ViewGene
Locus Name:
GeneID:
Location:

GeneID:5466
TrivialName: PA14_54860
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_54860
PAO1 Ortholog Locus:
Sequence Length:609
Protein Length:202
Start: 4861445
Stop: 4860837
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAN62140.1|AF440523_47 (AF440523) putative DNA repair protein RadC [Pseudomonas aeruginosa]
Identities = 76/153 (49%), Positives = 108/153 (70%), Gaps = 5/153 (3%)
Sequence:
ATGTCTTGGGAGTTTGGCCGGCGGCGAACGTCGCGAGGAGTTGCAGCATCCCCAATCCGATGCGAGACAAAA
GTGTCCCGCCGCCCCACACCGTTCGCGCCTGCATGGGTGATCCTTCCGAGTTCAAGGAGGATTTCCATGACG
GCACCCAGGATGCGAGCCTCGACCAAGGCAGCGACTCGCCGTGATGAAGACCAGTTGGTCCAGCGTGCAATA
GCCGTGCTGGAGCGCCGTATGTTCCGGCGCGGCCAGGAATTACTGAGCCCGCGCGGCCTGCGCCAATACCTT
CGACTGAGGCTGGTGGGGAAAAGCGAGGAGGTGTTTGCCGCCGTGTTTCTCGACGCCCAATGGCGCGCGCTG
TTCCGCGGCACAGTCAATGCGGCGCCAATGTATGCGCGCGTGGTGGTCAAGCGCGCGCTTCGGCACAATGCG
GTCGGCGTCGTCGTCGCGCACAACCATCCATCAGGCTTGGCCACCCCGAGCCAAGCCGATATTGCTGCCACT
CGGCAGTTGAAGGCGGCATTGAACCTTGTCGACATCGAGCTGCTGGATCATTTCGTCATCGGACGCGGTGAG
CCCTTTTCCTTTTTCGACGCCCAGCTACTGTGA
Translation:
MSWEFGRRRTSRGVAASPIRCETKVSRRPTPFAPAWVILPSSRRISMTAPRMRASTKAATRRDEDQLVQRAI
AVLERRMFRRGQELLSPRGLRQYLRLRLVGKSEEVFAAVFLDAQWRALFRGTVNAAPMYARVVVKRALRHNA
VGVVVAHNHPSGLATPSQADIAATRQLKAALNLVDIELLDHFVIGRGEPFSFFDAQLL*
AnnotationID:5471GeneID:5466
AnnotatorUID: danlee
Modification Date/Time: 2005-10-03 15:03:39
Gene Name:
Confidence Code:4
GeneProduct:hypothetical protein
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(14) Hypothetical, unclassified, unknown
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:pfam04002, COG2003
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
gi|68525858|gb|EAN48834.1|  DNA repair protein RadC [Ralstonia metallidurans CH34]
gi|24461569|gb|AAN62140.1|  putative DNA repair protein RadC [Pseudomonas aeruginosa]
     Length=164
     Score =  154 bits (390),  Expect = 1e-36
     Identities = 76/153 (49%), Positives = 108/153 (70%), Gaps = 5/153 (3%)

gi|40019185|emb|CAE92909.1|  putative DNA repair protein [Pseudomonas putida]
     Length=164
     Score =  147 bits (370),  Expect = 3e-34
     Identities = 78/153 (50%), Positives = 101/153 (66%), Gaps = 5/153 (3%)








 
Structural Features:
pfam04002, RadC
     CD-Length  = 125 residues,  95.2% aligned
     Score =  116 bits (292), Expect = 4e-27

COG2003, RadC
     CD-Length = 224 residues, only  63.4% aligned
     Score =  107 bits (268), Expect = 2e-24








   
Genomic Context:






   
Comment:
Actual PA14 radC gene is GeneID 3585, trivial name PA14_70230 (99.55% identical
to PA5319 of PAO1).


















    ReferenceID:10929




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:28075




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:5466
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
196748
                           emb|CAE92909.1|
                           (AJ617740) putative DNA repair protein [Pseudomonas putida]
                           207
                           38.64
                           51.20
                           48
                           364.0
     

     
     
196749
                           gb|AAN62275.1|AF440524_62
                           (AF440524) putative DNA repair protein RadC [Pseudomonas aeruginosa]
                           207
                           37.19
                           53.14
                           46
                           358.0
     

     
     
196772
                           dbj|BAC95015.1|
                           (AP005339) DNA repair protein [Vibrio vulnificus YJ016]
                           208
                           37.01
                           50.96
                           30
                           281.0
     

     
     
196750
                           gb|AAM37134.1|
                           (AE011865) RadC family protein [Xanthomonas axonopodis pv. citri str. 306]
                           210
                           36.19
                           49.52
                           54
                           333.0
     

     
     
196747
                           gb|AAN62140.1|AF440523_47
                           (AF440523) putative DNA repair protein RadC [Pseudomonas aeruginosa]
                           215
                           35.81
                           50.69
                           64
                           383.0
     

     






      

          
GC ORFID: 48468How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: psyr_15may02_Scaffold2_revised_gene3147Glimmer Score: 

          
Start: 92462Stop: 93070

          
Length: 609


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: psyr_15may02_Scaffold2_revised_gene3147 related to: gi|15600512|ref|NP_254006.1| (NC_002516) DNA repair protein RadC [Pseudomonas aeruginosa] sp|Q9HTN5|RADC_PSEAE DNA repair protein radC homolog pir||A82982 DNA repair protein RadC PA5319 [imported] - PseuHomolog Bit Score 117.0

          
Other Homologs:  t_PA5319 (ORF: BLASTX 116.0), psyr_15may02_Scaffold2_revised_gene3147 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGTCTTGGGAGTTTGGCCGGCGGCGAACGTCGCGAGGAGTTGCAGCATCCCCAATCCGATGCGAGACAAAA 
GTGTCCCGCCGCCCCACACCGTTCGCGCCTGCATGGGTGATCCTTCCGAGTTCAAGGAGGATTTCCATGACG 
GCACCCAGGATGCGAGCCTCGACCAAGGCAGCGACTCGCCGTGATGAAGACCAGTTGGTCCAGCGTGCAATA 
GCCGTGCTGGAGCGCCGTATGTTCCGGCGCGGCCAGGAATTACTGAGCCCGCGCGGCCTGCGCCAATACCTT 
CGACTGAGGCTGGTGGGGAAAAGCGAGGAGGTGTTTGCCGCCGTGTTTCTCGACGCCCAATGGCGCGCGCTG 
TTCCGCGGCACAGTCAATGCGGCGCCAATGTATGCGCGCGTGGTGGTCAAGCGCGCGCTTCGGCACAATGCG 
GTCGGCGTCGTCGTCGCGCACAACCATCCATCAGGCTTGGCCACCCCGAGCCAAGCCGATATTGCTGCCACT 
CGGCAGTTGAAGGCGGCATTGAACCTTGTCGACATCGAGCTGCTGGATCATTTCGTCATCGGACGCGGTGAG 
CCCTTTTCCTTTTTCGACGCCCAGCTACTGTGA