ViewGene
Locus Name:
GeneID:
Location:

GeneID:774
TrivialName: PA14_42970
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_42970
PAO1 Ortholog Locus:PA1663
Sequence Length:1512
Protein Length:503
Start: 3821420
Stop: 3819909
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG05052.1|AE004594_4 (AE004594) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
Identities = 500/503 (99%), Positives = 502/503 (99%)
Sequence:
ATGTTCAGCCGCGTACCGCAACCCCTGGCCTTCGCCGAAGCCCTGCTCGCTCAGTTCGGCGCGCTGTCGCGG
GAAACCGACATCGCGGCCCTGCTGGGCGGTTTCGCACGCGCAGTCGGCGAACTCAGCGGCTGCGAGCTGAGC
CAGCTGTATCTGCTCGACCAGACCCATACCGCGCTCACCCTCAACGCCGAATGCCGGGACGGCCTGTTGCAG
GCGCTGGAGCCGTCGAGCCTGCCGGCGGACTACACCGGCGAGCAGTTGCTGCAGTTCGCCCTGTGCCAGAAC
CGCGTGGTCAGTCTCGTCGACCTGCCGTCGCGGCTGCACGAGACCGGCTTCCTGCCGGCAGGGGAGCAGCCC
TGGCTGTCCCTGCTCTGCGTTCCGCTGGTGAGCCCGGAGAAAACGGTCGAGGGCATGGTGGTCTGCGCCAcC
CGGCGCCCACTGGACCTGCAGGGATTCGCCCATCCAcTGGGCCAGTTGGGCTCGTTCGTGCTGGCCCAGCTG
CATCTGCTGCAACGCCTCTCGCAACCCTCCGGCGAGCCGCAGGGACCGTCCAGCGCGCCGGTGGTCAGCGGC
TACGGGCTGATCGGCAGGAGCGCGGCGATGCGTGAGACCTGCCGCCTGATCAGCAAGGTCCTGCACAACCCC
TATACCGTGTTGCTGCAGGGCGAGACCGGTACCGGCAAGGAGGTGGTCGCACGGGCGATCCACGAGTACGGC
CCGCGGCGAGCACAGGCGTTCGTGGTGCAGAACTGCGCGGCGTTTCCGGAAAACCTGCTGGAAAGCGAGCTG
TTCGGCTACCGCAAGGGCGCCTTTACCGGTGCCGAGCGCGATCGTCCCGGGTTGTTCGATGCCGCGGATGGC
GGAACCCTGCTGCTCGACGAAATCGGCGACATGCCCCTGTCGCTCCAGGCCAAGCTGTTGCGCGTGTTGCAG
GAAGGCGAGATTCGCCCGCTCGGCGGCAACGACACGCACAAGGTCGATGTACGCATCATCGCCGCTACCCAC
CGTGACCTCGCCCTGCTGGTCCGCGATGGCAAGTTCCGCGAAGACCTCTACTACCGGCTGGCGCAGTTTCCC
ATCGAGTTGCCGCCGTTGCGCCAGCGCGAGGGCGACGCCCTCGAACTGGCCCGGCATTTCGCCGAACGCGCC
TGCGTGTTCCTGCGCCGCGCGCCGCTGGGCTGGTCCGCGGAAGCGCTGGAACTGCTCGACGGCTATGGCTTT
CCCGGCAACGTTCGGGAGCTGAAGGGACTGGTGGAATGCGCGGTACTGCTCTGCGAAGGCGATGTGCTGCTG
GCCGAACACTTTTCCCTGCGCGCGCCCCCGGAAGCGGAGGCGCCGCTCAAGCTGCGCGAGCACCTGGAGCAG
ATCGAGCGCGACCTGCTGCTCGCCTGCCTGCGCAGGAACGCTGGCAACCAGACCCTCGCCGCGCGCGAACTG
GGTCTGCCGCGCCGAACCCTGATCTATCGCATGGGACGCCTGAACATTCATTTCGGCGATCCCCGGACCTGA
Translation:
MFSRVPQPLAFAEALLAQFGALSRETDIAALLGGFARAVGELSGCELSQLYLLDQTHTALTLNAECRDGLLQ
ALEPSSLPADYTGEQLLQFALCQNRVVSLVDLPSRLHETGFLPAGEQPWLSLLCVPLVSPEKTVEGMVVCAT
RRPLDLQGFAHPLGQLGSFVLAQLHLLQRLSQPSGEPQGPSSAPVVSGYGLIGRSAAMRETCRLISKVLHNP
YTVLLQGETGTGKEVVARAIHEYGPRRAQAFVVQNCAAFPENLLESELFGYRKGAFTGAERDRPGLFDAADG
GTLLLDEIGDMPLSLQAKLLRVLQEGEIRPLGGNDTHKVDVRIIAATHRDLALLVRDGKFREDLYYRLAQFP
IELPPLRQREGDALELARHFAERACVFLRRAPLGWSAEALELLDGYGFPGNVRELKGLVECAVLLCEGDVLL
AEHFSLRAPPEAEAPLKLREHLEQIERDLLLACLRRNAGNQTLAARELGLPRRTLIYRMGRLNIHFGDPRT*
AnnotationID:783GeneID:774
AnnotatorUID: diggins
Modification Date/Time: 2005-02-27 18:06:17
Gene Name:
Confidence Code:3
GeneProduct:putative sigma-54 dependent transcriptional regulator
Cell Localization:()
Synonyms:PA1663
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(25) Transcriptional regulators
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG3604,pfam00158,COG1221
Secondary Functional Category(ies):signal transduction mechanisms
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO58846.1| (AE016875) sigma-54 dependent transcriptional regulator
           [Pseudomonas syringae pv. tomato str. DC3000]
          Length = 505

 Score =  706 bits (1821), Expect = 0.0
 Identities = 358/503 (71%), Positives = 417/503 (82%), Gaps = 4/503 (0%)








 
Structural Features:
COG3604, FhlA, Transcriptional regulator containing GAF, AAA-type ATPase, 
and DNA binding domains 
[Transcription / Signal transduction mechanisms]
CD-Length = 550 residues,  96.4% aligned
Score =  532 bits (1372), Expect = 3e-152
Identities = 226/534 (42%), Positives = 279/534 (52%), Gaps = 37/534 (6%)

pfam00158, Sigma54_activat, Sigma-54 interaction domain.
CD-Length = 222 residues, 100.0% aligned
Score =  299 bits (767), Expect = 6e-82
Identities = 133/222 (59%), Positives = 156/222 (70%)

COG1221, PspF, Transcriptional regulators containing an AAA-type ATPase 
domain and a DNA-binding domain 
[Transcription / Signal transduction mechanisms]
CD-Length = 403 residues,  96.3% aligned
Score =  266 bits (681), Expect = 4e-72
Identities = 152/400 (38%), Positives = 197/400 (49%), Gaps = 32/400 (8%)






   
Genomic Context:






   
Comment:


















    ReferenceID:1551




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:18693




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:37186




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:774_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:774
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
1361
                           PA1663_tr
                           translation of PA1663
                           503
                           99.40
                           99.80
                           0
                           2571.0
     

     
     
50101
                           gb|AAG05052.1|AE004594_4
                           (AE004594) probable transcriptional regulator [Pseudomonas aeruginosa PAO1]
                           503
                           99.40
                           99.80
                           0
                           2571.0
     

     
     
50102
                           gb|AAO58846.1|
                           (AE016875) sigma-54 dependent transcriptional regulator [Pseudomonas syringae pv. tomato str. DC3000]
                           507
                           70.80
                           82.44
                           6
                           1825.0
     

     
     
50103
                           gb|AAK29058.1|AF345944_1
                           (AF345944) NifA2 [Frankia sp. EuIK1]
                           519
                           58.95
                           70.13
                           28
                           1451.0
     

     
     
50104
                           gb|AAO56054.1|
                           (AE016864) sigma-54 dependent transcriptional regulator [Pseudomonas syringae pv. tomato str. DC3000]
                           513
                           55.94
                           70.76
                           14
                           1392.0
     

     






      

          
GC ORFID: 43776How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA1663Glimmer Score: 

          
Start: 1132489Stop: 1134000

          
Length: 1512


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA1663 translation of PA1663Homolog Bit Score 994.0

          
Other Homologs:  t_PA4547 (ORF: BLASTX 251.0), psyr_15may02_Scaffold2_revised_gene3558 (ORF: BLASTX 250.0), t_PA5125 (ORF: BLASTX 239.0), psyr_15may02_Scaffold15_revised_gene2516 (ORF: BLASTX 238.0), t_PA2665 (ORF: BLASTX 236.0), psyr_15may02_Scaffold8_revised_gene7916 (ORF: BLASTX 234.0), t_PA1945 (ORF: BLASTX 232.0), psyr_15may02_Scaffold6_revised_gene6894 (ORF: BLASTX 232.0), psyr_15may02_Scaffold2_revised_gene4053 (ORF: BLASTX 230.0), psyr_15may02_Scaffold1_revised_gene1290 (ORF: BLASTX 229.0), t_PA2005 (ORF: BLASTX 223.0), t_PA1097 (ORF: BLASTX 222.0), t_PA2359 (ORF: BLASTX 217.0), psyr_15may02_Scaffold3_revised_gene4961 (ORF: BLASTX 216.0), psyr_15may02_Scaffold5_revised_gene6135 (ORF: BLASTX 214.0), t_PA5511 (ORF: BLASTX 213.0), psyr_15may02_Scaffold8_revised_gene7914 (ORF: BLASTX 213.0), t_PA1196 (ORF: BLASTX 210.0), psyr_15may02_Scaffold7_revised_gene7248 (ORF: BLASTX 210.0), t_PA5166 (ORF: BLASTX 209.0), t_PA5483 (ORF: BLASTX 207.0), psyr_15may02_Scaffold14_revised_gene2286 (ORF: BLASTX 200.0), psyr_15may02_Scaffold3_revised_gene4480 (ORF: BLASTX 189.0), psyr_15may02_Scaffold3_revised_gene4481 (ORF: BLASTX 187.0), t_PA3932 (ORF: BLASTX 174.0), t_PA1663 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGTTCAGCCGCGTACCGCAACCCCTGGCCTTCGCCGAAGCCCTGCTCGCTCAGTTCGGCGCGCTGTCGCGG 
GAAACCGACATCGCGGCCCTGCTGGGCGGTTTCGCACGCGCAGTCGGCGAACTCAGCGGCTGCGAGCTGAGC 
CAGCTGTATCTGCTCGACCAGACCCATACCGCGCTCACCCTCAACGCCGAATGCCGGGACGGCCTGTTGCAG 
GCGCTGGAGCCGTCGAGCCTGCCGGCGGACTACACCGGCGAGCAGTTGCTGCAGTTCGCCCTGTGCCAGAAC 
CGCGTGGTCAGTCTCGTCGACCTGCCGTCGCGGCTGCACGAGACCGGCTTCCTGCCGGCAGGGGAGCAGCCC 
TGGCTGTCCCTGCTCTGCGTTCCGCTGGTGAGCCCGGAGAAAACGGTCGAGGGCATGGTGGTCTGCGCCAcC 
CGGCGCCCACTGGACCTGCAGGGATTCGCCCATCCAcTGGGCCAGTTGGGCTCGTTCGTGCTGGCCCAGCTG 
CATCTGCTGCAACGCCTCTCGCAACCCTCCGGCGAGCCGCAGGGACCGTCCAGCGCGCCGGTGGTCAGCGGC 
TACGGGCTGATCGGCAGGAGCGCGGCGATGCGTGAGACCTGCCGCCTGATCAGCAAGGTCCTGCACAACCCC 
TATACCGTGTTGCTGCAGGGCGAGACCGGTACCGGCAAGGAGGTGGTCGCACGGGCGATCCACGAGTACGGC 
CCGCGGCGAGCACAGGCGTTCGTGGTGCAGAACTGCGCGGCGTTTCCGGAAAACCTGCTGGAAAGCGAGCTG 
TTCGGCTACCGCAAGGGCGCCTTTACCGGTGCCGAGCGCGATCGTCCCGGGTTGTTCGATGCCGCGGATGGC 
GGAACCCTGCTGCTCGACGAAATCGGCGACATGCCCCTGTCGCTCCAGGCCAAGCTGTTGCGCGTGTTGCAG 
GAAGGCGAGATTCGCCCGCTCGGCGGCAACGACACGCACAAGGTCGATGTACGCATCATCGCCGCTACCCAC 
CGTGACCTCGCCCTGCTGGTCCGCGATGGCAAGTTCCGCGAAGACCTCTACTACCGGCTGGCGCAGTTTCCC 
ATCGAGTTGCCGCCGTTGCGCCAGCGCGAGGGCGACGCCCTCGAACTGGCCCGGCATTTCGCCGAACGCGCC 
TGCGTGTTCCTGCGCCGCGCGCCGCTGGGCTGGTCCGCGGAAGCGCTGGAACTGCTCGACGGCTATGGCTTT 
CCCGGCAACGTTCGGGAGCTGAAGGGACTGGTGGAATGCGCGGTACTGCTCTGCGAAGGCGATGTGCTGCTG 
GCCGAACACTTTTCCCTGCGCGCGCCCCCGGAAGCGGAGGCGCCGCTCAAGCTGCGCGAGCACCTGGAGCAG 
ATCGAGCGCGACCTGCTGCTCGCCTGCCTGCGCAGGAACGCTGGCAACCAGACCCTCGCCGCGCGCGAACTG 
GGTCTGCCGCGCCGAACCCTGATCTATCGCATGGGACGCCTGAACATTCATTTCGGCGATCCCCGGACCTGA