length = 533

 Score =  701 bits (1810), Expect = 0.0
 Identities = 362/509 (71%), Positives = 426/509 (83%), Gaps = 1/509 (0%)








 
Structural Features:
COG0559, LivH, Branched-chain amino acid ABC-type transport system, permease components 
[Amino acid transport and metabolism]
CD-Length = 297 residues,  97.6% aligned
Score =  244 bits (625), Expect = 2e-65
Identities = 136/296 (45%), Positives = 182/296 (61%), Gaps = 8/296 (2%)

pfam02653, BPD_transp_2, Branched-chain amino acid transport system / permease component.
CD-Length = 267 residues,  99.3% aligned
Score =  111 bits (279), Expect = 2e-25
Identities = 83/279 (29%), Positives = 126/279 (45%), Gaps = 15/279 (5%)






   
Genomic Context:






   
Comment:


















    ReferenceID:3461




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:20608




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:35197




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:1729_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:1729
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
93929
                           gb|AAO58315.1|
                           (AE016873) branched-chain amino acid ABC transporter, permease protein [Pseudomonas syringae pv. tomato str. DC3000]
                           534
                           73.03
                           82.58
                           10
                           1893.0
     

     
     
93931
                           emb|CAC90029.1|
                           (AJ414147) putative Branched-chain amino acid transport system, permease component [Yersinia pestis CO92]
                           538
                           67.84
                           80.48
                           14
                           1808.0
     

     
     
93930
                           gb|AAM86552.1|AE013901_13
                           (AE013901) putative branched chain inner membrane permease of ABC transporter [Yersinia pestis KIM]
                           543
                           67.21
                           80.29
                           19
                           1810.0
     

     
     
3036
                           PA4859_tr
                           translation of PA4859
                           529
                           59.92
                           59.92
                           212
                           1567.0
     

     
     
93932
                           gb|AAG08244.1|AE004899_5
                           (AE004899) probable permease of ABC transporter [Pseudomonas aeruginosa PAO1]
                           529
                           59.73
                           59.92
                           212
                           1564.0
     

     






      

          
GC ORFID: 44731How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: psyr_15may02_Scaffold4_revised_gene5798Glimmer Score: 

          
Start: 4992208Stop: 4993797

          
Length: 1590


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: psyr_15may02_Scaffold4_revised_gene5798 related to: gi|16121483|ref|NP_404796.1| (NC_003143) putative Branched-chain amino acid transport system, permease component [Yersinia pestis] emb|CAC90029.1| (AJ414147) putative Branched-chain amino acid transportHomolog Bit Score 738.0

          
Other Homologs:  t_PA4859 (ORF: BLASTX 608.0), psyr_15may02_Scaffold1_revised_gene282 (ORF: BLASTX 270.0), psyr_15may02_Scaffold4_revised_gene5798 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGCCCCTTGCCCTCCTCACCCGCCCGCTCCAGGCCTGTGTCCTGGTCCTGGCCGCCCTTCTCGCGGTGGCG 
GCCCACGCCGGACCGGCGCAGGACTTCGCCGCTGCCGACAACGGCGGTCGCGCCCACCTGCTCGAACACTGG 
GCGGCGACGCCCGACGCCGATCGCCTGGCCTTTCTCGAAGCGCTGCGCCACAACCGCATTGCGCTGGACAGC 
CGCCAGCAGCCATTCCTCCTCGGCGCCGACCAGCGTTTCCAGGCCGCCGAAGGCGACGCCCTGCCGGACGGC 
GAGCCGAAGCCGCTGCGCCTGAACAATCGCCTGCGCGGCCTGCTCAACACCGCCCTGGCCAGCCACCAGTTG 
GTGGCCAACGAAGTGCCGCTGCGGCAGGCCGCCGCGCAGCAGTTGCAGAAAACCGCCAAGGCCGCGCAACGG 
CCGCTGCTCGAAGCGCGCCTGCGGATCGAGAGCGACGCTGGCGTGAAGGAAGCCCTCGGCCTGGCCCTGGCC 
AACCTGCAACTCGGCGATCCCGACCCGGCGCTACGCCTTTCCGCCGTGCGCCTGCTCGGCGAGTCCGGCGAT 
CCGCTGGCGCGAACCCGCCTGGAGAACCTGCTCGACCCGGCGGTGGAACCGGAGGAAGGCGTGCGCATCGCT 
GCCGCCACCAGCCTGGCCCAGGTCAAGCGCCGGCTGCTGGTCGGCGACCTGCTCGGCCAGGCCTTCAGCGGC 
CTGTCGCTGGGCTCGATCCTGCTGCTCGCGGCGCTCGGCCTGGCGATCACCTACGGCCTGCTCGGGGTGATC 
AACATGGCCCACGGCGAAATGCTCATGCTCGGCGCCTACTCCACCTACGTGGTGCAACTGCTGTTCCAGCGC 
CTGGCGCCGGAATGGCTGGCGCTCTACCCGTTGCTGGCGCTACCGGTGGCGTTCTGCGTCAGCGCCGCCATC 
GGCATGGCCCTGGAGCGCACGGTGATCCGCCATCTCTACGGCCGGCCGCTGGAAACCCTGCTCGCCACCTGG 
GGCATCAGCCTGGTGCTGATCCAACTGGTGCGGATGCTGTTCGGCGCACAGAACGTCGAGGTAGCCAACCCG 
GCCTGGCTGTCCGGCGGCATCCAGGTGCTGCCGAACCTGGTGCTGCCGTGGAACCGCATCGTCATCATCGGC 
TTCGCCCTGTTCGTGCTGCTCCTCACCTGGCTGCTGCTGAACCGCACGCGGCTCGGCCTGAACGTCCGCGCG 
GTGACCCAGAACCGCAACATGGCGGCCTGCTGCGGGGTGCCCACAGGGCGCGTGGACATGCTCGCCTTCGGT 
CTCGGCTCGGGCATCGCCGGGCTCGGCGGGGTAGCCCTGTCGCAGGTCGGCAACGTCGGCCCGGACCTCGGC 
CAGGGCTACATCATCGACTCCTTCCTGGTGGTGGTGCTCGGCGGCGTCGGCCAGCTCGCCGGCAGCGTCCTC 
GCCGCCTTCGGCCTCGGCGTGGCGAACAAGATCCTCGAACCGCAGATCGGCGCGGTGCTGGGCAAGATCCTG 
ATCCTCGCGCTGATCGTCCTGTTCATCCAGAAACGCCCGCAGGGACTGTTCGCCCTGAAAGGGAGGGTCATC 
GATTGA