ViewGene
Locus Name:
GeneID:
Location:

GeneID:6102
TrivialName: PA14_30870
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_30870
PAO1 Ortholog Locus:
Sequence Length:705
Protein Length:234
Start: 2681399
Stop: 2680695
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: emb|CAD16284.1| (AL646070) PROBABLE CONJUGAL TRANSFER TRBF TRANSMEMBRANE PROTEIN [Ralstonia solanacearum]
Identities = 211/234 (90%), Positives = 221/234 (94%)
Sequence:
ATGCGATTCAAGAAACCGCAGGTGCGCTACGCCGACACGCCGCAGCCTGCCACGCCGTACCAAGCTGCCGGC
CAGGTGTGGGACGACCGTATCGGCTCGCCGCGCGTGCAGGCGAAGAACTGGCGCTTGATGGCGTTCGGGTGC
CTGACGCTCGCGCTGCTGATGGCCGGCGGCCTGGTGTGGCGCTCGGCGCAGTCCATCGTGACGCCCTATGTG
GTGGAGGTGGACAACGCGGGCCAGGTGCGCGCTGTGGGCGAAGCCGCCACGCCGTACCGCCCCAGCGATGCA
CAGACGGCGCACCACATTGCGCGCTTCGTGACGCTGGTGCGCTCGCTGTCCATCGACCCCATCGTCGTCCGC
CAAAACTGGCTGGACGCCTACGACTACACGACCGACAAGGGCGCGGCCGTGCTCAACGACTACGCGCGGGTC
AACGACCCGTTCGCACGCATCGGCAAGGAGTCGGTGACGGTGCAGATCACCAGCGTCGTGCGCGCCAGCGAC
ACGTCTTTCAACGTGCGCTGGACGGAACGGCGCTACGTCAACGGCGCCGCGGCGGGCCTGGAGCGGTGGACG
GCGGTGGTGTCCATCGTGCTCCAGCCACCGCGCACCGAAGAACGCCTGCGCAAGAACCCGCTGGGCATCTAC
GTCAACGGCCTGTCGTGGAGCCGTGAACTGGATTCTTCCGAAGGAGCAAAGCCATGA
Translation:
MRFKKPQVRYADTPQPATPYQAAGQVWDDRIGSPRVQAKNWRLMAFGCLTLALLMAGGLVWRSAQSIVTPYV
VEVDNAGQVRAVGEAATPYRPSDAQTAHHIARFVTLVRSLSIDPIVVRQNWLDAYDYTTDKGAAVLNDYARV
NDPFARIGKESVTVQITSVVRASDTSFNVRWTERRYVNGAAAGLERWTAVVSIVLQPPRTEERLRKNPLGIY
VNGLSWSRELDSSEGAKP*
AnnotationID:6103GeneID:6102
AnnotatorUID: danlee
Modification Date/Time: 2005-09-30 12:12:29
Gene Name:
Confidence Code:3
GeneProduct:TrbF-like protein
Cell Localization:()
Synonyms:trbF
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(22) Related to phage, transposon, or plasmid
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG3701, pfam04585
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
gi|68526027|gb|EAN49001.1|  Conjugal transfer protein [Ralstonia metallidurans CH34]
     Length=234
     Score =  469 bits (1206),  Expect = 4e-131
     Identities = 231/234 (98%), Positives = 233/234 (99%), Gaps = 0/234 (0%)

gi|17547296|ref|NP_520698.1|  PROBABLE CONJUGAL TRANSFER TRBF TRANSMEMBRANE 
PROTEIN [Ralstonia solanacearum GMI1000]
     Length=234
     Score =  433 bits (1113),  Expect = 2e-120
     Identities = 211/234 (90%), Positives = 221/234 (94%), Gaps = 0/234 (0%)

gi|72607229|gb|EAO43193.1|  Conjugal transfer protein [Burkholderia ambifaria AMMD]
     Length=234
     Score =  427 bits (1099),  Expect = 1e-118
     Identities = 207/234 (88%), Positives = 219/234 (93%), Gaps = 0/234 (0%)

gi|27817730|emb|CAD61157.1|  putative mating pair formation protein [Cupriavidus oxalaticus]
     Length=234
     Score =  421 bits (1082),  Expect = 1e-116
     Identities = 206/234 (88%), Positives = 215/234 (91%), Gaps = 0/234 (0%)






 
Structural Features:
COG3701, TrbF, Type IV secretory pathway, TrbF components [Intracellular trafficking and secretion].
             CD-Length = 228 residues, 100.0% aligned
             Score =  327 bits (839), Expect = 8e-91

pfam04585, TrbF, Conjugal transfer protein. Family of proteins known to be involved in conjugal 
transfer. The TrbF protein is thought to compose part of the pilus required for transfer.
             CD-Length = 218 residues,  99.5% aligned
             Score =  241 bits (617), Expect = 5e-65








   
Genomic Context:






   
Comment:


















    ReferenceID:12080




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:29323




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:6102
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
198477
                           emb|CAD16284.1|
                           (AL646070) PROBABLE CONJUGAL TRANSFER TRBF TRANSMEMBRANE PROTEIN [Ralstonia solanacearum]
                           234
                           90.17
                           94.44
                           0
                           1113.0
     

     
     
198478
                           emb|CAD61157.1|
                           (AJ536756) putative mating pair formation protein [Ralstonia oxalatica]
                           234
                           88.03
                           91.88
                           0
                           1082.0
     

     
     
198481
                           dbj|BAC46883.1|
                           (AP005940) trbF [Bradyrhizobium japonicum USDA 110]
                           234
                           58.11
                           74.78
                           7
                           759.0
     

     
     
198482
                           emb|CAE27667.1|
                           (BX572600) putative conjugal transfer protein trbF [Rhodopseudomonas palustris CGA009]
                           235
                           57.87
                           72.76
                           8
                           755.0
     

     
     
198483
                           emb|CAE29558.1|
                           (BX572606) conjugal transfer protein trbF [Rhodopseudomonas palustris CGA009]
                           234
                           56.83
                           74.78
                           7
                           753.0
     

     






      

          
GC ORFID: 49104How Found: Glimmer

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: Glimmer Score: 

          
Start: 2272527Stop: 2273231

          
Length: 705


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: Homolog Bit Score 

          
Other Homologs:  

          
GC ORF Sequence

           
ATGCGATTCAAGAAACCGCAGGTGCGCTACGCCGACACGCCGCAGCCTGCCACGCCGTACCAAGCTGCCGGC 
CAGGTGTGGGACGACCGTATCGGCTCGCCGCGCGTGCAGGCGAAGAACTGGCGCTTGATGGCGTTCGGGTGC 
CTGACGCTCGCGCTGCTGATGGCCGGCGGCCTGGTGTGGCGCTCGGCGCAGTCCATCGTGACGCCCTATGTG 
GTGGAGGTGGACAACGCGGGCCAGGTGCGCGCTGTGGGCGAAGCCGCCACGCCGTACCGCCCCAGCGATGCA 
CAGACGGCGCACCACATTGCGCGCTTCGTGACGCTGGTGCGCTCGCTGTCCATCGACCCCATCGTCGTCCGC 
CAAAACTGGCTGGACGCCTACGACTACACGACCGACAAGGGCGCGGCCGTGCTCAACGACTACGCGCGGGTC 
AACGACCCGTTCGCACGCATCGGCAAGGAGTCGGTGACGGTGCAGATCACCAGCGTCGTGCGCGCCAGCGAC 
ACGTCTTTCAACGTGCGCTGGACGGAACGGCGCTACGTCAACGGCGCCGCGGCGGGCCTGGAGCGGTGGACG 
GCGGTGGTGTCCATCGTGCTCCAGCCACCGCGCACCGAAGAACGCCTGCGCAAGAACCCGCTGGGCATCTAC 
GTCAACGGCCTGTCGTGGAGCCGTGAACTGGATTCTTCCGAAGGAGCAAAGCCATGA