ViewGene
Locus Name:
GeneID:
Location:

GeneID:1033
TrivialName: PA14_71060
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_71060
PAO1 Ortholog Locus:PA5379
Sequence Length:1377
Protein Length:458
Start: 6329795
Stop: 6331171
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG08764.1|AE004950_7 (AE004950) L-serine dehydratase [Pseudomonas aeruginosa PAO1]
Identities = 457/458 (99%), Positives = 457/458 (99%)
Sequence:
ATGGCTATCAGTGTGTTCGACCTTTTCAAGATCGGTATCGGCCCGTCCAGTTCGCATACCGTCGGCCCCATG
CGCGCCGCCGCGCTGTTCACCGCTGCCCTGCGCCAACGCCAGGCGCTGTCGGCGGTGCGGCGTCTCGAAGTG
CGCCTGTACGGCTCGCTGTCCGCCACCGGCGTCGGCCACGGCACCGATCGCGCGGTGATCATGGGCCTGATG
GGCGAATGGCCGGATCGTATCGACCCGACCCAGATCGCCCCGCGCATGGCCGCGCTGCTCGATAGCGGCCTG
CTGCAACTGGACGGCCGCGTGGCGGTACCGTTCGACTGGGTGCGCGACATGCGCCTGCTCGACGAGAACCTG
CCCTACCACCCCAACGCCATGACCCTGGTCGCCTACGGCGAGCAGGACGAACTGCACCAGGAGACCTACTAC
TCGGTCGGCGGCGGCTTCGTGGTCGATGCGGCACAGGCCGCCTCGGGGCAGCTCGACCAGGACCACACGGTG
CTGCCCTACGACTTCTCCAGCGCCGAGGAACTGTTGCTGCTGTGCAAGCGCCACAACCTGCGGGTATCCGAG
CTGATGCTGGCCAACGAACGCATCTGGCGCAGCGAGACCGACATCCGCGAAGGCCTGCGGCGCATCTGGCAG
GCGATGCGCGATTGCGTCGACAACGGGTTGCGCAACGAAGGCATCCTTCCCGGCGGGCTCAACGTGCAACGC
CGCGCCGCGCGCCTGCACCGCAACCTGCAGGAGATCGGCAAGCCCAACGTGATCGGCTCGACCCTCAGCGCC
ATGGAATGGGTCAACCTGTTCGCCCTGGCGGTGAACGAGGAGAACGCCGCCGGCGGGCGCATGGTCACCGCG
CCCACCAACGGCGCGGCGGGGATCATCCCGGCGGTGCTGCACTACTATATGAAGTTCAATCCCGACGCCCAG
GACCGCGACGTCGTCGACTACCTGCTGGCCGCCGCCGCGGTGGGCATCCTGTGCAAGAAGAACGCCTCGATC
TCCGGCGCCGAGGTCGGCTGCCAGGGCGAGGTCGGCTCGGCCTGCGCGATGGCCGCCGCCGGCCTGGCGGAA
GTCCTCGGCGCCACCCCGGCGCAGGTCGAGAACGCTGCCGAGATCGGCCTGGAACACAACCTCGGGCTGACC
TGCGACCCGGTTGGCGGGCTGGTCCAAGTACCCTGTATCGAGCGCAACGCGATCGCCGCGGTGAAGGCCATC
AACGCGGCGCAAATGGCCTTGCGCGGCGACGGCCAGCATTTCATCTCGCTGGACAAGGTGATCCGCACCATG
CGCGACACCGGCGCCGACATGCACGACAAGTACAAGGAAACCTCGCGCGGGGGCCTGGCGGTGAACGCCATC
GAGTGCTGA
Translation:
MAISVFDLFKIGIGPSSSHTVGPMRAAALFTAALRQRQALSAVRRLEVRLYGSLSATGVGHGTDRAVIMGLM
GEWPDRIDPTQIAPRMAALLDSGLLQLDGRVAVPFDWVRDMRLLDENLPYHPNAMTLVAYGEQDELHQETYY
SVGGGFVVDAAQAASGQLDQDHTVLPYDFSSAEELLLLCKRHNLRVSELMLANERIWRSETDIREGLRRIWQ
AMRDCVDNGLRNEGILPGGLNVQRRAARLHRNLQEIGKPNVIGSTLSAMEWVNLFALAVNEENAAGGRMVTA
PTNGAAGIIPAVLHYYMKFNPDAQDRDVVDYLLAAAAVGILCKKNASISGAEVGCQGEVGSACAMAAAGLAE
VLGATPAQVENAAEIGLEHNLGLTCDPVGGLVQVPCIERNAIAAVKAINAAQMALRGDGQHFISLDKVIRTM
RDTGADMHDKYKETSRGGLAVNAIEC*
AnnotationID:1042GeneID:1033
AnnotatorUID: diggins
Modification Date/Time: 2005-03-17 08:08:03
Gene Name:sdaB
Confidence Code:2
GeneProduct:L-serine dehydratase
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(2) Amino acid biosynthesis and metabolism
Alternate Gene Product Name:L-serine dehydratase, iron-sulfur-dependent, single chain form
Functional Category Confidence Code:5
COGs:pfam03313,COG1760,pfam03315
Secondary Functional Category(ies):
EC Number:4.2.1.13
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAN65928.1|AE016220_10 (AE016775) L-serine dehydratase, iron-sulfur-dependent, single
           chain form [Pseudomonas putida KT2440]
          Length = 458

 Score =  761 bits (1965), Expect = 0.0
 Identities = 375/458 (81%), Positives = 413/458 (90%)

>gb|AAO55404.1| (AE016862) L-serine dehydratase 1 [Pseudomonas syringae pv. tomato
           str. DC3000]
          Length = 458

 Score =  719 bits (1855), Expect = 0.0
 Identities = 355/458 (77%), Positives = 392/458 (85%)

>emb|CAA20172.1| (AL939123) L-serine dehydratase [Streptomyces coelicolor A3(2)]
          Length = 455

 Score =  548 bits (1413), Expect = e-155
 Identities = 287/460 (62%), Positives = 338/460 (73%), Gaps = 7/460 (1%)








 
Structural Features:
pfam03313, SDH_alpha, Serine dehydratase alpha chain.
CD-Length = 276 residues, 100.0% aligned
Score =  366 bits (941), Expect = 3e-102
Identities = 172/282 (60%), Positives = 210/282 (74%), Gaps = 7/282 (2%)

COG1760, SdaA, L-serine deaminase [Amino acid transport and metabolism]
CD-Length = 262 residues,  99.6% aligned
Score =  321 bits (823), Expect = 1e-88
Identities = 136/282 (48%), Positives = 169/282 (59%), Gaps = 21/282 (7%)
pfam03315, SDH_beta, Serine dehydratase beta chain. 








   
Genomic Context:






   
Comment:


















    ReferenceID:2069




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:19211




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:34722




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:1033_cdd.html


    		




 
URL:

















    ReferenceID:35658




  
Author/Investigator(s):
        Shao Z, Newman EB.





  
Title:
        Sequencing and characterization of the sdaB gene from Escherichia coli K-12.




  
PubMed:
        8385012


MedLine:
        




    
Source:
Eur J Biochem. 1993 Mar 15;212(3):777-84.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=8385012









           
Homologs By Global Alignment 

           

       



     
Gene ID:1033
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
1855
                           PA5379_tr
                           translation of PA5379
                           458
                           99.78
                           99.78
                           0
                           2342.0
     

     
     
64316
                           gb|AAG08764.1|AE004950_7
                           (AE004950) L-serine dehydratase [Pseudomonas aeruginosa PAO1]
                           458
                           99.78
                           99.78
                           0
                           2342.0
     

     
     
64317
                           gb|AAN65928.1|AE016220_10
                           (AE016775) L-serine dehydratase, iron-sulfur-dependent, single chain form [Pseudomonas putida KT2440]
                           458
                           81.87
                           90.17
                           0
                           1965.0
     

     
     
64318
                           gb|AAO55404.1|
                           (AE016862) L-serine dehydratase 1 [Pseudomonas syringae pv. tomato str. DC3000]
                           458
                           77.51
                           85.58
                           0
                           1855.0
     

     
     
64319
                           gb|AAN68752.1|AE016507_3
                           (AE016785) L-serine dehydratase, iron-sulfur-dependent, single chain form [Pseudomonas putida KT2440]
                           458
                           75.76
                           85.58
                           0
                           1795.0
     

     






      

          
GC ORFID: 44035How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA5379Glimmer Score: 

          
Start: 5593484Stop: 5594860

          
Length: 1377


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA5379 translation of PA5379Homolog Bit Score 906.0

          
Other Homologs:  psyr_15may02_Scaffold2_revised_gene3452 (ORF: BLASTX 721.0), t_PA2443 (ORF: BLASTX 557.0), t_PA5379 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGGCTATCAGTGTGTTCGACCTTTTCAAGATCGGTATCGGCCCGTCCAGTTCGCATACCGTCGGCCCCATG 
CGCGCCGCCGCGCTGTTCACCGCTGCCCTGCGCCAACGCCAGGCGCTGTCGGCGGTGCGGCGTCTCGAAGTG 
CGCCTGTACGGCTCGCTGTCCGCCACCGGCGTCGGCCACGGCACCGATCGCGCGGTGATCATGGGCCTGATG 
GGCGAATGGCCGGATCGTATCGACCCGACCCAGATCGCCCCGCGCATGGCCGCGCTGCTCGATAGCGGCCTG 
CTGCAACTGGACGGCCGCGTGGCGGTACCGTTCGACTGGGTGCGCGACATGCGCCTGCTCGACGAGAACCTG 
CCCTACCACCCCAACGCCATGACCCTGGTCGCCTACGGCGAGCAGGACGAACTGCACCAGGAGACCTACTAC 
TCGGTCGGCGGCGGCTTCGTGGTCGATGCGGCACAGGCCGCCTCGGGGCAGCTCGACCAGGACCACACGGTG 
CTGCCCTACGACTTCTCCAGCGCCGAGGAACTGTTGCTGCTGTGCAAGCGCCACAACCTGCGGGTATCCGAG 
CTGATGCTGGCCAACGAACGCATCTGGCGCAGCGAGACCGACATCCGCGAAGGCCTGCGGCGCATCTGGCAG 
GCGATGCGCGATTGCGTCGACAACGGGTTGCGCAACGAAGGCATCCTTCCCGGCGGGCTCAACGTGCAACGC 
CGCGCCGCGCGCCTGCACCGCAACCTGCAGGAGATCGGCAAGCCCAACGTGATCGGCTCGACCCTCAGCGCC 
ATGGAATGGGTCAACCTGTTCGCCCTGGCGGTGAACGAGGAGAACGCCGCCGGCGGGCGCATGGTCACCGCG 
CCCACCAACGGCGCGGCGGGGATCATCCCGGCGGTGCTGCACTACTATATGAAGTTCAATCCCGACGCCCAG 
GACCGCGACGTCGTCGACTACCTGCTGGCCGCCGCCGCGGTGGGCATCCTGTGCAAGAAGAACGCCTCGATC 
TCCGGCGCCGAGGTCGGCTGCCAGGGCGAGGTCGGCTCGGCCTGCGCGATGGCCGCCGCCGGCCTGGCGGAA 
GTCCTCGGCGCCACCCCGGCGCAGGTCGAGAACGCTGCCGAGATCGGCCTGGAACACAACCTCGGGCTGACC 
TGCGACCCGGTTGGCGGGCTGGTCCAAGTACCCTGTATCGAGCGCAACGCGATCGCCGCGGTGAAGGCCATC 
AACGCGGCGCAAATGGCCTTGCGCGGCGACGGCCAGCATTTCATCTCGCTGGACAAGGTGATCCGCACCATG 
CGCGACACCGGCGCCGACATGCACGACAAGTACAAGGAAACCTCGCGCGGGGGCCTGGCGGTGAACGCCATC 
GAGTGCTGA