ViewGene
Locus Name:
GeneID:
Location:

GeneID:196
TrivialName: PA14_44660
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_44660
PAO1 Ortholog Locus:PA1529
Sequence Length:2385
Protein Length:794
Start: 3978654
Stop: 3976270
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG04918.1|AE004581_5 (AE004581) DNA ligase [Pseudomonas aeruginosa PAO1]
Identities = 792/794 (99%), Positives = 792/794 (99%)
Sequence:
ATGACCGACACCCAGGCTGCCGCCGAACGCATCGCGCAACTGCGAACCGAACTGGACACCCACAACTACCGT
TACTACGTGCTCGACGAACCGAGCATTCCCGACGCCGAATACGATCGCCTGTTCCGCGAGTTGCAGGCGCTG
GAGACCGAGTACCCGCAACTGCTGACGCCCGACTCGCCGACCCAGCGGGTCAGCGGCACGCCGGCCTCGGCG
TTCGGCGAAGTGCGCCATGAGATCCCCATGCTCAGCCTCGGCAACGCTTTCGAGGAGCAGGACCTGCTGGAC
TTCGACCGCCGCGTACGCGAAGGACTGGCCGACCTGTTGCCTGGCGGCGACCTGCTCGGCGGTGGCGCGGAG
GTCGAGTACAGTTGCGAGCCGAAGCTGGACGGCCTGGCCGTCAGCCTGCTCTACGAACGCGGCCAGTTGGTG
CGCGGCGCCACCCGCGGCGATGGCAGCACCGGCGAGGACATCACCAGCAACGTACGCACCATTCGCAACGTA
CCGCTGAAGCTGCACGGCGAAGGCTGGCCGGAGATCCTCGAAGTGCGCGGCGAGGTGTTCATGTCCAAGGCC
GGTTTCGAGGCGCTCAACGCCAAGGCCGTGGAAACCGGCGGCAAGACCTTCGCCAACCCGCGCAACGCGGCG
GCCGGCAGCCTGCGCCAGCTGGATTCGAAGATCACCGCCAGTCGCCCGCTGGAGTTCTGTGCCTACGGCTTC
GGCCAGGTCAGCGGGACGCTGCCGGACACCCAGGTGGGCATCCTCGAGGCGTTCCGCGGCTGGGGTATCCCC
ATCAGTCGCGAGCTGCGCCTGGTCAAGGGCGCCCAGGCCTGCCGCGACTACTACGACGACATCGGTCGCCGA
CGCGATGCGCTGGCCTACGAGATCGACGGCGTGGTGTTCAAGGTCAACCGCATCGCCTTCCAGCGCGAACTG
GGCTTCCGCGCGCGCGAGCCGCGTTGGGCGATCGCCCACAAGTTCCCCGCGCGCGAGGAGCTGACCGAGCTG
CTGGGTGTCGAGTTCCAGGTCGGCCGCACCGGCGCCGTGACCCCGGTGGCACGCCTCAAGCCGGTGCAGGTG
GCCGGCGTCACGGTGTCCAATGCGACCCTGCACAACATGGATGAAGTCGCCCGCCTGGGCCTGCGCATCGGC
GATACGGTGGTGATCCGCCGTGCTGGCGATGTGATTCCGCAGGTCATGCAGGTGGTGCTCGAGCGCCGCCCG
GCGGATGCGCAGGCTATCGAGGTGCCCGAGCATTGCCCGGTCTGCGGCTCGGCCGTGGAGCGGACCCAGTTG
GTCAAGCGCAGCAAGGGCAAGGAGTCGATCAGCGAGGGCGCCATCTATCGCTGCGTCGGCCGCCTCTCCTGT
CAGGCGCAGTTGAAGCAGGCGATCATCCATTTCGTATCGCGCCGGGCAATGGACATCGACGGTCTTGGCGAC
AAGATCGTCGAGCAACTGGTGGATCGCGGGCTGGTCGCCTCGCCGGCGGATCTCTATACCCTGACCTATGAA
CAGGTGTTCGAGCTGGAAGGGTTCGCCGAGCTGTCCACCAACAACCTGCTGGCGGCCATCGCCGATAGCCGC
AAGCCTTCGCTGGCGCGCTTCATCTTCGCCCTGGGGATTCCCGACGTCGGCGAGGAAACCGCCAAGCTGCTG
GCGCGTTCGCTGGGTTCGCTCGAGCGGATCGGCAAGGCGCTCCCGGAAGTGTTGACCTACCTGCCGGACGTC
GGCGCCGAGGTAGCCTACGAGATCCACAACTTCTTCGCCGACGAGCACAACCGCCAGGTGATCGCCCAGTTG
CGCGATGCCGAACATGGCGTGCAGTTGCAGGAAGAGGGCGAGGTCGCCGCGGAGTTCGCCGCTTGTGCCTCG
CTGGCCGGTTTCATCGACAAGCTGAACATTCCCTTCATCGCCGCCACCGGCGCGGAAAAGCTGGCCAGCCGC
TTCGGTTCGCTCGACGGCATCATCCGCGCCGACTGGCTCGATCTACGCCAGGTGGAGCGTCTGCCCGAGCGA
GCGGCGAAAAGCCTGCGCGATTTCTTCGACGAGCCGGCCAACGTGCAGCGTGCCCTGGCCATCGAGGCGCAG
TTGCGTGAGTTCGGCATGCATTGGCAGAGCGAGCGCAAGGCGGTCGAAGGCCTGCCTCTGGCCGGGCAGACC
TGGGTGCTGACCGGCACCTTGGAGGCGATGAGCCGGGACGTGGCCAAGGACAAGCTGGAAGGGCTCGGCGCC
AAGGTGGCCGGCTCGGTGTCGGCCAAGACCCACTGCGTGGTCGCCGGGCCCGGCGCCGGCTCGAAGCTGGCC
AAGGCCAACGAGCTGGGCGTGAAGGTGCTCGACGAAGACGGCCTGCTGAAACTGTTCGACGAGCACGGCGTC
GCCCGCTGA
Translation:
MTDTQAAAERIAQLRTELDTHNYRYYVLDEPSIPDAEYDRLFRELQALETEYPQLLTPDSPTQRVSGTPASA
FGEVRHEIPMLSLGNAFEEQDLLDFDRRVREGLADLLPGGDLLGGGAEVEYSCEPKLDGLAVSLLYERGQLV
RGATRGDGSTGEDITSNVRTIRNVPLKLHGEGWPEILEVRGEVFMSKAGFEALNAKAVETGGKTFANPRNAA
AGSLRQLDSKITASRPLEFCAYGFGQVSGTLPDTQVGILEAFRGWGIPISRELRLVKGAQACRDYYDDIGRR
RDALAYEIDGVVFKVNRIAFQRELGFRAREPRWAIAHKFPAREELTELLGVEFQVGRTGAVTPVARLKPVQV
AGVTVSNATLHNMDEVARLGLRIGDTVVIRRAGDVIPQVMQVVLERRPADAQAIEVPEHCPVCGSAVERTQL
VKRSKGKESISEGAIYRCVGRLSCQAQLKQAIIHFVSRRAMDIDGLGDKIVEQLVDRGLVASPADLYTLTYE
QVFELEGFAELSTNNLLAAIADSRKPSLARFIFALGIPDVGEETAKLLARSLGSLERIGKALPEVLTYLPDV
GAEVAYEIHNFFADEHNRQVIAQLRDAEHGVQLQEEGEVAAEFAACASLAGFIDKLNIPFIAATGAEKLASR
FGSLDGIIRADWLDLRQVERLPERAAKSLRDFFDEPANVQRALAIEAQLREFGMHWQSERKAVEGLPLAGQT
WVLTGTLEAMSRDVAKDKLEGLGAKVAGSVSAKTHCVVAGPGAGSKLAKANELGVKVLDEDGLLKLFDEHGV
AR*
AnnotationID:206GeneID:196
AnnotatorUID: diggins
Modification Date/Time: 2005-04-27 20:08:33
Gene Name:lig
Confidence Code:2
GeneProduct:DNA ligase
Cell Localization:()
Synonyms:ligA, dnaL
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(11) DNA replication, recombination, modification and repair
Alternate Gene Product Name:DNA ligase, NAD-dependent
Functional Category Confidence Code:5
COGs:COG0272,smart00532,cd00114
Secondary Functional Category(ies):
EC Number:6.5.1.2
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO57125.1| (AE016869) DNA ligase, NAD-dependent [Pseudomonas syringae pv.
           tomato str. DC3000]
          Length = 787

 Score = 1170 bits (3027), Expect = 0.0
 Identities = 588/789 (74%), Positives = 671/789 (85%), Gaps = 5/789 (0%)

>gb|AAN69854.1|AE016624_5 (AE016790) DNA ligase, NAD-dependent [Pseudomonas putida KT2440]
          Length = 776

 Score = 1134 bits (2934), Expect = 0.0
 Identities = 580/787 (73%), Positives = 655/787 (83%), Gaps = 14/787 (1%)








 
Structural Features:
COG0272, Lig, NAD-dependent DNA ligase (contains BRCT domain type II) 
[DNA replication, recombination, and repair]
CD-Length = 667 residues,  89.4% aligned
Score =  827 bits (2137), Expect = 0.0
Identities = 346/624 (55%), Positives = 433/624 (69%), Gaps = 29/624 (4%)

smart00532, LIGANc, Ligase N family
CD-Length = 440 residues,  99.8% aligned
Score =  595 bits (1535), Expect = 7e-171
Identities = 253/466 (54%), Positives = 311/466 (66%), Gaps = 27/466 (5%)

cd00114, LIGANc, NAD+ dependent DNA ligase adenylation domain.
CD-Length = 307 residues, 100.0% aligned
Score =  458 bits (1180), Expect = 1e-129
Identities = 195/321 (60%), Positives = 232/321 (72%), Gaps = 14/321 (4%)







   
Genomic Context:






   
Comment:


















    ReferenceID:395




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:17537




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:36500




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:196_cdd.html


    		




 
URL:

















    ReferenceID:36566




  
Author/Investigator(s):
        Ishino Y, Shinagawa H, Makino K, Tsunasawa S, Sakiyama F, Nakata A.





  
Title:
        Nucleotide sequence of the lig gene and primary structure of DNA ligase of Escherichia coli.




  
PubMed:
        3018436


MedLine:
        




    
Source:
Mol Gen Genet. 1986 Jul;204(1):1-7.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=3018436

















    ReferenceID:36567




  
Author/Investigator(s):
        Shark KB, Conway T.





  
Title:
        Cloning and molecular characterization of the DNA ligase gene (lig) from Zymomonas mobilis.




  
PubMed:
        1526462


MedLine:
        




    
Source:
FEMS Microbiol Lett. 1992 Sep 1;75(1):19-26.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=1526462









           
Homologs By Global Alignment 

           

       



     
Gene ID:196
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
337
                           PA1529_tr
                           translation of PA1529
                           794
                           99.74
                           99.74
                           0
                           4019.0
     

     
     
21319
                           gb|AAG04918.1|AE004581_5
                           (AE004581) DNA ligase [Pseudomonas aeruginosa PAO1]
                           794
                           99.74
                           99.74
                           0
                           4019.0
     

     
     
21320
                           gb|AAO57125.1|
                           (AE016869) DNA ligase, NAD-dependent [Pseudomonas syringae pv. tomato str. DC3000]
                           795
                           73.96
                           84.40
                           9
                           3030.0
     

     
     
21321
                           gb|AAN69854.1|AE016624_5
                           (AE016790) DNA ligase, NAD-dependent [Pseudomonas putida KT2440]
                           794
                           73.04
                           82.49
                           18
                           2944.0
     

     
     
21334
                           gb|AAD49562.1|AF126866_1
                           (AF126866) NAD-dependent DNA ligase [Pseudoalteromonas haloplanktis]
                           796
                           48.86
                           61.18
                           126
                           1817.0
     

     






      

          
GC ORFID: 43198How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA1529Glimmer Score: 

          
Start: 975255Stop: 977639

          
Length: 2385


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA1529 translation of PA1529Homolog Bit Score 1552.0

          
Other Homologs:  psyr_15may02_Scaffold1_revised_gene830 (ORF: BLASTX 1172.0), t_PA1529 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGACCGACACCCAGGCTGCCGCCGAACGCATCGCGCAACTGCGAACCGAACTGGACACCCACAACTACCGT 
TACTACGTGCTCGACGAACCGAGCATTCCCGACGCCGAATACGATCGCCTGTTCCGCGAGTTGCAGGCGCTG 
GAGACCGAGTACCCGCAACTGCTGACGCCCGACTCGCCGACCCAGCGGGTCAGCGGCACGCCGGCCTCGGCG 
TTCGGCGAAGTGCGCCATGAGATCCCCATGCTCAGCCTCGGCAACGCTTTCGAGGAGCAGGACCTGCTGGAC 
TTCGACCGCCGCGTACGCGAAGGACTGGCCGACCTGTTGCCTGGCGGCGACCTGCTCGGCGGTGGCGCGGAG 
GTCGAGTACAGTTGCGAGCCGAAGCTGGACGGCCTGGCCGTCAGCCTGCTCTACGAACGCGGCCAGTTGGTG 
CGCGGCGCCACCCGCGGCGATGGCAGCACCGGCGAGGACATCACCAGCAACGTACGCACCATTCGCAACGTA 
CCGCTGAAGCTGCACGGCGAAGGCTGGCCGGAGATCCTCGAAGTGCGCGGCGAGGTGTTCATGTCCAAGGCC 
GGTTTCGAGGCGCTCAACGCCAAGGCCGTGGAAACCGGCGGCAAGACCTTCGCCAACCCGCGCAACGCGGCG 
GCCGGCAGCCTGCGCCAGCTGGATTCGAAGATCACCGCCAGTCGCCCGCTGGAGTTCTGTGCCTACGGCTTC 
GGCCAGGTCAGCGGGACGCTGCCGGACACCCAGGTGGGCATCCTCGAGGCGTTCCGCGGCTGGGGTATCCCC 
ATCAGTCGCGAGCTGCGCCTGGTCAAGGGCGCCCAGGCCTGCCGCGACTACTACGACGACATCGGTCGCCGA 
CGCGATGCGCTGGCCTACGAGATCGACGGCGTGGTGTTCAAGGTCAACCGCATCGCCTTCCAGCGCGAACTG 
GGCTTCCGCGCGCGCGAGCCGCGTTGGGCGATCGCCCACAAGTTCCCCGCGCGCGAGGAGCTGACCGAGCTG 
CTGGGTGTCGAGTTCCAGGTCGGCCGCACCGGCGCCGTGACCCCGGTGGCACGCCTCAAGCCGGTGCAGGTG 
GCCGGCGTCACGGTGTCCAATGCGACCCTGCACAACATGGATGAAGTCGCCCGCCTGGGCCTGCGCATCGGC 
GATACGGTGGTGATCCGCCGTGCTGGCGATGTGATTCCGCAGGTCATGCAGGTGGTGCTCGAGCGCCGCCCG 
GCGGATGCGCAGGCTATCGAGGTGCCCGAGCATTGCCCGGTCTGCGGCTCGGCCGTGGAGCGGACCCAGTTG 
GTCAAGCGCAGCAAGGGCAAGGAGTCGATCAGCGAGGGCGCCATCTATCGCTGCGTCGGCCGCCTCTCCTGT 
CAGGCGCAGTTGAAGCAGGCGATCATCCATTTCGTATCGCGCCGGGCAATGGACATCGACGGTCTTGGCGAC 
AAGATCGTCGAGCAACTGGTGGATCGCGGGCTGGTCGCCTCGCCGGCGGATCTCTATACCCTGACCTATGAA 
CAGGTGTTCGAGCTGGAAGGGTTCGCCGAGCTGTCCACCAACAACCTGCTGGCGGCCATCGCCGATAGCCGC 
AAGCCTTCGCTGGCGCGCTTCATCTTCGCCCTGGGGATTCCCGACGTCGGCGAGGAAACCGCCAAGCTGCTG 
GCGCGTTCGCTGGGTTCGCTCGAGCGGATCGGCAAGGCGCTCCCGGAAGTGTTGACCTACCTGCCGGACGTC 
GGCGCCGAGGTAGCCTACGAGATCCACAACTTCTTCGCCGACGAGCACAACCGCCAGGTGATCGCCCAGTTG 
CGCGATGCCGAACATGGCGTGCAGTTGCAGGAAGAGGGCGAGGTCGCCGCGGAGTTCGCCGCTTGTGCCTCG 
CTGGCCGGTTTCATCGACAAGCTGAACATTCCCTTCATCGCCGCCACCGGCGCGGAAAAGCTGGCCAGCCGC 
TTCGGTTCGCTCGACGGCATCATCCGCGCCGACTGGCTCGATCTACGCCAGGTGGAGCGTCTGCCCGAGCGA 
GCGGCGAAAAGCCTGCGCGATTTCTTCGACGAGCCGGCCAACGTGCAGCGTGCCCTGGCCATCGAGGCGCAG 
TTGCGTGAGTTCGGCATGCATTGGCAGAGCGAGCGCAAGGCGGTCGAAGGCCTGCCTCTGGCCGGGCAGACC 
TGGGTGCTGACCGGCACCTTGGAGGCGATGAGCCGGGACGTGGCCAAGGACAAGCTGGAAGGGCTCGGCGCC 
AAGGTGGCCGGCTCGGTGTCGGCCAAGACCCACTGCGTGGTCGCCGGGCCCGGCGCCGGCTCGAAGCTGGCC 
AAGGCCAACGAGCTGGGCGTGAAGGTGCTCGACGAAGACGGCCTGCTGAAACTGTTCGACGAGCACGGCGTC 
GCCCGCTGA