ViewGene
Locus Name:
GeneID:
Location:

GeneID:1168
TrivialName: PA14_15960
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_15960
PAO1 Ortholog Locus:PA3746
Sequence Length:1374
Protein Length:457
Start: 1359462
Stop: 1360835
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07133.1|AE004793_10 (AE004793) signal recognition particle protein Ffh [Pseudomonas aeruginosa PAO1]
Identities = 457/457 (100%), Positives = 457/457 (100%)
Sequence:
ATGTTCGAAAACCTTACAGACCGCCTCTCGCAGACGCTTCGCCATGTCACCGGCAAGGCCAAGCTGACCGAG
GACAACATCAAGGACACTCTGCGCGAAGTGCGCATGGCCCTGCTCGAGGCCGACGTGGCCCTGCCGGTGGTC
AAGGACTTCGTCAACAAGGTCAAGGAGCGCGCCGTCGGCACCGAGGTCTCGAAGAGCCTGACCCCGGGACAG
GCGTTCGTGAAGATCGTCCGCGCCGAACTCGAGGAGTTGATGGGGGCGGCCAACGAGGACCTGGCGCTGAGC
GTCGCGCCGCCGGCGGTGATCCTGATGGCCGGCCTGCAGGGCGCGGGCAAGACCACCACCGCGGGCAAGCTG
GCGCGCTTCCTTAAGGAACGGAAGAAGAAGTCGGTGATGGTGGTTTCCGCCGACGTCTACCGTCCCGCCGCG
ATCAAGCAGCTGGAAACCCTGGCGGGCGAGGTCGGCGTAACCTTCTTCCCTTCCGACGTCAGCCAGAAGCCG
GTGGCCATCGCCGAGGCGGCGATCCGCGAGGCGAGGCTGAAGTTCATCGACGTGGTGATCGTCGATACCGCA
GGCCGCCTGCACATCGATGCCGACATGATGGACGAGATCAAGCAGGTGCACGCGGCGATCAAGCCGGCGGAA
ACCCTGTTCGTGGTCGATGCCATGACCGGCCAGGACGCCGCCAACACCGCCAAGGCCTTCAATGACGCCTTG
CCGCTGACCGGCGTGGTCCTGACCAAGGTCGACGGCGACGCGCGTGGCGGTGCCGCGCTCTCGGTGCGGGCC
ATCACCGGCAAGCCGATCAAGTTCCTCGGCATGGGCGAAAAGAGCGAAGCGCTCGATCCGTTCCATCCCGAC
CGCGTGGCCTCGCGCATCCTCGGCATGGGCGACGTGCTCAGCCTGATCGAACAGGCCGAGCAGAACCTCGAC
CGCGACAAGGCCGAGAAGCTGGCGAAGAAGATCAAGAAGGGCAAGGGCTTCGACCTGGAAGACTTCCGCGAC
CAGTTGCAACAGATGAAGAACATGGGCGGCCTCGGCGGGCTCATGGACAAGCTGCCGATGCTCGGCGGGGTC
AACCTGGCGCAGATGGGCAATGCCCAGGGCGCTGCGGAGAAACAGTTCAAGCAGATGGAGGCGATCATCAAC
TCGATGACGCCCGGCGAACGGCGCGATCCGGAAATGATCAGCGGCTCGCGCAAGCGCCGCATCGCCCTTGGC
TCCGGTACCCAGGTGCAGGACGTTGGCCGGCTGATCAAGCAGCACAAGCAGATGCAGAAGATGATGAAGAAG
GTCACCGCCAAGGGCGGCATGGCCAAGATGATGCGAGGCATGGGCAGCATGTTCCCGGGGGGCATGCCCAAG
CTTTGA
Translation:
MFENLTDRLSQTLRHVTGKAKLTEDNIKDTLREVRMALLEADVALPVVKDFVNKVKERAVGTEVSKSLTPGQ
AFVKIVRAELEELMGAANEDLALSVAPPAVILMAGLQGAGKTTTAGKLARFLKERKKKSVMVVSADVYRPAA
IKQLETLAGEVGVTFFPSDVSQKPVAIAEAAIREARLKFIDVVIVDTAGRLHIDADMMDEIKQVHAAIKPAE
TLFVVDAMTGQDAANTAKAFNDALPLTGVVLTKVDGDARGGAALSVRAITGKPIKFLGMGEKSEALDPFHPD
RVASRILGMGDVLSLIEQAEQNLDRDKAEKLAKKIKKGKGFDLEDFRDQLQQMKNMGGLGGLMDKLPMLGGV
NLAQMGNAQGAAEKQFKQMEAIINSMTPGERRDPEMISGSRKRRIALGSGTQVQDVGRLIKQHKQMQKMMKK
VTAKGGMAKMMRGMGSMFPGGMPKL*
AnnotationID:1177GeneID:1168
AnnotatorUID: diggins
Modification Date/Time: 2005-04-22 09:09:55
Gene Name:ffh
Confidence Code:2
GeneProduct:signal recognition particle protein Ffh
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(19) Protein secretion/export apparatus
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG0541,KOG0780,pfam00448
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN54421.1|AE015579_10 (AE015579) signal recognition particle protein Ffh [Shewanella
           oneidensis MR-1]
          Length = 457

 Score =  649 bits (1675), Expect = 0.0
 Identities = 330/454 (72%), Positives = 394/454 (86%), Gaps = 2/454 (0%)

>gb|AAN81581.1|AE016764_263 (AE016764) Signal recognition particle protein [Escherichia coli
           CFT073]
          Length = 453

 Score =  631 bits (1627), Expect = e-180
 Identities = 329/458 (71%), Positives = 380/458 (82%), Gaps = 10/458 (2%)

>gb|AAC75659.1| (AE000347) GTP-binding export factor binds to signal sequence, GTP
           and RNA [Escherichia coli K12]
          Length = 453

 Score =  631 bits (1627), Expect = e-180
 Identities = 329/458 (71%), Positives = 380/458 (82%), Gaps = 10/458 (2%)








 
Structural Features:
COG0541, Ffh, Signal recognition particle GTPase 
[Intracellular trafficking and secretion]
CD-Length = 451 residues,  99.8% aligned
Score =  621 bits (1604), Expect = 1e-178
Identities = 281/455 (61%), Positives = 355/455 (78%), Gaps = 5/455 (1%)

KOG0780, Signal recognition particle, subunit Srp54 
[Intracellular trafficking, secretion, and vesicular transport]
CD-Length = 483 residues,  93.8% aligned
Score =  344 bits (885), Expect = 2e-95
Identities = 164/460 (35%), Positives = 252/460 (54%), Gaps = 10/460 (2%)

pfam00448, SRP54, SRP54-type protein
CD-Length = 197 residues, 100.0% aligned
Score =  260 bits (665), Expect = 8e-70
Identities = 111/198 (56%), Positives = 149/198 (75%), Gaps = 1/198 (0%)






   
Genomic Context:






   
Comment:


















    ReferenceID:2339




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:19481




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:31812




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:1168_cdd.html


    		




 
URL:

















    ReferenceID:34267




  
Author/Investigator(s):
        Honda K, Nakamura K, Nishiguchi M, Yamane K.





  
Title:
        Cloning and characterization of a Bacillus subtilis gene encoding a homolog of the 54-kilodalton subunit of mammalian signal recognition particle and Escherichia coli Ffh.




  
PubMed:
        8335643


MedLine:
        




    
Source:
J Bacteriol. 1993 Aug;175(15):4885-94.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=8335643









           
Homologs By Global Alignment 

           

       



     
Gene ID:1168
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
2096
                           PA3746_tr
                           translation of PA3746
                           457
                           99.99
                           99.99
                           0
                           2262.0
     

     
     
69860
                           gb|AAG07133.1|AE004793_10
                           (AE004793) signal recognition particle protein Ffh [Pseudomonas aeruginosa PAO1]
                           457
                           99.99
                           99.99
                           0
                           2262.0
     

     
     
69862
                           gb|AAO54993.1|
                           (AE016861) signal recognition particle protein Ffh [Pseudomonas syringae pv. tomato str. DC3000]
                           458
                           89.08
                           94.97
                           1
                           2060.0
     

     
     
69861
                           gb|AAN67083.1|AE016337_6
                           (AE016779) signal recognition particle protein Ffh [Pseudomonas putida KT2440]
                           538
                           77.50
                           82.34
                           81
                           2106.0
     

     
     
69864
                           gb|AAK03267.1|
                           (AE006158) Ffh [Pasteurella multocida]
                           464
                           72.62
                           84.69
                           13
                           1672.0
     

     






      

          
GC ORFID: 44170How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA3746Glimmer Score: 

          
Start: 3594475Stop: 3593102

          
Length: 1374


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA3746 translation of PA3746Homolog Bit Score 875.0

          
Other Homologs:  psyr_15may02_Scaffold3_revised_gene4557 (ORF: BLASTX 805.0), t_PA3746 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGTTCGAAAACCTTACAGACCGCCTCTCGCAGACGCTTCGCCATGTCACCGGCAAGGCCAAGCTGACCGAG 
GACAACATCAAGGACACTCTGCGCGAAGTGCGCATGGCCCTGCTCGAGGCCGACGTGGCCCTGCCGGTGGTC 
AAGGACTTCGTCAACAAGGTCAAGGAGCGCGCCGTCGGCACCGAGGTCTCGAAGAGCCTGACCCCGGGACAG 
GCGTTCGTGAAGATCGTCCGCGCCGAACTCGAGGAGTTGATGGGGGCGGCCAACGAGGACCTGGCGCTGAGC 
GTCGCGCCGCCGGCGGTGATCCTGATGGCCGGCCTGCAGGGCGCGGGCAAGACCACCACCGCGGGCAAGCTG 
GCGCGCTTCCTTAAGGAACGGAAGAAGAAGTCGGTGATGGTGGTTTCCGCCGACGTCTACCGTCCCGCCGCG 
ATCAAGCAGCTGGAAACCCTGGCGGGCGAGGTCGGCGTAACCTTCTTCCCTTCCGACGTCAGCCAGAAGCCG 
GTGGCCATCGCCGAGGCGGCGATCCGCGAGGCGAGGCTGAAGTTCATCGACGTGGTGATCGTCGATACCGCA 
GGCCGCCTGCACATCGATGCCGACATGATGGACGAGATCAAGCAGGTGCACGCGGCGATCAAGCCGGCGGAA 
ACCCTGTTCGTGGTCGATGCCATGACCGGCCAGGACGCCGCCAACACCGCCAAGGCCTTCAATGACGCCTTG 
CCGCTGACCGGCGTGGTCCTGACCAAGGTCGACGGCGACGCGCGTGGCGGTGCCGCGCTCTCGGTGCGGGCC 
ATCACCGGCAAGCCGATCAAGTTCCTCGGCATGGGCGAAAAGAGCGAAGCGCTCGATCCGTTCCATCCCGAC 
CGCGTGGCCTCGCGCATCCTCGGCATGGGCGACGTGCTCAGCCTGATCGAACAGGCCGAGCAGAACCTCGAC 
CGCGACAAGGCCGAGAAGCTGGCGAAGAAGATCAAGAAGGGCAAGGGCTTCGACCTGGAAGACTTCCGCGAC 
CAGTTGCAACAGATGAAGAACATGGGCGGCCTCGGCGGGCTCATGGACAAGCTGCCGATGCTCGGCGGGGTC 
AACCTGGCGCAGATGGGCAATGCCCAGGGCGCTGCGGAGAAACAGTTCAAGCAGATGGAGGCGATCATCAAC 
TCGATGACGCCCGGCGAACGGCGCGATCCGGAAATGATCAGCGGCTCGCGCAAGCGCCGCATCGCCCTTGGC 
TCCGGTACCCAGGTGCAGGACGTTGGCCGGCTGATCAAGCAGCACAAGCAGATGCAGAAGATGATGAAGAAG 
GTCACCGCCAAGGGCGGCATGGCCAAGATGATGCGAGGCATGGGCAGCATGTTCCCGGGGGGCATGCCCAAG 
CTTTGA