ViewGene
Locus Name:
GeneID:
Location:

GeneID:1280
TrivialName: PA14_64720
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_64720
PAO1 Ortholog Locus:PA4898
Sequence Length:1254
Protein Length:417
Start: 5767119
Stop: 5765866
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG08283.1|AE004903_1 (AE004903) probable porin [Pseudomonas aeruginosa PAO1]
Identities = 411/417 (98%), Positives = 417/417 (100%)
Sequence:
ATGAAAATCCGTCGTAAAACCGCAATCCCGCGCAATGCAGGGGCGGTCCTGCCGATGCTCGCCTGTCTTGCC
GCGCAAGCTGCCGAGGGCGGCTTCCTGCAGGATGCGAAGACTGACCTGGTCCTGCGCAACTATTACTTCAAC
CGCGATTTCCGCGACCACGATGCCGGCAAGAGCCTGGTGGACGAGTGGGCGCAGGGCTTCATCCTCAAGTTC
AGTTCCGGCTATACCCCGGGCACGGTCGGCGTCGGCCTCGACGCCATCGGCCTGTTCGGCGTGAAGCTGAAC
AGCGGACGTGGCACCAGCAATTCCGAGCTTCTTCCGTTGCACGATGATGGTCGCGCGGCGGACGACTATGGG
CGTGTCGGCGTGGCCGCCAAGCTGCGCGTTTCGGCCAGCGAATTGAAGATCGGCGAGATGCTCCCGGACATT
CCGCTGTTGCGCTACGACGACGGACGCCTGCTGCCGCAGACGTTCCGCGGCTTCGCCGTGGTTTCCCGCGAG
CTGCCGGGCCTGGCCCTGCAGGCCGGACGCTTCGACGCGGTGAGCCTGCGCAATTCGGCGGACATGCAGGAC
CTGTCGGCCTGGAGCGCGCCGACGCAGGAGTCGGACGGTTTCAACTACGCCGGCGCCGAATACCGCTTCAAC
CGCGAGCGCACCCAACTGGGCCTGTGGCACGGGCAACTGGAGGACATCTACCGGCAGAACTACGCCAACCTG
CTGCACAAGCAGCGTGTCGGCGACTGGACCCTGGGCGCCAACCTCGGCCTGTTCGTCGACCGCGACGACGGC
GCCGCGCGCGCCGGCGAGATCGACAGCCATACCGTCTACGGCCTATTTTCTGCCGGCATCGGCCTGCACACC
TTCTACCTTGGCCTGCAGAAGGTCGGCGGCGACAGCGGCTGGCAGTCGGTCTACGGCAGCAGTGGGCGGAGC
ATGGGCAACGACATGTTCAACGGCAACTTCACCAACGCCGACGAACGCTCCTGGCAGGTTCGCTACGACTAC
GATTTCGTCGGCCTCGGCTGGCCCGGCCTGATCGGTATGGTCCGCTACGGCCATGGCTCGAACGCCACCACC
AAGGCCGGTAGCGGCGGTAAGGAATGGGAGCGCGATGTCGAGCTCGGCTACACCGTGCAGAGCGGTCCGCTG
GCGCGGCTCAACGTGCGCCTCAACCACGCCAGCAACCGACGCAGCTTCAACAGCGACTTCGACCAGACGCGG
CTGGTGGTGAGTTACCCGTTGTCGTGGTGA
Translation:
MKIRRKTAIPRNAGAVLPMLACLAAQAAEGGFLQDAKTDLVLRNYYFNRDFRDHDAGKSLVDEWAQGFILKF
SSGYTPGTVGVGLDAIGLFGVKLNSGRGTSNSELLPLHDDGRAADDYGRVGVAAKLRVSASELKIGEMLPDI
PLLRYDDGRLLPQTFRGFAVVSRELPGLALQAGRFDAVSLRNSADMQDLSAWSAPTQESDGFNYAGAEYRFN
RERTQLGLWHGQLEDIYRQNYANLLHKQRVGDWTLGANLGLFVDRDDGAARAGEIDSHTVYGLFSAGIGLHT
FYLGLQKVGGDSGWQSVYGSSGRSMGNDMFNGNFTNADERSWQVRYDYDFVGLGWPGLIGMVRYGHGSNATT
KAGSGGKEWERDVELGYTVQSGPLARLNVRLNHASNRRSFNSDFDQTRLVVSYPLSW*
AnnotationID:1289GeneID:1280
AnnotatorUID: diggins
Modification Date/Time: 2005-03-11 13:01:05
Gene Name:
Confidence Code:3
GeneProduct:putative outer membrane porin
Cell Localization:()
Synonyms:opdK
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(15) Membrane proteins
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:pfam03573
Secondary Functional Category(ies):transport of small molecules
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN67006.1|AE016329_1 (AE016779) BenF-like porin [Pseudomonas putida KT2440]
          Length = 418

 Score =  429 bits (1104), Expect = e-119
 Identities = 216/405 (53%), Positives = 281/405 (69%), Gaps = 6/405 (1%)

>gb|AAO55855.1| (AE016864) outer membrane porin, OprD family [Pseudomonas syringae
           pv. tomato str. DC3000]
          Length = 418

 Score =  416 bits (1069), Expect = e-115
 Identities = 206/405 (50%), Positives = 277/405 (68%), Gaps = 3/405 (0%)






 
Structural Features:
pfam03573, OprD, outer membrane porin, OprD family. 
CD-Length = 449 residues,  99.1% aligned
Score =  244 bits (623), Expect = 2e-65
Identities = 146/449 (32%), Positives = 215/449 (47%), Gaps = 60/449 (13%)






   
Genomic Context:






   
Comment:
other possible gene name: opdF


















    ReferenceID:2563




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:19706




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:35126




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:1280_cdd.html


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:1280
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
2327
                           PA4898_tr
                           translation of PA4898
                           417
                           98.56
                           99.99
                           0
                           2181.0
     

     
     
75121
                           gb|AAG08283.1|AE004903_1
                           (AE004903) probable porin [Pseudomonas aeruginosa PAO1]
                           417
                           98.56
                           99.99
                           0
                           2181.0
     

     
     
2328
                           PA0240_tr
                           translation of PA0240
                           430
                           53.02
                           66.97
                           22
                           1136.0
     

     
     
75122
                           gb|AAG03629.1|AE004462_2
                           (AE004462) probable porin [Pseudomonas aeruginosa PAO1]
                           430
                           53.02
                           66.97
                           22
                           1136.0
     

     
     
75124
                           gb|AAD39555.1|
                           (AF031417) PhaK-like protein [Pseudomonas putida]
                           424
                           51.17
                           67.45
                           13
                           1108.0
     

     






      

          
GC ORFID: 44282How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA4898Glimmer Score: 

          
Start: 5030800Stop: 5029547

          
Length: 1254


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA4898 translation of PA4898Homolog Bit Score 844.0

          
Other Homologs:  t_PA0240 (ORF: BLASTX 440.0), psyr_15may02_Scaffold1_revised_gene342 (ORF: BLASTX 416.0), t_PA2213 (ORF: BLASTX 409.0), psyr_15may02_Scaffold3_revised_gene5124 (ORF: BLASTX 406.0), t_PA0755 (ORF: BLASTX 323.0), t_PA3038 (ORF: BLASTX 317.0), t_PA3588 (ORF: BLASTX 306.0), t_PA1025 (ORF: BLASTX 305.0), t_PA2113 (ORF: BLASTX 297.0), t_PA4137 (ORF: BLASTX 295.0), t_PA4179 (ORF: BLASTX 278.0), t_PA4898 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGAAAATCCGTCGTAAAACCGCAATCCCGCGCAATGCAGGGGCGGTCCTGCCGATGCTCGCCTGTCTTGCC 
GCGCAAGCTGCCGAGGGCGGCTTCCTGCAGGATGCGAAGACTGACCTGGTCCTGCGCAACTATTACTTCAAC 
CGCGATTTCCGCGACCACGATGCCGGCAAGAGCCTGGTGGACGAGTGGGCGCAGGGCTTCATCCTCAAGTTC 
AGTTCCGGCTATACCCCGGGCACGGTCGGCGTCGGCCTCGACGCCATCGGCCTGTTCGGCGTGAAGCTGAAC 
AGCGGACGTGGCACCAGCAATTCCGAGCTTCTTCCGTTGCACGATGATGGTCGCGCGGCGGACGACTATGGG 
CGTGTCGGCGTGGCCGCCAAGCTGCGCGTTTCGGCCAGCGAATTGAAGATCGGCGAGATGCTCCCGGACATT 
CCGCTGTTGCGCTACGACGACGGACGCCTGCTGCCGCAGACGTTCCGCGGCTTCGCCGTGGTTTCCCGCGAG 
CTGCCGGGCCTGGCCCTGCAGGCCGGACGCTTCGACGCGGTGAGCCTGCGCAATTCGGCGGACATGCAGGAC 
CTGTCGGCCTGGAGCGCGCCGACGCAGGAGTCGGACGGTTTCAACTACGCCGGCGCCGAATACCGCTTCAAC 
CGCGAGCGCACCCAACTGGGCCTGTGGCACGGGCAACTGGAGGACATCTACCGGCAGAACTACGCCAACCTG 
CTGCACAAGCAGCGTGTCGGCGACTGGACCCTGGGCGCCAACCTCGGCCTGTTCGTCGACCGCGACGACGGC 
GCCGCGCGCGCCGGCGAGATCGACAGCCATACCGTCTACGGCCTATTTTCTGCCGGCATCGGCCTGCACACC 
TTCTACCTTGGCCTGCAGAAGGTCGGCGGCGACAGCGGCTGGCAGTCGGTCTACGGCAGCAGTGGGCGGAGC 
ATGGGCAACGACATGTTCAACGGCAACTTCACCAACGCCGACGAACGCTCCTGGCAGGTTCGCTACGACTAC 
GATTTCGTCGGCCTCGGCTGGCCCGGCCTGATCGGTATGGTCCGCTACGGCCATGGCTCGAACGCCACCACC 
AAGGCCGGTAGCGGCGGTAAGGAATGGGAGCGCGATGTCGAGCTCGGCTACACCGTGCAGAGCGGTCCGCTG 
GCGCGGCTCAACGTGCGCCTCAACCACGCCAGCAACCGACGCAGCTTCAACAGCGACTTCGACCAGACGCGG 
CTGGTGGTGAGTTACCCGTTGTCGTGGTGA