ViewGene
Locus Name:
GeneID:
Location:

GeneID:1397
TrivialName: PA14_55890
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_55890
PAO1 Ortholog Locus:PA4302
Sequence Length:1266
Protein Length:421
Start: 4990633
Stop: 4989368
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07690.1|AE004846_7 (AE004846) probable type II secretion system protein [Pseudomonas aeruginosa PAO1]
Identities = 420/421 (99%), Positives = 420/421 (99%)
Sequence:
ATGAGCACGGGATTCGGCGCGCGTCCTGACGGCGGTGCCTTCCACTACCGCCAGGAGCAGGACATCCAGGCG
CTGAAGCTGCGCCTGCACCGCTACATCATCGACGAGATCGACGAAGACGGCATGAACCTGCTGGAGGGCGCG
CGCTCCGCCGTGGTCCAGTACGTCTCGGAAAAGGTCTGCGAATACGGCTCGCGCCATCAACTGGCGATCTCC
CGCTACGAACTGGACCGCCTGGCCGAAGAGGTGGTCGACGAACTCACCGGCTTCGGCCCGCTGGAGATCCTC
CTGCGCGATCCCGGCGTCTCGGAAATCCTCGTCAACGGACCGGGCCGGGTGTTCGTCGAGCGGGAAGGGCGG
CTCTACCAGAGCGACCTGCGCTTCATCGACGACCACCATGTGCTGCGGGTGATCCAGCGTATCCTCGCGCCC
CTCGGCCGACGCCTGGACGAGTCCAGCCCGATGGTCGACGCGCGCCTGCCGGACGGCAGCCGGGTCAACGCG
ATCATTCCCCCGGTGGCGCTGGACGGGCCGTGCATCTCGATCCGCAAGTTCAGCCAGGAGCTGCTGCGCAGT
GCCGACCTGCTGGCCTACCAGAGCGTCGACGAAGCCTTGCTCGAGTTCCTCCGCCAGGCGGTCTCGCGCCGC
TGCAACATCCTCATCAGTGGCGGCACCGGCACCGGCAAGACCACCTTGCTCAACGTCATCAGCGGCTTCATC
GACGAACGCGAGCGGATCGTCACCATCGAGGACACCGCCGAGCTGCAACTCGGCCACGACCACGTGGTGCGC
CTGGAGACCCGTCCGCCGAACGCCGAGGGCTACGGCGAGGTGACCGCCCGCGACCTGATCCGCAACGCCCTG
CGGATGCGCCCGGACCGGATCATCCTCGGCGAGATCCGCGGCGTCGAGGTGCTCGACGTGCTGCAGGCGATG
AACACCGGCCACGACGGCTCGATGAGCACGGTGCACGCCAACTCGGCGATGGATTCGCTGCTGCGCATGGAG
ATGCTGGTCGGCCTGACCGGCAACAGGCTGCCGGAGCAGACCTTGCGCCTGATGATCTGCGCCGCGCTGGAC
GTGGTGGTGCAGATCACCCGCCTGGCCAGCGGTCGGCGTTGCATCAGCGAAGTGCTGGAGGTGCTGGAGGTG
CGCGACGGCGTGTACGTCACCAATACCCTGTTCAGTCTCGACCGGCGCGGTAGCGGGCAGTTCGTCCGCCAG
GCCGCGCCGGTCGGGCAGAAATTCCGCCAGGCGCTGCTGTGA
Translation:
MSTGFGARPDGGAFHYRQEQDIQALKLRLHRYIIDEIDEDGMNLLEGARSAVVQYVSEKVCEYGSRHQLAIS
RYELDRLAEEVVDELTGFGPLEILLRDPGVSEILVNGPGRVFVEREGRLYQSDLRFIDDHHVLRVIQRILAP
LGRRLDESSPMVDARLPDGSRVNAIIPPVALDGPCISIRKFSQELLRSADLLAYQSVDEALLEFLRQAVSRR
CNILISGGTGTGKTTLLNVISGFIDERERIVTIEDTAELQLGHDHVVRLETRPPNAEGYGEVTARDLIRNAL
RMRPDRIILGEIRGVEVLDVLQAMNTGHDGSMSTVHANSAMDSLLRMEMLVGLTGNRLPEQTLRLMICAALD
VVVQITRLASGRRCISEVLEVLEVRDGVYVTNTLFSLDRRGSGQFVRQAAPVGQKFRQALL*
AnnotationID:1406GeneID:1397
AnnotatorUID: diggins
Modification Date/Time: 2005-04-04 08:08:54
Gene Name:
Confidence Code:3
GeneProduct:putative type II secretion system protein
Cell Localization:()
Synonyms:cpaF2
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(19) Protein secretion/export apparatus
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG4962,pfam00437,cd01130,COG0630
Secondary Functional Category(ies):intracellular trafficking and secretion
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO58282.1| (AE016873) type II/IV secretion system protein, putative
           [Pseudomonas syringae pv. tomato str. DC3000]
          Length = 418

 Score =  582 bits (1499), Expect = e-165
 Identities = 289/401 (72%), Positives = 344/401 (85%), Gaps = 1/401 (0%)

>emb|CAD14182.1| (AL646060) PROBABLE SECRETION ATPASE PROTEIN [Ralstonia
           solanacearum]
          Length = 453

 Score =  378 bits (971), Expect = e-104
 Identities = 195/381 (51%), Positives = 270/381 (70%), Gaps = 6/381 (1%)

>emb|CAE32325.1| (BX640442) probable type II secretion system protein [Bordetella
           bronchiseptica]
          Length = 451

 Score =  377 bits (968), Expect = e-104
 Identities = 197/394 (50%), Positives = 266/394 (67%), Gaps = 3/394 (0%)








 
Structural Features:
COG4962, CpaF, Flp pilus assembly protein, ATPase CpaF 
[Intracellular trafficking and secretion]
CD-Length = 355 residues,  96.9% aligned
Score =  426 bits (1096), Expect = 3e-120
Identities = 210/350 (60%), Positives = 264/350 (75%), Gaps = 5/350 (1%)

pfam00437, GSPII_E, Type II/IV secretion system protein. 
CD-Length = 283 residues,  99.6% aligned
Score =  290 bits (743), Expect = 2e-79
Identities = 132/294 (44%), Positives = 163/294 (55%), Gaps = 14/294 (4%)

cd01130, VirB11-like_ATPase, Type IV secretory pathway component VirB11, 
and related ATPases. 
CD-Length = 186 residues,  96.8% aligned
Score =  242 bits (620), Expect = 4e-65

COG0630, VirB11, Type IV secretory pathway, VirB11 components, 
and related ATPases involved in archaeal flagella biosynthesis 
[Cell motility and secretion / Intracellular trafficking and secretion]
CD-Length = 312 residues,  98.7% aligned
Score =  221 bits (563), Expect = 2e-58
Identities = 122/321 (38%), Positives = 187/321 (58%), Gaps = 15/321 (4%)






   
Genomic Context:






   
Comment:
other possible gene name: hvbA


















    ReferenceID:2797




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:19942




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:36664




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:1397_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:1397
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
2545
                           PA4302_tr
                           translation of PA4302
                           421
                           99.76
                           99.76
                           0
                           2105.0
     

     
     
80224
                           gb|AAG07690.1|AE004846_7
                           (AE004846) probable type II secretion system protein [Pseudomonas aeruginosa PAO1]
                           421
                           99.76
                           99.76
                           0
                           2105.0
     

     
     
80225
                           gb|AAO58282.1|
                           (AE016873) type II/IV secretion system protein, putative [Pseudomonas syringae pv. tomato str. DC3000]
                           430
                           67.90
                           80.69
                           21
                           1499.0
     

     
     
80229
                           emb|CAD18236.1|
                           (AL646082) PROBABLE SECRETION ATPASE PROTEIN [Ralstonia solanacearum]
                           452
                           44.46
                           62.38
                           33
                           954.0
     

     
     
80226
                           emb|CAD14182.1|
                           (AL646060) PROBABLE SECRETION ATPASE PROTEIN [Ralstonia solanacearum]
                           469
                           43.92
                           60.76
                           64
                           977.0
     

     






      

          
GC ORFID: 44399How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA4302Glimmer Score: 

          
Start: 4254309Stop: 4253044

          
Length: 1266


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA4302 translation of PA4302Homolog Bit Score 815.0

          
Other Homologs:  psyr_15may02_Scaffold4_revised_gene5762 (ORF: BLASTX 582.0), t_PA4302 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGAGCACGGGATTCGGCGCGCGTCCTGACGGCGGTGCCTTCCACTACCGCCAGGAGCAGGACATCCAGGCG 
CTGAAGCTGCGCCTGCACCGCTACATCATCGACGAGATCGACGAAGACGGCATGAACCTGCTGGAGGGCGCG 
CGCTCCGCCGTGGTCCAGTACGTCTCGGAAAAGGTCTGCGAATACGGCTCGCGCCATCAACTGGCGATCTCC 
CGCTACGAACTGGACCGCCTGGCCGAAGAGGTGGTCGACGAACTCACCGGCTTCGGCCCGCTGGAGATCCTC 
CTGCGCGATCCCGGCGTCTCGGAAATCCTCGTCAACGGACCGGGCCGGGTGTTCGTCGAGCGGGAAGGGCGG 
CTCTACCAGAGCGACCTGCGCTTCATCGACGACCACCATGTGCTGCGGGTGATCCAGCGTATCCTCGCGCCC 
CTCGGCCGACGCCTGGACGAGTCCAGCCCGATGGTCGACGCGCGCCTGCCGGACGGCAGCCGGGTCAACGCG 
ATCATTCCCCCGGTGGCGCTGGACGGGCCGTGCATCTCGATCCGCAAGTTCAGCCAGGAGCTGCTGCGCAGT 
GCCGACCTGCTGGCCTACCAGAGCGTCGACGAAGCCTTGCTCGAGTTCCTCCGCCAGGCGGTCTCGCGCCGC 
TGCAACATCCTCATCAGTGGCGGCACCGGCACCGGCAAGACCACCTTGCTCAACGTCATCAGCGGCTTCATC 
GACGAACGCGAGCGGATCGTCACCATCGAGGACACCGCCGAGCTGCAACTCGGCCACGACCACGTGGTGCGC 
CTGGAGACCCGTCCGCCGAACGCCGAGGGCTACGGCGAGGTGACCGCCCGCGACCTGATCCGCAACGCCCTG 
CGGATGCGCCCGGACCGGATCATCCTCGGCGAGATCCGCGGCGTCGAGGTGCTCGACGTGCTGCAGGCGATG 
AACACCGGCCACGACGGCTCGATGAGCACGGTGCACGCCAACTCGGCGATGGATTCGCTGCTGCGCATGGAG 
ATGCTGGTCGGCCTGACCGGCAACAGGCTGCCGGAGCAGACCTTGCGCCTGATGATCTGCGCCGCGCTGGAC 
GTGGTGGTGCAGATCACCCGCCTGGCCAGCGGTCGGCGTTGCATCAGCGAAGTGCTGGAGGTGCTGGAGGTG 
CGCGACGGCGTGTACGTCACCAATACCCTGTTCAGTCTCGACCGGCGCGGTAGCGGGCAGTTCGTCCGCCAG 
GCCGCGCCGGTCGGGCAGAAATTCCGCCAGGCGCTGCTGTGA