ViewGene
Locus Name:
GeneID:
Location:

GeneID:1901
TrivialName: PA14_41570
AnnotatorUID: danlee
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_41570
PAO1 Ortholog Locus:PA1777
Sequence Length:1053
Protein Length:350
Start: 3713499
Stop: 3712447
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:TRUE
Comments:
Homology: gb|AAG05166.1|AE004603_6 (AE004603) Major porin and structural outer membrane porin OprF precursor [Pseudomonas aeruginosa PAO1]
Identities = 350/350 (100%), Positives = 350/350 (100%) Homologs By Global Alignment data below is inaccurate (9-26-05)
Sequence:
atgaaactgaagaacaccttaggcgttgtcatcggctcgctggttgccgcttcggcaatgaacgcctttgcc
cagggccagaactcggtagagatcgaagccttcggcaagcgctacttcaccgacagcgttcgcaacatgaag
aacgcggacctgtacggcggctcgatcggttacttcctgaccgacgacgtcgagctggcgctgtcctacggt
gagtaccatgacgttcgtggcacctacgaaaccggcaacaagaaggtccacggcaacctgacctctctggac
gccatctaccacttcggtaccccgggcgtaggtctgcgtccgtacgtgtcggctggtctggctcaccagaac
atcaccaacatcaacagcgacagccaaggccgtcagcagatgaccatggccaacatcggcgctggtctgaag
tactacttcactgagaacttcttcgccaaggccagcctcgacggccagtacggtctggagaagcgtgacaac
ggtcaccagggcgagtggatggctggcctgggcgtcggcttcaacttcggtggttcgaaagccgctccggct
ccggaaccggttgccgacgtttgctccgactccgacaacgacggcgtttgcgacaacgtcgacaagtgcccg
gataccccggccaacgtcaccgttgacgccaacggctgcccggctgtcgccgaagtcgtacgcgtacagctg
gacgtgaagttcgacttcgacaagtccaaggtcaaagagaatagctacgctgacatcaagaacctggctgac
ttcatgaagcagtacccgtccacttccaccaccgttgaaggtcacaccgactccgtcggcaccgacgcttac
aaccagaagctgtccgagcgtcgtgccaacgccgttcgtgacgtactggtcaacgagtacggtgtagaaggt
ggtcgcgtgaacgctgttggttacggcgagtcccgcccggttgccgacaacgccaccgctgaaggccgcgct
atcaaccgtcgcgttgaagccgaagtagaagctgaagccaagtaa
Translation:
MKLKNTLGVVIGSLVAASAMNAFAQGQNSVEIEAFGKRYFTDSVRNMKNADLYGGSIGYFLTDDVELALSYG
EYHDVRGTYETGNKKVHGNLTSLDAIYHFGTPGVGLRPYVSAGLAHQNITNINSDSQGRQQMTMANIGAGLK
YYFTENFFAKASLDGQYGLEKRDNGHQGEWMAGLGVGFNFGGSKAAPAPEPVADVCSDSDNDGVCDNVDKCP
DTPANVTVDANGCPAVAEVVRVQLDVKFDFDKSKVKENSYADIKNLADFMKQYPSTSTTVEGHTDSVGTDAY
NQKLSERRANAVRDVLVNEYGVEGGRVNAVGYGESRPVADNATAEGRAINRRVEAEVEAEAK*
AnnotationID:1910GeneID:1901
AnnotatorUID: diggins
Modification Date/Time: 2005-03-01 09:09:07
Gene Name:oprF
Confidence Code:1
GeneProduct:major porin and structural outer membrane porin OprF precursor
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(15) Membrane proteins
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:pfam05736,pfam00691
Secondary Functional Category(ies):transport of small molecules
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAD24560.1|AF117968_1 (AF117968) OprF [Pseudomonas resinovorans]
          Length = 340

 Score =  520 bits (1340), Expect = e-147
 Identities = 258/345 (74%), Positives = 295/345 (85%), Gaps = 9/345 (2%)

>gb|AAD22006.1| (AF115337) major outer membrane protein; OprF [Pseudomonas
           fluorescens]
          Length = 344

 Score =  456 bits (1174), Expect = e-128
 Identities = 238/353 (67%), Positives = 274/353 (77%), Gaps = 12/353 (3%)

>gb|AAN67703.1|AE016401_6 (AE016781) outer membrane protein OprF [Pseudomonas putida KT2440]
          Length = 344

 Score =  452 bits (1162), Expect = e-126
 Identities = 232/353 (65%), Positives = 275/353 (77%), Gaps = 12/353 (3%)








 
Structural Features:
pfam05736, OprF, OmpF membrane domain.
CD-Length = 184 residues, 100.0% aligned
Score =  280 bits (717), Expect = 2e-76
Identities = 128/188 (68%), Positives = 145/188 (77%), Gaps = 4/188 (2%)

pfam00691, OmpA, OmpA family.
CD-Length = 96 residues, 100.0% aligned
Score =  124 bits (312), Expect = 2e-29
Identities = 51/97 (52%), Positives = 65/97 (67%), Gaps = 1/97 (1%)








   
Genomic Context:






   
Comment:


















    ReferenceID:3805




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:20952




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:37146




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:1901_cdd.html


    		




 
URL:

















    ReferenceID:37824




  
Author/Investigator(s):
        Woodruff WA, Hancock RE.





  
Title:
        Pseudomonas aeruginosa outer membrane protein F: structural role and relationship to the Escherichia coli OmpA protein.




  
PubMed:
        2498289


MedLine:
        




    
Source:
J Bacteriol. 1989 Jun;171(6):3304-9.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=2498289

















    ReferenceID:37825




  
Author/Investigator(s):
        Duchene M, Schweizer A, Lottspeich F, Krauss G, Marget M, Vogel K, von Specht BU, Domdey H.





  
Title:
        Sequence and transcriptional start site of the Pseudomonas aeruginosa outer membrane porin protein F gene.




  
PubMed:
        2447060


MedLine:
        




    
Source:
J Bacteriol. 1988 Jan;170(1):155-62.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=2447060









           
Homologs By Global Alignment 

           

       



     
Gene ID:1901
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
3351
                           PA1777_tr
                           translation of PA1777
                           350
                           99.14
                           99.42
                           0
                           1805.0
     

     
     
104027
                           gb|AAG05166.1|AE004603_6
                           (AE004603) Major porin and structural outer membrane porin OprF precursor [Pseudomonas aeruginosa PAO1]
                           350
                           99.14
                           99.42
                           0
                           1805.0
     

     
     
104028
                           gb|AAD11568.1|
                           (AF027290) major outer membrane protein OprF precursor [Pseudomonas aeruginosa]
                           350
                           99.14
                           99.42
                           0
                           1805.0
     

     
     
104029
                           gb|AAA25973.1|
                           (M18975) porin protein F precursor [Pseudomonas aeruginosa]
                           350
                           99.14
                           99.42
                           0
                           1805.0
     

     
     
104030
                           gb|AAD24560.1|AF117968_1
                           (AF117968) OprF [Pseudomonas resinovorans]
                           354
                           72.88
                           83.33
                           18
                           1350.0
     

     






      

          
GC ORFID: 44903How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA1777Glimmer Score: 

          
Start: 1240409Stop: 1241461

          
Length: 1053


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TAATruncated Stop: 

          
Homolog: t_PA1777 translation of PA1777Homolog Bit Score 699.0

          
Other Homologs:  psyr_15may02_Scaffold1_revised_gene1073 (ORF: BLASTX 448.0), t_PA1041 (ORF: BLASTX 103.0), t_PA1777 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGAAACTGAAGAACACCTTAGGCGTTGTCATCGGCTCGCTGGTTGCCGCTTCGGCAATGAACGCCTTTGCC 
CAGGGCCAGAACTCGGTAGAGATCGAAGCCTTCGGCAAGCGCTACTTCACCGACAGCGTTCGCAACATGAAG 
AACGCGGACCTGTACGGCGGCACGATCGGTAACGTcctGACCGACGACGTCGAGCTGGCGCTGTCCtacggt 
GAGTACCATGACGTTCGTGGCACCTACGaAACCGGCAACAagaaggtccACGGCAACCTGACCTCTCTGGAC 
GCCATCTACCACTTCGGTACCCCGGGCGTAggTCTGCGTCCGTACGTGTCGGCTGGTCTGGCTCACCAGaAC 
ATCACCAACATCAACAGCGACAGCCAaggCCGTCAGCAGATGACCATGGCCAACATCGGCGCTGGTCTGAAG 
TACTACTTCACTGAGAACTTCTTCGCCAAGGCCAgCCTCGACGGCCAGTACGGTCTGGAGAAGCGTGACAAC 
GGTCACCAGGGCGAGTGGATGGCTGGCCTGGGCGTCGGCTTCAACTTCGGTGGTTCGAAAGCCGCTCCGGCT 
CCGGAACCGGTTGCCGACGTTTGCTCCGACTCCGACAACGACGGCGTTTGCGACAACGTCGACAAGTGCCCG 
GATACCCCGGCCAACGTCACCGTTGACGCCAACGGCTGCCCGGCTGTCGCCGAAGTCGTACGCGTACAGCTG 
GACGTGAAGTTCGACTTCGACAAGTCCAAGGTCAAAGAGAATAGCTACGCTGACATCAAGAACCTGGCTGAC 
TTCATGAAGCAGTACCCGTCCACTTCCACCACCGTTGAAGGTCACACCGACTCCGTCGGCACCGACGCTTAC 
AACCAGAAGCTGTCCGAGCGTCGTGCCAACGCCGTTCGTGACGTACTGGTCAACGAGTACGGTGTAGAAGGT 
GGTCGCGTGAACGCTGTTGGTTACGGCGAGTCCCGCCCGGTTGCCGACAACGCCACCGCTGAAGGCCGCGCT 
ATCAACCGTCGCGTTGAAGCCGAAGTAGAAGCTGAAGCCAAGTAA