ViewGene
Locus Name:
GeneID:
Location:

GeneID:1303
TrivialName: PA14_42340
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_42340
PAO1 Ortholog Locus:PA1717
Sequence Length:1299
Protein Length:432
Start: 3773502
Stop: 3772204
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAC44775.1| (U56077) PscD [Pseudomonas aeruginosa]
Identities = 425/432 (98%), Positives = 429/432 (99%)
Sequence:
ATGGCCTGGAAGATCCGCTTCTACAGCGGGCTGAACCAGGGCGCCGAAGTCTCGCTCGGAGAGGGCCGGGTG
GCGCTTGGCAGCGATCCGTTGCAGGCCGACCTGGTGTTGCTCGACGAGGGCATCGCGGCAGTCCACCTGGTG
CTCGAGGTCGATGCCCAGGGCGTGCGCCTGCTGGAGTGGGCGGAGGGCTGCGAGCCTCGCCAGGACGGCCAG
GCGCAAGTCGCCGGAGCGATCCTGCAGGCGCTTGCCGGGCAGACCTGCGGCCCGCTGCGCTGGGCATTCTGC
GACCCGCAGCGGAGTTTTCCCGAGCGTTTCCCCGAAGTCGAGGCGCAGACCGCGCCAGTGCGCCGCAAGCCG
TCCGCCCGTGCCGGCGGGGCCTGGCTGCTCGGCATCAGCCTGGCGCTGGCCCTGTGCCTGCTGGGCATGCTC
GTCGAACCCTGGTCGGCCCGCCAGCACGGCATGGCCGGCGAGGAGCCCCTGGCGAGGGTGCGCGCCTACCTG
CGCGAGCAGGGCATGAGCGAGGTGGATGTGCAGCGCCAGGGCGACAGTCTCCTGCTCGGCGGCTACCTGGAG
GACAACGCCCGGCGCCTGGCGCTGCAGCGCTACCTCGATGGCAGCGGCGTGGACTACCGACTGGAAGCACGG
AGCATGGAAGACATTCGCCAGGGCGTGGATTTCATCCTGCAGAAATTCGGCTATCGGCAGATCCTCAGCAGC
AACGCGGACAAGCCTGGCTGGGTCCGGCTCAACGGCGAACTGGCGGAACAGGACGAACGCTGGGCGCGGATC
GACGCATTGCTGGAGTCCGAGGTGCCGGGCCTGCTCGGGGTGGAAAACCAGGTCCGGGTGGCCGGCTCGCAC
CTGCGCCGCCTCGAACGCCTGCTGGCGGACGCCGGCCTCGACCGGCAACTGAGTTTCCGCGAGCGCGGCGAG
CGCATCGAGTTGAGCGGTACGCTCGACGAGGTCCAGCTCAGCGCCTTCTACCGCCTGCAGCGCGAGTTCCAG
CAGGAGTTCGGCAACCGCCCGAGCCTGGAGCTGCTCAGTCGCGGCAAGCGCGCCAGCGGCGACGAACTGGAG
TTCACGGTGCGCTCGGTGTCGCTGGGGCGGGTGCCCTATGTAGTGCTCGGCGACGGCCAGAAATACCCGGTG
GGCGCCTCGACATCCCGTGGTGTGCGAATCCTCGCCATCGAGCCGGAGTCGATCCTGGTGGCCCGCGGCAAG
CAGCGTTTCATCATCAATCTCAAAGGGGAGGTGCTCCATGATGACAGCCTTGGAAACGCGACTGTCGGTCGC
TGA
Translation:
MAWKIRFYSGLNQGAEVSLGEGRVALGSDPLQADLVLLDEGIAAVHLVLEVDAQGVRLLEWAEGCEPRQDGQ
AQVAGAILQALAGQTCGPLRWAFCDPQRSFPERFPEVEAQTAPVRRKPSARAGGAWLLGISLALALCLLGML
VEPWSARQHGMAGEEPLARVRAYLREQGMSEVDVQRQGDSLLLGGYLEDNARRLALQRYLDGSGVDYRLEAR
SMEDIRQGVDFILQKFGYRQILSSNADKPGWVRLNGELAEQDERWARIDALLESEVPGLLGVENQVRVAGSH
LRRLERLLADAGLDRQLSFRERGERIELSGTLDEVQLSAFYRLQREFQQEFGNRPSLELLSRGKRASGDELE
FTVRSVSLGRVPYVVLGDGQKYPVGASTSRGVRILAIEPESILVARGKQRFIINLKGEVLHDDSLGNATVGR
*
AnnotationID:1312GeneID:1303
AnnotatorUID: diggins
Modification Date/Time: 2005-02-28 07:07:24
Gene Name:pscD
Confidence Code:1
GeneProduct:type III export protein PscD
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(19) Protein secretion/export apparatus
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO18032.1| (AY144116) LscD [Photorhabdus luminescens]
          Length = 423

 Score =  399 bits (1025), Expect = e-110
 Identities = 213/422 (50%), Positives = 289/422 (68%), Gaps = 12/422 (2%)

>gb|AAK69236.1|AF336309_31 (AF336309) YscD [Yersinia enterocolitica]
          Length = 418

 Score =  330 bits (845), Expect = 1e-89
 Identities = 189/421 (44%), Positives = 270/421 (64%), Gaps = 11/421 (2%)

>gb|AAC69780.1| (AF074612) type III secretion protein [Yersinia pestis KIM]
          Length = 419

 Score =  327 bits (837), Expect = 1e-88
 Identities = 185/420 (44%), Positives = 269/420 (64%), Gaps = 8/420 (1%)






 
Structural Features:
CDD Search: No hits above 0.01 threshold.






   
Genomic Context:






   
Comment:


















    ReferenceID:2609




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:19751




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:37839




  
Author/Investigator(s):
        Yahr TL, Goranson J, Frank DW.





  
Title:
        Exoenzyme S of Pseudomonas aeruginosa is secreted by a type III pathway.




  
PubMed:
        8971719


MedLine:
        




    
Source:
Mol Microbiol. 1996 Dec;22(5):991-1003.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=97126825&dopt=Abstract









           
Homologs By Global Alignment 

           

       



     
Gene ID:1303
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
2366
                           PA1717_tr
                           translation of PA1717
                           432
                           98.37
                           99.07
                           0
                           2166.0
     

     
     
75948
                           gb|AAC44775.1|
                           (U56077) PscD [Pseudomonas aeruginosa]
                           432
                           98.37
                           99.30
                           0
                           2170.0
     

     
     
75949
                           gb|AAG05106.1|AE004598_5
                           (AE004598) type III export protein PscD [Pseudomonas aeruginosa PAO1]
                           432
                           98.37
                           99.07
                           0
                           2166.0
     

     
     
75950
                           gb|AAO18032.1|
                           (AY144116) LscD [Photorhabdus luminescens]
                           441
                           49.20
                           66.21
                           27
                           1039.0
     

     
     
75951
                           emb|CAE16151.1|
                           (BX571871) Type III secretion component protein SctD [Photorhabdus luminescens subsp. laumondii TTO1]
                           440
                           49.09
                           65.22
                           26
                           1017.0
     

     






      

          
GC ORFID: 44305How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA1717Glimmer Score: 

          
Start: 1180407Stop: 1181705

          
Length: 1299


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA1717 translation of PA1717Homolog Bit Score 838.0

          
Other Homologs:  t_PA1717 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGGCCTGGAAGATCCGCTTCTACAGCGGGCTGAACCAGGGCGCCGAAGTCTCGCTCGGAGAGGGCCGGGTG 
GCGCTTGGCAGCGATCCGTTGCAGGCCGACCTGGTGTTGCTCGACGAGGGCATCGCGGCAGTCCACCTGGTG 
CTCGAGGTCGATGCCCAGGGCGTGCGCCTGCTGGAGTGGGCGGAGGGCTGCGAGCCTCGCCAGGACGGCCAG 
GCGCAAGTCGCCGGAGCGATCCTGCAGGCGCTTGCCGGGCAGACCTGCGGCCCGCTGCGCTGGGCATTCTGC 
GACCCGCAGCGGAGTTTTCCCGAGCGTTTCCCCGAAGTCGAGGCGCAGACCGCGCCAGTGCGCCGCAAGCCG 
TCCGCCCGTGCCGGCGGGGCCTGGCTGCTCGGCATCAGCCTGGCGCTGGCCCTGTGCCTGCTGGGCATGCTC 
GTCGAACCCTGGTCGGCCCGCCAGCACGGCATGGCCGGCGAGGAGCCCCTGGCGAGGGTGCGCGCCTACCTG 
CGCGAGCAGGGCATGAGCGAGGTGGATGTGCAGCGCCAGGGCGACAGTCTCCTGCTCGGCGGCTACCTGGAG 
GACAACGCCCGGCGCCTGGCGCTGCAGCGCTACCTCGATGGCAGCGGCGTGGACTACCGACTGGAAGCACGG 
AGCATGGAAGACATTCGCCAGGGCGTGGATTTCATCCTGCAGAAATTCGGCTATCGGCAGATCCTCAGCAGC 
AACGCGGACAAGCCTGGCTGGGTCCGGCTCAACGGCGAACTGGCGGAACAGGACGAACGCTGGGCGCGGATC 
GACGCATTGCTGGAGTCCGAGGTGCCGGGCCTGCTCGGGGTGGAAAACCAGGTCCGGGTGGCCGGCTCGCAC 
CTGCGCCGCCTCGAACGCCTGCTGGCGGACGCCGGCCTCGACCGGCAACTGAGTTTCCGCGAGCGCGGCGAG 
CGCATCGAGTTGAGCGGTACGCTCGACGAGGTCCAGCTCAGCGCCTTCTACCGCCTGCAGCGCGAGTTCCAG 
CAGGAGTTCGGCAACCGCCCGAGCCTGGAGCTGCTCAGTCGCGGCAAGCGCGCCAGCGGCGACGAACTGGAG 
TTCACGGTGCGCTCGGTGTCGCTGGGGCGGGTGCCCTATGTAGTGCTCGGCGACGGCCAGAAATACCCGGTG 
GGCGCCTCGACATCCCGTGGTGTGCGAATCCTCGCCATCGAGCCGGAGTCGATCCTGGTGGCCCGCGGCAAG 
CAGCGTTTCATCATCAATCTCAAAGGGGAGGTGCTCCATGATGACAGCCTTGGAAACGCGACTGTCGGTCGC 
TGA