ViewGene
Locus Name:
GeneID:
Location:

GeneID:6096
TrivialName: PA14_30930
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_30930
PAO1 Ortholog Locus:
Sequence Length:393
Protein Length:130
Start: 2686960
Stop: 2686568
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: emb|CAD61152.1| (AJ536756) putative mating pair formation transmembrane protein [Ralstonia oxalatica]
Identities = 124/127 (97%), Positives = 125/127 (98%)
Sequence:
ATGACGCAGATGATCGTTCCTGCTTTCCGCTTTTCTGCAAATCCGGCTTTGCGCCTTCCCGCGCGGTCGCGG
CTGCACCGCCTGGCCCGCCCTGCGGCACAAGGGCTGCTGCTGGCCGCGCTGCTGCTGTTCCTGGCCGGAACC
GCGCAGGCCGCCGGTTCCTCGATGCCATGGGAAGGCCCGCTGCAATCCATCCTCGAATCCATCCAGGGGCCG
GTGGCGCGCATTGTGGCCGTCATCATCATCATCGCCACGGGCTTGGCGCTGGCCTTCGGCGACACGTCGGGG
GGCTTTCGCAAGCTGATCCAGATCGTGTTCGGCTTGAGCATCGCTTTCGCCGCGTCCTCGTTCTTCCTGTCG
TTCTTTTCGTTCTCTGGCGGGGCTGTCGTATGA
Translation:
MTQMIVPAFRFSANPALRLPARSRLHRLARPAAQGLLLAALLLFLAGTAQAAGSSMPWEGPLQSILESIQGP
VARIVAVIIIIATGLALAFGDTSGGFRKLIQIVFGLSIAFAASSFFLSFFSFSGGAVV*
AnnotationID:6097GeneID:6096
AnnotatorUID: danlee
Modification Date/Time: 2005-09-30 12:12:23
Gene Name:
Confidence Code:3
GeneProduct:TrbC-like protein
Cell Localization:()
Synonyms:trbC
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:pfam04956, COG3838
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
gi|27817725|emb|CAD61152.1|  putative mating pair formation transmembrane protein [Cupriavidus 
oxalaticus]
     Length=127
     Score =  236 bits (601),  Expect = 2e-61
     Identities = 124/127 (97%), Positives = 125/127 (98%), Gaps = 0/127 (0%)

gi|68527810|gb|EAN50776.1|  Conjugal transfer protein TrbC [Ralstonia metallidurans CH34]
     Length=127
     Score =  223 bits (569),  Expect = 1e-57
     Identities = 121/130 (93%), Positives = 123/130 (94%), Gaps = 3/130 (2%)

gi|17547302|ref|NP_520704.1|  PROBABLE CONJUGAL TRANSFER TRBC TRANSMEMBRANE PROTEIN
[Ralstonia solanacearum GMI1000]
     Length=130
     Score =  217 bits (553),  Expect = 7e-56
     Identities = 116/130 (89%), Positives = 120/130 (92%), Gaps = 0/130 (0%)

gi|68526021|gb|EAN48995.1|  Conjugal transfer protein TrbC [Ralstonia metallidurans CH34]
     Length=127
     Score =  217 bits (552),  Expect = 1e-55
     Identities = 118/130 (90%), Positives = 120/130 (92%), Gaps = 3/130 (2%)

gi|72607435|gb|EAO43395.1|  Conjugal transfer protein TrbC [Burkholderia ambifaria AMMD]
     Length=127
     Score =  198 bits (504),  Expect = 4e-50
     Identities = 108/130 (83%), Positives = 114/130 (87%), Gaps = 3/130 (2%)






 
Structural Features:
pfam04956, TrbC, Conjugal transfer protein TrbC. Conjugal transfer protein, TrbC has been 
identified as a subunit of the pilus precursor in bacteria.
             CD-Length = 80 residues, only  66.2% aligned
             Score = 43.7 bits (103), Expect = 7e-06

COG3838, VirB2, Type IV secretory pathway, VirB2 components (pilins) [Intracellular trafficking 
and secretion].
             CD-Length = 108 residues, only  46.3% aligned
             Score = 37.9 bits (88), Expect = 4e-04






   
Genomic Context:






   
Comment:


















    ReferenceID:12070




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:29312




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:6096
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
198437
                           emb|CAD61152.1|
                           (AJ536756) putative mating pair formation transmembrane protein [Ralstonia oxalatica]
                           130
                           95.38
                           96.15
                           3
                           601.0
     

     
     
198438
                           emb|CAD16290.1|
                           (AL646070) PROBABLE CONJUGAL TRANSFER TRBC TRANSMEMBRANE PROTEIN [Ralstonia solanacearum]
                           130
                           89.23
                           92.30
                           0
                           553.0
     

     
     
198444
                           dbj|BAC53552.1|
                           (AP005965) trbC [Bradyrhizobium japonicum USDA 110]
                           130
                           59.23
                           70.00
                           17
                           344.0
     

     
     
198439
                           emb|CAD31434.1|
                           (AL672112) PROBABLE TRBC CONJUGAL TRANSFER PROTEIN [Mesorhizobium loti]
                           130
                           58.46
                           63.07
                           28
                           362.0
     

     
     
198440
                           dbj|BAB52703.1|
                           (AP003009) conjugal transfer protein; TrbC [Mesorhizobium loti]
                           130
                           58.46
                           63.07
                           28
                           362.0
     

     






      

          
GC ORFID: 49098How Found: Glimmer

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: Glimmer Score: 

          
Start: 2266966Stop: 2267358

          
Length: 393


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: Homolog Bit Score 

          
Other Homologs:  

          
GC ORF Sequence

           
ATGACGCAGATGATCGTTCCTGCTTTCCGCTTTTCTGCAAATCCGGCTTTGCGCCTTCCCGCGCGGTCGCGG 
CTGCACCGCCTGGCCCGCCCTGCGGCACAAGGGCTGCTGCTGGCCGCGCTGCTGCTGTTCCTGGCCGGAACC 
GCGCAGGCCGCCGGTTCCTCGATGCCATGGGAAGGCCCGCTGCAATCCATCCTCGAATCCATCCAGGGGCCG 
GTGGCGCGCATTGTGGCCGTCATCATCATCATCGCCACGGGCTTGGCGCTGGCCTTCGGCGACACGTCGGGG 
GGCTTTCGCAAGCTGATCCAGATCGTGTTCGGCTTGAGCATCGCTTTCGCCGCGTCCTCGTTCTTCCTGTCG 
TTCTTTTCGTTCTCTGGCGGGGCTGTCGTATGA