ViewGene
Locus Name:
GeneID:
Location:

GeneID:6068
TrivialName: PA14_31260
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_31260
PAO1 Ortholog Locus:
Sequence Length:507
Protein Length:168
Start: 2718521
Stop: 2718015
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: emb|CAD16327.1| (AL646071) CONSERVED HYPOTHETICAL PROTEIN [Ralstonia solanacearum]
Identities = 131/169 (77%), Positives = 149/169 (88%), Gaps = 1/169 (0%)
Sequence:
ATGTCGCAACTCTCCCTCTCTCTCGATACCCCGTTGATGGTGCGCGATGGCCGTGGGCGCTATCGGCCGGCG
GATGCCGACCAGATTCTGGAAGCTGCGCGCCAGGTCATCGACCAGAAGATGCAGCGCGGTGCATCGTTCAGT
TCGCCAGCGGCGGTCAAGGACTACCTGCGCGCCAAGCTGGCTGGCTTCGAGCACGAAGTCTTTGCCGTCCTG
TTTCTCGATACGCGCCATCGGCTGATCGACTACGTGGAGATGTTTCACGGCACGATCGACGCCGCCGAGGTG
CATCCGCGCGAGGTGGTGAAGCAGGCGCTGCGGCTCAATGCGGCGGCGGTCATCGTTTCGCACAACCATCCG
AGTGGGAACCCCGAGCCGAGCGCGGCCGACAGAGCGATGACCGCGCAGCTTCGGCAGGCGCTGGCGCTGGTG
GACGTTCGCACGCTGGATCACATCATCGTTGCGGGGACTCGCACCACGTCATTCGCCGAGTGCGGCCTGATT
TGA
Translation:
MSQLSLSLDTPLMVRDGRGRYRPADADQILEAARQVIDQKMQRGASFSSPAAVKDYLRAKLAGFEHEVFAVL
FLDTRHRLIDYVEMFHGTIDAAEVHPREVVKQALRLNAAAVIVSHNHPSGNPEPSAADRAMTAQLRQALALV
DVRTLDHIIVAGTRTTSFAECGLI*
AnnotationID:6069GeneID:6068
AnnotatorUID: danlee
Modification Date/Time: 2005-09-30 17:05:50
Gene Name:
Confidence Code:3
GeneProduct:RadC-like protein
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(11) DNA replication, recombination, modification and repair
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG2003, pfam04002
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
gi|67088845|gb|EAM08311.1|  DNA repair protein RadC [Azotobacter vinelandii AvOP]
     Length=168
     Score =  296 bits (758),  Expect = 2e-79
     Identities = 149/168 (88%), Positives = 158/168 (94%), Gaps = 0/168 (0%)

gi|17547339|ref|NP_520741.1|  hypothetical protein RSc2620 [Ralstonia solanacearum GMI1000]
     Length=169
     Score =  256 bits (654),  Expect = 2e-67
     Identities = 131/169 (77%), Positives = 149/169 (88%), Gaps = 1/169 (0%)

gi|21242914|ref|NP_642496.1|  RadC family protein [Xanthomonas axonopodis pv. citri str. 306]
     Length=169
     Score =  249 bits (636),  Expect = 2e-65
     Identities = 129/169 (76%), Positives = 144/169 (85%), Gaps = 1/169 (0%)








 
Structural Features:
COG2003, RadC, DNA repair proteins [DNA replication, recombination, and repair].
             CD-Length = 224 residues, only  70.1% aligned
             Score =  180 bits (459), Expect = 6e-47

pfam04002, RadC, RadC, DNA repair protein. RadC plays a role in repair of DNA damage after 
UV and X-ray irradiation in prokaryotes. The E. coli radC gene encodes a RecG-like DNA 
recombination/repair function. RadC may function specifically in recombinational 
repair that is associated with the replication fork..
             CD-Length = 125 residues, 100.0% aligned
             Score =  171 bits (434), Expect = 5e-44






   
Genomic Context:






   
Comment:


















    ReferenceID:12019




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:29257




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:









           
Homologs By Global Alignment 

           

       



     
Gene ID:6068
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
198185
                           emb|CAD16327.1|
                           (AL646071) CONSERVED HYPOTHETICAL PROTEIN [Ralstonia solanacearum]
                           169
                           77.51
                           88.16
                           1
                           656.0
     

     
     
198186
                           gb|AAM37032.1|
                           (AE011854) RadC family protein [Xanthomonas axonopodis pv. citri str. 306]
                           169
                           76.33
                           85.20
                           1
                           638.0
     

     
     
198189
                           dbj|BAC93573.1|
                           (AP005333) DNA repair protein [Vibrio vulnificus YJ016]
                           169
                           50.29
                           68.63
                           5
                           394.0
     

     
     
198187
                           gb|AAF94935.1|
                           (AE004256) DNA repair protein RadC, putative [Vibrio cholerae O1 biovar eltor str. N16961]
                           171
                           49.70
                           69.00
                           16
                           437.0
     

     
     
198188
                           dbj|BAC95015.1|
                           (AP005339) DNA repair protein [Vibrio vulnificus YJ016]
                           185
                           47.56
                           64.32
                           18
                           431.0
     

     






      

          
GC ORFID: 49070How Found: Glimmer

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: Glimmer Score: 

          
Start: 2235405Stop: 2235911

          
Length: 507


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA5319 translation of PA5319Homolog Bit Score 154.0

          
Other Homologs:  t_PA5319 translation of PA5319 (BLASTP 154), 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] - Pseudomonas aeruginosa (strain PAO1) gb|AAG0870-TRUNCATED- (BLASTP 130)

          
GC ORF Sequence

           
ATGTCGCAACTCTCCCTCTCTCTCGATACCCCGTTGATGGTGCGCGATGGCCGTGGGCGCTATCGGCCGGCG 
GATGCCGACCAGATTCTGGAAGCTGCGCGCCAGGTCATCGACCAGAAGATGCAGCGCGGTGCATCGTTCAGT 
TCGCCAGCGGCGGTCAAGGACTACCTGCGCGCCAAGCTGGCTGGCTTCGAGCACGAAGTCTTTGCCGTCCTG 
TTTCTCGATACGCGCCATCGGCTGATCGACTACGTGGAGATGTTTCACGGCACGATCGACGCCGCCGAGGTG 
CATCCGCGCGAGGTGGTGAAGCAGGCGCTGCGGCTCAATGCGGCGGCGGTCATCGTTTCGCACAACCATCCG 
AGTGGGAACCCCGAGCCGAGCGCGGCCGACAGAGCGATGACCGCGCAGCTTCGGCAGGCGCTGGCGCTGGTG 
GACGTTCGCACGCTGGATCACATCATCGTTGCGGGGACTCGCACCACGTCATTCGCCGAGTGCGGCCTGATT 
TGA