ViewGene
Locus Name:
GeneID:
Location:

GeneID:1828
TrivialName: PA14_68870
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_68870
PAO1 Ortholog Locus:PA5215
Sequence Length:1083
Protein Length:360
Start: 6144962
Stop: 6143880
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG08600.1|AE004934_7 (AE004934) glycine-cleavage system protein T1 [Pseudomonas aeruginosa PAO1]
Identities = 359/360 (99%), Positives = 360/360 (100%)
Sequence:
ATGGGATTGCGCACCCCGCTTTACGAGCTGCACGTCGCGCTCGGCGCCAAGATGGTCGATTTCGGCGGTTGG
GACATGCCGCTGCACTACGGTTCGCAGGTCGAGGAGCACCATCAGGTCCGGCGTGACTGCGGCGTCTTCGAC
GTGTCCCACATGACCGTGGTCGACGTCGCCGGCGAGCAGGCCACGGCCTATCTGCAGCATCTCCTGGCGAAC
GACGTGGCGCGCCTCGGCGAGACCGGCAAGGCGCTCTACAGCGCGATGCTCAACGAAGAGGGCGGGGTGGTC
GACGACCTGATCGTCTACCTGACCGAGAACGGCTACCGGGTGGTGGTCAACGCCTCCACCCGCGACAAGGAC
ATCGCCTGGATGCAGGCGCAGGCCGCCGGCTTCAAGGTCGACCTGCAGGAACGCGGCGACCTGGCGATGCTC
GCCATCCAGGGCCCCAACGCCCGCGTGCACAGCTCCGAACTGGTATCCCCGGCACGCGCCGCGCTGATACGC
GAACTCAAGCCGTTCCAGGGCCGTGCCGAGGGCGACTGGTTCATCGCCCGCACCGGCTACACCGGCGAGGAC
GGCCTGGAGATCATGCTGCCGGCCGCCGAGGCGCCGGGCTTCCTCAACGAGCTGGTTGGCGCCGGGATCTCC
CCGGCGGGCCTGGGGGCGCGCGATACGCTGCGCCTGGAGGCCGGGCTCAATCTCTACGGCCAGGACATGGAC
GAAAGCGTTTCCCCGCTTGCCGCCAACATGGGCTGGACCGTAGCCTGGGAGCCGGTTGCGCGGGACTTCGTC
GGCCGCCGCGCGCTGGAAGCGCAGAAGGCCGCCGGCGACCAGCCGAAGCTGGTCGGCCTGGTTCTGGAGGAG
CGCGGCGTGCTGCGCGCCCACCAGGTGGTGCGGGTAGCTGGCATTGGTGAGGGGGAGATCACCAGCGGCAGC
TTTTCGCCTACCCTGAACAAGTCCATCGCGCTGGCCCGCGTGCCGGCCGCCACCGGCGACCGCGCCGAGGTG
GAAATCCGCGGCAAGTGGTACCCGGTACGGGTGGTCCAGCCCAGTTTCGTGCGTCACGGCAAGCCCCTGATC
TAA
Translation:
MGLRTPLYELHVALGAKMVDFGGWDMPLHYGSQVEEHHQVRRDCGVFDVSHMTVVDVAGEQATAYLQHLLAN
DVARLGETGKALYSAMLNEEGGVVDDLIVYLTENGYRVVVNASTRDKDIAWMQAQAAGFKVDLQERGDLAML
AIQGPNARVHSSELVSPARAALIRELKPFQGRAEGDWFIARTGYTGEDGLEIMLPAAEAPGFLNELVGAGIS
PAGLGARDTLRLEAGLNLYGQDMDESVSPLAANMGWTVAWEPVARDFVGRRALEAQKAAGDQPKLVGLVLEE
RGVLRAHQVVRVAGIGEGEITSGSFSPTLNKSIALARVPAATGDRAEVEIRGKWYPVRVVQPSFVRHGKPLI
*
AnnotationID:1837GeneID:1828
AnnotatorUID: diggins
Modification Date/Time: 2005-04-26 13:01:07
Gene Name:gcvT1
Confidence Code:2
GeneProduct:glycine-cleavage system protein T1
Cell Localization:()
Synonyms:gcvT
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(2) Amino acid biosynthesis and metabolism
Alternate Gene Product Name:aminomethyltransferase
Functional Category Confidence Code:5
COGs:COG0404,pfam01571
Secondary Functional Category(ies):central intermediary metabolism
EC Number:2.1.2.10
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO53861.1| (AE016857) glycine cleavage system T protein [Pseudomonas syringae
           pv. tomato str. DC3000]
          Length = 360

 Score =  557 bits (1435), Expect = e-158
 Identities = 275/360 (76%), Positives = 312/360 (86%)

>gb|AAN70759.1|AE016720_2 (AE016793) glycine cleavage system T protein [Pseudomonas putida
           KT2440]
          Length = 360

 Score =  553 bits (1425), Expect = e-157
 Identities = 273/360 (75%), Positives = 310/360 (86%)

>gb|AAN53855.1|AE015522_10 (AE015522) glycine cleavage system T protein [Shewanella oneidensis
           MR-1]
          Length = 364

 Score =  415 bits (1066), Expect = e-115
 Identities = 214/362 (59%), Positives = 269/362 (74%), Gaps = 6/362 (1%)








 
Structural Features:
COG0404, GcvT, Glycine cleavage system T protein (aminomethyltransferase) 
[Amino acid transport and metabolism]
CD-Length = 379 residues,  97.9% aligned
Score =  371 bits (954), Expect = 7e-104
Identities = 183/377 (48%), Positives = 236/377 (62%), Gaps = 26/377 (6%)

pfam01571, GCV_T, Glycine cleavage T-protein (aminomethyl transferase).
CD-Length = 327 residues,  99.7% aligned
Score =  276 bits (708), Expect = 2e-75
Identities = 146/329 (44%), Positives = 193/329 (58%), Gaps = 23/329 (6%)






   
Genomic Context:






   
Comment:


















    ReferenceID:3659




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:20806




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:34850




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:1828_cdd.html


    		




 
URL:

















    ReferenceID:35756




  
Author/Investigator(s):
        Okamura-Ikeda K, Ohmura Y, Fujiwara K, Motokawa Y.





  
Title:
        Cloning and nucleotide sequence of the gcv operon encoding the Escherichia coli glycine-cleavage system.




  
PubMed:
        8375392


MedLine:
        




    
Source:
Eur J Biochem. 1993 Sep 1;216(2):539-48.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=8375392

















    ReferenceID:35759




  
Author/Investigator(s):
        Stauffer LT, Ghrist A, Stauffer GV.





  
Title:
        The Escherichia coli gcvT gene encoding the T-protein of the glycine cleavage enzyme system.




  
PubMed:
        8219277


MedLine:
        




    
Source:
DNA Seq. 1993;3(6):339-46.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=8219277









           
Homologs By Global Alignment 

           

       



     
Gene ID:1828
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
3209
                           PA5215_tr
                           translation of PA5215
                           360
                           99.72
                           99.99
                           0
                           1845.0
     

     
     
99554
                           gb|AAG08600.1|AE004934_7
                           (AE004934) glycine-cleavage system protein T1 [Pseudomonas aeruginosa PAO1]
                           360
                           99.72
                           99.99
                           0
                           1845.0
     

     
     
99555
                           gb|AAO53861.1|
                           (AE016857) glycine cleavage system T protein [Pseudomonas syringae pv. tomato str. DC3000]
                           360
                           76.38
                           86.66
                           0
                           1435.0
     

     
     
99556
                           gb|AAN70759.1|AE016720_2
                           (AE016793) glycine cleavage system T protein [Pseudomonas putida KT2440]
                           360
                           75.83
                           86.11
                           0
                           1425.0
     

     
     
99557
                           gb|AAQ61094.1|
                           (AE016922) glycine cleavage system T protein [Chromobacterium violaceum ATCC 12472]
                           365
                           64.10
                           75.61
                           8
                           1167.0
     

     






      

          
GC ORFID: 44830How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA5215Glimmer Score: 

          
Start: 5408648Stop: 5407566

          
Length: 1083


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TAATruncated Stop: 

          
Homolog: t_PA5215 translation of PA5215Homolog Bit Score 715.0

          
Other Homologs:  psyr_15may02_Scaffold2_revised_gene3167 (ORF: BLASTX 562.0), t_PA5215 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGGGATTGCGCACCCCGCTTTACGAGCTGCACGTCGCGCTCGGCGCCAAGATGGTCGATTTCGGCGGTTGG 
GACATGCCGCTGCACTACGGTTCGCAGGTCGAGGAGCACCATCAGGTCCGGCGTGACTGCGGCGTCTTCGAC 
GTGTCCCACATGACCGTGGTCGACGTCGCCGGCGAGCAGGCCACGGCCTATCTGCAGCATCTCCTGGCGAAC 
GACGTGGCGCGCCTCGGCGAGACCGGCAAGGCGCTCTACAGCGCGATGCTCAACGAAGAGGGCGGGGTGGTC 
GACGACCTGATCGTCTACCTGACCGAGAACGGCTACCGGGTGGTGGTCAACGCCTCCACCCGCGACAAGGAC 
ATCGCCTGGATGCAGGCGCAGGCCGCCGGCTTCAAGGTCGACCTGCAGGAACGCGGCGACCTGGCGATGCTC 
GCCATCCAGGGCCCCAACGCCCGCGTGCACAGCTCCGAACTGGTATCCCCGGCACGCGCCGCGCTGATACGC 
GAACTCAAGCCGTTCCAGGGCCGTGCCGAGGGCGACTGGTTCATCGCCCGCACCGGCTACACCGGCGAGGAC 
GGCCTGGAGATCATGCTGCCGGCCGCCGAGGCGCCGGGCTTCCTCAACGAGCTGGTTGGCGCCGGGATCTCC 
CCGGCGGGCCTGGGGGCGCGCGATACGCTGCGCCTGGAGGCCGGGCTCAATCTCTACGGCCAGGACATGGAC 
GAAAGCGTTTCCCCGCTTGCCGCCAACATGGGCTGGACCGTAGCCTGGGAGCCGGTTGCGCGGGACTTCGTC 
GGCCGCCGCGCGCTGGAAGCGCAGAAGGCCGCCGGCGACCAGCCGAAGCTGGTCGGCCTGGTTCTGGAGGAG 
CGCGGCGTGCTGCGCGCCCACCAGGTGGTGCGGGTAGCTGGCATTGGTGAGGGGGAGATCACCAGCGGCAGC 
TTTTCGCCTACCCTGAACAAGTCCATCGCGCTGGCCCGCGTGCCGGCCGCCACCGGCGACCGCGCCGAGGTG 
GAAATCCGCGGCAAGTGGTACCCGGTACGGGTGGTCCAGCCCAGTTTCGTGCGTCACGGCAAGCCCCTGATC 
TAA