ViewGene
Locus Name:
GeneID:
Location:

GeneID:4306
TrivialName: PA14_58120
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_58120
PAO1 Ortholog Locus:PA4479
Sequence Length:495
Protein Length:164
Start: 5174913
Stop: 5174419
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07867.1|AE004862_1 (AE004862) rod shape-determining protein MreD [Pseudomonas aeruginosa PAO1]
Identities = 164/164 (100%), Positives = 164/164 (100%)
Sequence:
ATGGCTCGCGCGACTCAAGGTTCGAACAATGTCTGGGTGATCTGGCTGAGCCTGCTGGTCGGGCTGGTGCTG
GCCGTAGCGCCGATGCCTACCTTCACCGAGATCGGCCGCCCGCTGTGGCTGGCGATGCTGCTGACCTACTGG
GTGTTGCTGCTGCCCGAGCGCGTCGGGATGGTCACCGCCTGGCTGCTCGGCCTGGCCCAGGACGTGCTCTAC
GGCAACCTGCTCGGGCAGAACGCGCTGATCCTCGGCCTGATCACCTTCCTCGTGCTGTCCCTGCACCAGCGC
CTGCGCATGTTCCCGGCCTGGCAGCAGTGCCTGGTGCTGGTGGTGGTCTACGGCCTGGCGCAGCTGCTCCAG
CTCTGGCTCAACGCCCTGACCGGCAATCGTCCGCCGACCCTGACCTTCCTGCTCCCGGCCCTGGTCAGCGCG
CTGCTCTGGCCCTGGGTGTACGCCCTGCTGCAGTTCGTCCGCCTGCGTCTCAACGTGAGGTAG
Translation:
MARATQGSNNVWVIWLSLLVGLVLAVAPMPTFTEIGRPLWLAMLLTYWVLLLPERVGMVTAWLLGLAQDVLY
GNLLGQNALILGLITFLVLSLHQRLRMFPAWQQCLVLVVVYGLAQLLQLWLNALTGNRPPTLTFLLPALVSA
LLWPWVYALLQFVRLRLNVR*
AnnotationID:4312GeneID:4306
AnnotatorUID: diggins
Modification Date/Time: 2005-05-03 14:02:05
Gene Name:mreD
Confidence Code:2
GeneProduct:rod shape-determining protein MreD
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(7) Cell wall / LPS / capsule
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG2891,pfam04093
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO57919.1| (AE016872) rod shape-determining protein MreD [Pseudomonas syringae
           pv. tomato str. DC3000]
          Length = 163

 Score =  230 bits (587), Expect = 2e-60
 Identities = 109/154 (70%), Positives = 129/154 (83%)

>gb|AAN66560.1|AE016284_8 (AE016777) rod shape-determining protein MreD [Pseudomonas putida
           KT2440]
          Length = 163

 Score =  216 bits (550), Expect = 4e-56
 Identities = 99/160 (61%), Positives = 131/160 (81%)

>gb|AAN82443.1|AE016767_203 (AE016767) Rod shape-determining protein mreD [Escherichia coli
           CFT073]
          Length = 162

 Score =  110 bits (275), Expect = 3e-24
 Identities = 53/161 (32%), Positives = 90/161 (55%)







 
Structural Features:
COG2891, MreD, Cell shape-determining protein 
[Cell envelope biogenesis, outer membrane]
CD-Length = 167 residues,  94.6% aligned
Score =  101 bits (252), Expect = 1e-22
Identities = 71/158 (44%), Positives = 99/158 (62%), Gaps = 1/158 (0%)

pfam04093, MreD, rod shape-determining protein MreD.
CD-Length = 162 residues, 100.0% aligned
Score = 81.0 bits (200), Expect = 1e-16
Identities = 66/162 (40%), Positives = 96/162 (59%), Gaps = 10/162 (6%)






   
Genomic Context:






   
Comment:


















    ReferenceID:8613




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:25756




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:31518




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:4306_cdd.html


    		




 
URL:

















    ReferenceID:32871




  
Author/Investigator(s):
        Wachi M, Doi M, Ueda T, Ueki M, Tsuritani K, Nagai K, Matsuhashi M.





  
Title:
        Sequence of the downstream flanking region of the shape-determining genes mreBCD of Escherichia coli.




  
PubMed:
        1937035


MedLine:
        




    
Source:
Gene. 1991 Sep 30;106(1):135-6.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=1937035

















    ReferenceID:32872




  
Author/Investigator(s):
        Wachi M, Doi M, Okada Y, Matsuhashi M.





  
Title:
        New mre genes mreC and mreD, responsible for formation of the rod shape of Escherichia coli cells.




  
PubMed:
        2687239


MedLine:
        




    
Source:
J Bacteriol. 1989 Dec;171(12):6511-6.






    
Reference Type: 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=2687239









           
Homologs By Global Alignment 

           

       



     
Gene ID:4306
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
6626
                           PA4479_tr
                           translation of PA4479
                           164
                           99.99
                           99.99
                           0
                           847.0
     

     
     
178775
                           gb|AAG07867.1|AE004862_1
                           (AE004862) rod shape-determining protein MreD [Pseudomonas aeruginosa PAO1]
                           164
                           99.99
                           99.99
                           0
                           847.0
     

     
     
178776
                           gb|AAO57919.1|
                           (AE016872) rod shape-determining protein MreD [Pseudomonas syringae pv. tomato str. DC3000]
                           164
                           67.68
                           79.87
                           1
                           587.0
     

     
     
178777
                           gb|AAN66560.1|AE016284_8
                           (AE016777) rod shape-determining protein MreD [Pseudomonas putida KT2440]
                           164
                           60.36
                           79.87
                           1
                           548.0
     

     
     
178778
                           gb|AAF22469.1|AF063934_3
                           (AF063934) rod shape determining protein MreD [Pseudomonas fluorescens]
                           164
                           31.70
                           42.07
                           69
                           268.0
     

     






      

          
GC ORFID: 47308How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA4479Glimmer Score: 

          
Start: 4438592Stop: 4438098

          
Length: 495


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TAGTruncated Stop: 

          
Homolog: t_PA4479 translation of PA4479Homolog Bit Score 330.0

          
Other Homologs:  psyr_15may02_Scaffold4_revised_gene5507 (ORF: BLASTX 230.0), t_PA4479 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGGCTCGCGCGACTCAAGGTTCGAACAATGTCTGGGTGATCTGGCTGAGCCTGCTGGTCGGGCTGGTGCTG 
GCCGTAGCGCCGATGCCTACCTTCACCGAGATCGGCCGCCCGCTGTGGCTGGCGATGCTGCTGACCTACTGG 
GTGTTGCTGCTGCCCGAGCGCGTCGGGATGGTCACCGCCTGGCTGCTCGGCCTGGCCCAGGACGTGCTCTAC 
GGCAACCTGCTCGGGCAGAACGCGCTGATCCTCGGCCTGATCACCTTCCTCGTGCTGTCCCTGCACCAGCGC 
CTGCGCATGTTCCCGGCCTGGCAGCAGTGCCTGGTGCTGGTGGTGGTCTACGGCCTGGCGCAGCTGCTCCAG 
CTCTGGCTCAACGCCCTGACCGGCAATCGTCCGCCGACCCTGACCTTCCTGCTCCCGGCCCTGGTCAGCGCG 
CTGCTCTGGCCCTGGGTGTACGCCCTGCTGCAGTTCGTCCGCCTGCGTCTCAACGTGAGGTAG