ViewGene

Locus Name:
GeneID:
Location:

GeneID:5117
TrivialName: PA14_08960
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_08960
PAO1 Ortholog Locus:PA4252
Sequence Length:315
Protein Length:104
Start: 764565
Stop: 764879
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07640.1|AE004841_18 (AE004841) 50S ribosomal protein L24 [Pseudomonas aeruginosa PAO1]
Identities = 104/104 (100%), Positives = 104/104 (100%)
Sequence:
ATGCAAAAGATTCGTCGTGACGACGAAGTAATCGTCATTGCCGGCAAGGACAAGGGCAAGCGTGGCAAGGTG
CTGAAGGTTCTCGCTGACGACCGTCTGGTCGTCGGCGGGGTGAACCTGATCAAGCGCCACACCAAGCCCAAT
CCGATGCTCGGCCAACAGGGCGGTATCGTCGAGAAGGAGGCGCCTCTGCACGTCTCCAACGTCGCCATCTTC
AATACTGAAACCAGCAAGGCTGACCGCGTTGGCTTCAAGGTAGAAGACGGTAAGAAAATTCGTGTCTTCAAG
TCGACCCAGAAACCGGTTCAGGCTTGA
Translation:
MQKIRRDDEVIVIAGKDKGKRGKVLKVLADDRLVVGGVNLIKRHTKPNPMLGQQGGIVEKEAPLHVSNVAIF
NTETSKADRVGFKVEDGKKIRVFKSTQKPVQA*
AnnotationID:5122GeneID:5117
AnnotatorUID: diggins
Modification Date/Time: 2005-04-03 11:11:26
Gene Name:rplX
Confidence Code:2
GeneProduct:50S ribosomal protein L24
Cell Localization:()
Synonyms:
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(26) Translation, post-translational modification, degradation
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG0198
Secondary Functional Category(ies):translation, ribosomal structure and biogenesis
EC Number:
Status:ACTIVE
Pathway:
Homology:
>gb|AAN66095.1|AE016238_13 (AE016775) ribosomal protein L24 [Pseudomonas putida KT2440]
          Length = 104

 Score =  189 bits (480), Expect = 3e-48
 Identities = 94/104 (90%), Positives = 98/104 (94%)

>gb|AAO54179.1| (AE016858) ribosomal protein L24 [Pseudomonas syringae pv. tomato
           str. DC3000]
          Length = 104

 Score =  186 bits (473), Expect = 2e-47
 Identities = 93/104 (89%), Positives = 97/104 (93%)

>gb|AAO71543.1| (AE016848) 50S ribosomal subunit protein L24 [Salmonella enterica
           subsp. enterica serovar Typhi Ty2]
          Length = 104

 Score =  140 bits (353), Expect = 1e-33
 Identities = 67/101 (66%), Positives = 81/101 (80%)

Structural Features:
COG0198, RplX, Ribosomal protein L24 
[Translation, ribosomal structure and biogenesis]
CD-Length = 104 residues,  99.0% aligned
Score = 83.4 bits (206), Expect = 5e-18
Identities = 56/105 (53%), Positives = 74/105 (70%), Gaps = 4/105 (3%)
Genomic Context:
Comment:
ReferenceID:10234
Author/Investigator(s): GenNotator
Title:
PubMed:
MedLine:
Source:
Reference Type:BLASTP
Data:
URL:
ReferenceID:27378
Author/Investigator(s): GenNotator
Title: CDD Search
PubMed:
MedLine:
Source:
Reference Type:RPSBLAST
Data:
URL:
ReferenceID:36535
Author/Investigator(s):
Title: CDD Search
PubMed:
MedLine:
Source:
Reference Type:Misc (text/plain)
Data:5117_cdd.html
URL:
ReferenceID:36727
Author/Investigator(s): Cerretti DP, Dean D, Davis GR, Bedwell DM, Nomura M.
Title: The spc ribosomal protein operon of Escherichia coli: sequence and cotranscription of the ribosomal protein genes and a protein export gene.
PubMed: 6222285
MedLine:
Source:
Nucleic Acids Res. 1983 May 11;11(9):2599-616.
Reference Type:Journal
Data:
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=6222285
ReferenceID:36730
Author/Investigator(s): Sharp PM, Nolan NC, ni Cholmain N, Devine KM.
Title: DNA sequence variability at the rplX locus of Bacillus subtilis.
PubMed: 1556555
MedLine:
Source:
J Gen Microbiol. 1992 Jan;138 ( Pt 1):39-45.
Reference Type:Journal
Data:
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=1556555
ReferenceID:36750
Author/Investigator(s): Wittmann-Liebold B.
Title: rimary structure of protein L24 from the Escherichia coli ribosome.
PubMed: 391595
MedLine:
Source:
FEBS Lett. 1979 Dec 1;108(1):75-80.
Reference Type:Journal
Data:
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=80092112&dopt=Abstract
Homologs By Global Alignment
Gene ID:5117

Identity:

0% 10% 20% 30% 40% 50% 60% 70% 80% 90% 100%
HomologID Accession Description Length PctIdentity PctSimilarity Gaps Score
7525 PA4252_tr translation of PA4252 104 99.99 99.99 0 522.0
193411 gb|AAG07640.1|AE004841_18 (AE004841) 50S ribosomal protein L24 [Pseudomonas aeruginosa PAO1] 104 99.99 99.99 0 522.0
193412 gb|AAN66095.1|AE016238_13 (AE016775) ribosomal protein L24 [Pseudomonas putida KT2440] 104 90.38 94.23 0 480.0
193413 gb|AAO54179.1| (AE016858) ribosomal protein L24 [Pseudomonas syringae pv. tomato str. DC3000] 104 89.42 93.26 0 473.0
193416 gb|AAN53327.1|AE015473_14 (AE015473) ribosomal protein L24 [Shewanella oneidensis MR-1] 105 64.76 76.19 2 350.0
GC ORFID: 48119How Found: BLASTX
GC_TrimmedSeqID: 69Blast Result ID
Subject Sequence Name: t_PA4252Glimmer Score:
Start: 4189374Stop: 4189060
Length: 315
Start Codon: ATGTruncated Start:
Stop Codon: TGATruncated Stop:
Homolog: t_PA4252 translation of PA4252Homolog Bit Score 205.0
Other Homologs: psyr_15may02_Scaffold4_revised_gene5196 (ORF: BLASTX 186.0), t_PA4252 (ORF: GLIMMER)
GC ORF Sequence
ATGCAAAAGATTCGTCGTGACGACGAAGTAATCGTCATTGCCGGCAAGGACAAGGGCAAGCGTGGCAAGGTG
CTGAAGGTTCTCGCTGACGACCGTCTGGTCGTCGGCGGGGTGAACCTGATCAAGCGCCACACCAAGCCCAAT
CCGATGCTCGGCCAACAGGGCGGTATCGTCGAGAAGGAGGCGCCTCTGCACGTCTCCAACGTCGCCATCTTC
AATACTGAAACCAGCAAGGCTGACCGCGTTGGCTTCAAGGTAGAAGACGGTAAGAAAATTCGTGTCTTCAAG
TCGACCCAGAAACCGGTTCAGGCTTGA