ViewGene
Locus Name:
GeneID:
Location:

GeneID:341
TrivialName: PA14_45310
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_45310
PAO1 Ortholog Locus:PA1480
Sequence Length:1974
Protein Length:657
Start: 4039727
Stop: 4037754
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG04869.1|AE004577_4 (AE004577) cytochrome C-type biogenesis protein CcmF [Pseudomonas aeruginosa PAO1]
Identities = 656/657 (99%), Positives = 656/657 (99%)
Sequence:
ATGATCCCCGAACTCGGCCACCTGGCCCTGATCCTCGCCCTTTGCCTGGCCCTGGTGCAGTCGAGCCTGCCG
CTGGTCGGCGCCTGGCGCGGCGACCGCCAGTGGATGAGCCTGGCGCGCCCAGCGGCCTGGGGGCAGTTCGCC
TTCCTCGCCTTCGCCTTCGGCTGCCTGACCTGGGCCTTCCTGCGCGACGACTTCTCGGTGGCCTACGTGGCC
GGCAACTCCAACAGCGCGCTGCCCTGGTACTACAAGTTCAGCGCCGTCTGGGGCGCCCACGAAGGTTCGCTG
CTGCTCTGGGCGTTGATCCTCGGCGGCTGGACCTTCGCCGTGTCGATCTTCTCCCGGCAACTGCCGGAGGTC
ATGCTGGCCCGCGTGCTGGCGGTGATGGGCATGATCAGCACCGGCTTCCTGCTGTTCCTGATCATCACCTCC
AACCCGTTCAGCCGCCTGCTGCCGCAGACCCCGATGGACGGCAACGACCTCAACCCGCTGCTGCAGGACGTC
GGCCTGATCGTCCACCCGCCGATGCTCTACATGGGGTACGTCGGATTCTCGGTGGCCTTCGCCTTCGCCATC
GCCGCACTGCTCGGCGGCCGCCTGGACGCCGCCTGGGCGCGCTGGTCGCGGCCCTGGACCCTGGTGGCCTGG
GCCTTCCTCGGTATCGGCATCGTGCTTGGCTCCTGGTGGGCCTACTACGAGCTGGGCTGGGGTGGCTGGTGG
TTCTGGGACCCGGTGGAAAACGCCTCCTTCATGCCCTGGCTGGTCGGCACTGCACTGATCCACTCGCTGGCG
GTGACCGAGAAGCGCGGCGTGTTCAAGAGCTGGACCGTGCTGCTGGCGATCGCCGCTTTCTCCCTGAGCCTG
CTGGGCACCTTCCTGGTCCGCTCCGGCGTGCTCACCTCGGTGCACGCCTTCGCCTCCGACCCGGAGCGCGGG
GTGTTCATCCTCGCCTTCCTGCTGCTGGTGGTCGGCGGCTCGCTGACCCTGTTCGCCCTGCGCGCGCCGGTG
GTCAAGAGCCAGGTCGGCTTCGCCCTGTGGTCGCGCGAGACCCTGCTGCTGCTGAACAACCTGGTGCTGGTG
GTGGCGGCCTCGATGATCCTCCTCGGGACTCTCTACCCGCTGCTGCTCGATGCCCTCAGCGGCGCCAAGCTG
TCGGTCGGCCCGCCGTACTTCAACGCCATGTTCCTGCCGCTGATGGCGGCGCTGATGGCGGCCCTGGCGGTC
GGCGTGCTGGTGCGCTGGAAGGACACCCCGAGCCGCTGGCTGCTCGGCATGCTGACCCCGGTGCTGGTGGCC
AGCGCGGTCCTGGCGGCGGCCGGTTCGATGTACTTCGGCGATTTCAACTGGGCGGTGCTGGCGGTGTTCCTG
CTGTCCGCCTGGGTGGTCCTGGCCGGTTTCCGCGACTTCCTCGACAAGACCCGGCACAAGGGCGTGCTGGCC
GGCGCCCGCAGCCTGACGCGCAGCTACTGGGGCATGCAACTGGCGCACCTGGGCATCGCCGTGTGCGCCATC
GGCATCGTCCTCAGCAGCCAGTACAGCGCCCAGCGTGACCTGCGCATGTCGCCCGGCGACACCGTCGAACTG
GGCGGCTACCACTTCCTCTTCGACGGCGCGAAGCACCACGAAGGGCCGAACTACACCTCGGACAAGGGCAGC
ATCCACGTCAGCCGCGACGGCAAGGAGATCGCCACCCTGCATCCGGAGAAGCGCCTGTACACCGTGCAGAGT
TCGATGATGACCGAGGCCGGGATCGATGCCGGCTTTACCCGCGACCTCTACGTGGCGCTCGGCGAGCCGCTG
GAGAACGGTGCCTGGGCGGTGCGCGTGCACGTCAAGCCGTTCGTCCGCTGGATCTGGTTCGGTGGCCTGCTG
ATGGGCCTCGGCGGCGCCCTGGCGGCGCTCGACCGGCGCTACCGGGTGAAGGTGAAAACACGTGTGCGCGAG
GCCCTGGGCCTCGCCGGTCAGGGAGCCTGA
Translation:
MIPELGHLALILALCLALVQSSLPLVGAWRGDRQWMSLARPAAWGQFAFLAFAFGCLTWAFLRDDFSVAYVA
GNSNSALPWYYKFSAVWGAHEGSLLLWALILGGWTFAVSIFSRQLPEVMLARVLAVMGMISTGFLLFLIITS
NPFSRLLPQTPMDGNDLNPLLQDVGLIVHPPMLYMGYVGFSVAFAFAIAALLGGRLDAAWARWSRPWTLVAW
AFLGIGIVLGSWWAYYELGWGGWWFWDPVENASFMPWLVGTALIHSLAVTEKRGVFKSWTVLLAIAAFSLSL
LGTFLVRSGVLTSVHAFASDPERGVFILAFLLLVVGGSLTLFALRAPVVKSQVGFALWSRETLLLLNNLVLV
VAASMILLGTLYPLLLDALSGAKLSVGPPYFNAMFLPLMAALMAALAVGVLVRWKDTPSRWLLGMLTPVLVA
SAVLAAAGSMYFGDFNWAVLAVFLLSAWVVLAGFRDFLDKTRHKGVLAGARSLTRSYWGMQLAHLGIAVCAI
GIVLSSQYSAQRDLRMSPGDTVELGGYHFLFDGAKHHEGPNYTSDKGSIHVSRDGKEIATLHPEKRLYTVQS
SMMTEAGIDAGFTRDLYVALGEPLENGAWAVRVHVKPFVRWIWFGGLLMGLGGALAALDRRYRVKVKTRVRE
ALGLAGQGA*
AnnotationID:350GeneID:341
AnnotatorUID: diggins
Modification Date/Time: 2005-02-24 17:05:52
Gene Name:ccmF
Confidence Code:2
GeneProduct:cytochrome C-type biogenesis protein CcmF
Cell Localization:()
Synonyms:cycK,yejR
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(12) Energy metabolism
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG1138
Secondary Functional Category(ies):posttranslational modification, protein turnover, chaperones
EC Number:
Status:ACTIVE
Pathway:






 
Homology:
>gb|AAO57101.1| (AE016869) cytochrome c-type biogenesis protein CcmF [Pseudomonas
           syringae pv. tomato str. DC3000]
          Length = 657

 Score = 1145 bits (2963), Expect = 0.0
 Identities = 550/654 (84%), Positives = 603/654 (92%)

>gb|AAN69901.1|AE016629_3 (AE016790) cytochrome c-type biogenesis protein CcmF [Pseudomonas
           putida KT2440]
          Length = 662

 Score = 1137 bits (2940), Expect = 0.0
 Identities = 546/657 (83%), Positives = 595/657 (90%)

>gb|AAC44226.1| (U44827) CycK [Pseudomonas fluorescens]
          Length = 660

 Score = 1135 bits (2935), Expect = 0.0
 Identities = 548/651 (84%), Positives = 598/651 (91%), Gaps = 1/651 (0%)






 
Structural Features:
COG1138, CcmF, Cytochrome c biogenesis factor 
[Posttranslational modification, protein turnover, chaperones]
CD-Length = 648 residues,  99.7% aligned
Score =  695 bits (1796), Expect = 0.0
Identities = 378/647 (58%), Positives = 459/647 (70%), Gaps = 4/647 (0%)






   
Genomic Context:






   
Comment:


















    ReferenceID:685




  
Author/Investigator(s):
        GenNotator





  
Title:
        




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:BLASTP 







    
Data:


    		




 
URL:

















    ReferenceID:17827




  
Author/Investigator(s):
        GenNotator





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:RPSBLAST 







    
Data:


    		




 
URL:

















    ReferenceID:37350




  
Author/Investigator(s):
        





  
Title:
        CDD Search




  
PubMed:
        


MedLine:
        




    
Source:






    
Reference Type:Misc (text/plain)







    
Data:341_cdd.html


    		




 
URL:

















    ReferenceID:37950




  
Author/Investigator(s):
        Tanapongpipat S, Reid E, Cole JA, Crooke H.





  
Title:
        Transcriptional control and essential roles of the Escherichia coli ccm gene products in formate-dependent nitrite reduction and cytochrome c synthesis.




  
PubMed:
        9716493


MedLine:
        




    
Source:
Biochem J. 1998 Sep 1;334 ( Pt 2):355-65.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=9716493

















    ReferenceID:37954




  
Author/Investigator(s):
        Thony-Meyer L, Fischer F, Kunzler P, Ritz D, Hennecke H.





  
Title:
        Escherichia coli genes required for cytochrome c maturation.




  
PubMed:
        7635817


MedLine:
        




    
Source:
J Bacteriol. 1995 Aug;177(15):4321-6.






    
Reference Type:Journal 







    
Data:


    		




 
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=7635817









           
Homologs By Global Alignment 

           

       



     
Gene ID:341
           
Identity:

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

                           

     
HomologID
                           Accession
                           Description
                           Length
                           PctIdentity
                           PctSimilarity
                           Gaps
                           Score
     

     
     
562
                           PA1480_tr
                           translation of PA1480
                           657
                           99.84
                           99.84
                           0
                           3419.0
     

     
     
27453
                           gb|AAG04869.1|AE004577_4
                           (AE004577) cytochrome C-type biogenesis protein CcmF [Pseudomonas aeruginosa PAO1]
                           657
                           99.84
                           99.84
                           0
                           3419.0
     

     
     
27454
                           gb|AAO57101.1|
                           (AE016869) cytochrome c-type biogenesis protein CcmF [Pseudomonas syringae pv. tomato str. DC3000]
                           657
                           83.71
                           91.78
                           0
                           2961.0
     

     
     
27456
                           gb|AAC44226.1|
                           (U44827) CycK [Pseudomonas fluorescens]
                           664
                           82.83
                           90.36
                           11
                           2936.0
     

     
     
27455
                           gb|AAN69901.1|AE016629_3
                           (AE016790) cytochrome c-type biogenesis protein CcmF [Pseudomonas putida KT2440]
                           662
                           82.47
                           89.87
                           5
                           2940.0
     

     






      

          
GC ORFID: 43343How Found: BLASTX

          
GC_TrimmedSeqID: 69Blast Result ID

          
Subject Sequence Name: t_PA1480Glimmer Score: 

          
Start: 914182Stop: 916155

          
Length: 1974


          
Start Codon: ATGTruncated Start:

          
Stop Codon: TGATruncated Stop: 

          
Homolog: t_PA1480 translation of PA1480Homolog Bit Score 1321.0

          
Other Homologs:  psyr_15may02_Scaffold13_revised_gene2230 (ORF: BLASTX 1133.0), t_PA1480 (ORF: GLIMMER)

          
GC ORF Sequence

           
ATGATCCCCGAACTCGGCCACCTGGCCCTGATCCTCGCCCTTTGCCTGGCCCTGGTGCAGTCGAGCCTGCCG 
CTGGTCGGCGCCTGGCGCGGCGACCGCCAGTGGATGAGCCTGGCGCGCCCAGCGGCCTGGGGGCAGTTCGCC 
TTCCTCGCCTTCGCCTTCGGCTGCCTGACCTGGGCCTTCCTGCGCGACGACTTCTCGGTGGCCTACGTGGCC 
GGCAACTCCAACAGCGCGCTGCCCTGGTACTACAAGTTCAGCGCCGTCTGGGGCGCCCACGAAGGTTCGCTG 
CTGCTCTGGGCGTTGATCCTCGGCGGCTGGACCTTCGCCGTGTCGATCTTCTCCCGGCAACTGCCGGAGGTC 
ATGCTGGCCCGCGTGCTGGCGGTGATGGGCATGATCAGCACCGGCTTCCTGCTGTTCCTGATCATCACCTCC 
AACCCGTTCAGCCGCCTGCTGCCGCAGACCCCGATGGACGGCAACGACCTCAACCCGCTGCTGCAGGACGTC 
GGCCTGATCGTCCACCCGCCGATGCTCTACATGGGGTACGTCGGATTCTCGGTGGCCTTCGCCTTCGCCATC 
GCCGCACTGCTCGGCGGCCGCCTGGACGCCGCCTGGGCGCGCTGGTCGCGGCCCTGGACCCTGGTGGCCTGG 
GCCTTCCTCGGTATCGGCATCGTGCTTGGCTCCTGGTGGGCCTACTACGAGCTGGGCTGGGGTGGCTGGTGG 
TTCTGGGACCCGGTGGAAAACGCCTCCTTCATGCCCTGGCTGGTCGGCACTGCACTGATCCACTCGCTGGCG 
GTGACCGAGAAGCGCGGCGTGTTCAAGAGCTGGACCGTGCTGCTGGCGATCGCCGCTTTCTCCCTGAGCCTG 
CTGGGCACCTTCCTGGTCCGCTCCGGCGTGCTCACCTCGGTGCACGCCTTCGCCTCCGACCCGGAGCGCGGG 
GTGTTCATCCTCGCCTTCCTGCTGCTGGTGGTCGGCGGCTCGCTGACCCTGTTCGCCCTGCGCGCGCCGGTG 
GTCAAGAGCCAGGTCGGCTTCGCCCTGTGGTCGCGCGAGACCCTGCTGCTGCTGAACAACCTGGTGCTGGTG 
GTGGCGGCCTCGATGATCCTCCTCGGGACTCTCTACCCGCTGCTGCTCGATGCCCTCAGCGGCGCCAAGCTG 
TCGGTCGGCCCGCCGTACTTCAACGCCATGTTCCTGCCGCTGATGGCGGCGCTGATGGCGGCCCTGGCGGTC 
GGCGTGCTGGTGCGCTGGAAGGACACCCCGAGCCGCTGGCTGCTCGGCATGCTGACCCCGGTGCTGGTGGCC 
AGCGCGGTCCTGGCGGCGGCCGGTTCGATGTACTTCGGCGATTTCAACTGGGCGGTGCTGGCGGTGTTCCTG 
CTGTCCGCCTGGGTGGTCCTGGCCGGTTTCCGCGACTTCCTCGACAAGACCCGGCACAAGGGCGTGCTGGCC 
GGCGCCCGCAGCCTGACGCGCAGCTACTGGGGCATGCAACTGGCGCACCTGGGCATCGCCGTGTGCGCCATC 
GGCATCGTCCTCAGCAGCCAGTACAGCGCCCAGCGTGACCTGCGCATGTCGCCCGGCGACACCGTCGAACTG 
GGCGGCTACCACTTCCTCTTCGACGGCGCGAAGCACCACGAAGGGCCGAACTACACCTCGGACAAGGGCAGC 
ATCCACGTCAGCCGCGACGGCAAGGAGATCGCCACCCTGCATCCGGAGAAGCGCCTGTACACCGTGCAGAGT 
TCGATGATGACCGAGGCCGGGATCGATGCCGGCTTTACCCGCGACCTCTACGTGGCGCTCGGCGAGCCGCTG 
GAGAACGGTGCCTGGGCGGTGCGCGTGCACGTCAAGCCGTTCGTCCGCTGGATCTGGTTCGGTGGCCTGCTG 
ATGGGCCTCGGCGGCGCCCTGGCGGCGCTCGACCGGCGCTACCGGGTGAAGGTGAAAACACGTGTGCGCGAG 
GCCCTGGGCCTCGCCGGTCAGGGAGCCTGA