ViewGene

Locus Name:
GeneID:
Location:

GeneID:4351
TrivialName: PA14_09020
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_09020
PAO1 Ortholog Locus:PA4246
Sequence Length:501
Protein Length:166
Start: 767249
Stop: 767749
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG07634.1|AE004841_12 (AE004841) 30S ribosomal protein S5 [Pseudomonas aeruginosa PAO1]
Identities = 166/166 (100%), Positives = 166/166 (100%)
Sequence:
ATGGCAAACAACGAGCAAAAGCGCGACGAAGGCTACATCGAGAAGCTGGTTCAGGTTAACCGCGTCGCCAAA
ACCGTAAAAGGTGGCCGTATCTTCGCTTTCACCGCACTGACCGTGGTGGGTGATGGCAAGGGTCGCGTTGGT
TTCGGTCGTGGCAAGGCGCGTGAAGTGCCGGCCGCCATCCAGAAAGCAATGGAAGCCGCTCGCCGCAACATG
ATCCAAGTCGATCTGAACGGCACCACCCTGCAGTATCCGACCAAGTCCGCCCATGGCGCCTCCAAGGTGTAC
ATGCAGCCGGCTTCGGAAGGTACCGGCATCATCGCCGGCGGCGCCATGCGTGCCGTTCTGGAAGTGGCTGGT
GTGCAGAACGTCCTGGCCAAGTGCTATGGCTCCACCAATCCGGTGAACGTGGTTTACGCCACCTTCAAGGGC
CTGAAGAACATGCAGGCTCCGGAAGCAGTAGCGGCCAAGCGTGGCAAGAGCGTCGAGGAGATTCTCTAA
Translation:
MANNEQKRDEGYIEKLVQVNRVAKTVKGGRIFAFTALTVVGDGKGRVGFGRGKAREVPAAIQKAMEAARRNM
IQVDLNGTTLQYPTKSAHGASKVYMQPASEGTGIIAGGAMRAVLEVAGVQNVLAKCYGSTNPVNVVYATFKG
LKNMQAPEAVAAKRGKSVEEIL*
AnnotationID:4357GeneID:4351
AnnotatorUID: diggins
Modification Date/Time: 2005-04-02 22:10:53
Gene Name:rpsE
Confidence Code:2
GeneProduct:30S ribosomal protein S5
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:COG0098,pfam03719,pfam00333
Secondary Functional Category(ies):translation, ribosomal structure and biogenesis
EC Number:
Status:ACTIVE
Pathway:
Homology:
>gb|AAN66101.1|AE016238_19 (AE016775) ribosomal protein S5 [Pseudomonas putida KT2440]
          Length = 166

 Score =  306 bits (784), Expect = 3e-83
 Identities = 155/165 (93%), Positives = 161/165 (97%)

>gb|AAO54185.1| (AE016858) ribosomal protein S5 [Pseudomonas syringae pv. tomato
           str. DC3000]
          Length = 166

 Score =  302 bits (773), Expect = 6e-82
 Identities = 152/166 (91%), Positives = 161/166 (96%)

>gb|AAP19378.1| (AE016992) 30S ribosomal subunit protein S5 [Shigella flexneri 2a
           str. 2457T]
          Length = 167

 Score =  241 bits (616), Expect = 1e-63
 Identities = 128/166 (77%), Positives = 140/166 (84%), Gaps = 1/166 (0%)
Structural Features:
COG0098, RpsE, Ribosomal protein S5 [Translation, ribosomal structure and biogenesis]
CD-Length = 181 residues,  90.1% aligned
Score =  206 bits (527), Expect = 8e-55
Identities = 97/163 (59%), Positives = 125/163 (76%), Gaps = 1/163 (0%)

pfam03719, Ribosomal_S5_C, Ribosomal protein S5, C-terminal domain.
CD-Length = 74 residues, 100.0% aligned
Score = 86.5 bits (214), Expect = 1e-18
Identities = 37/74 (50%), Positives = 50/74 (67%)

pfam00333, Ribosomal_S5, Ribosomal protein S5, N-terminal domain.
CD-Length = 67 residues,  95.5% aligned
Score = 81.0 bits (200), Expect = 6e-17
Identities = 36/64 (56%), Positives = 48/64 (75%)
Genomic Context:
Comment:
ReferenceID:8703
Author/Investigator(s): GenNotator
Title:
PubMed:
MedLine:
Source:
Reference Type:BLASTP
Data:
URL:
ReferenceID:25846
Author/Investigator(s): GenNotator
Title: CDD Search
PubMed:
MedLine:
Source:
Reference Type:RPSBLAST
Data:
URL:
ReferenceID:36629
Author/Investigator(s):
Title: CDD Search
PubMed:
MedLine:
Source:
Reference Type:Misc (text/plain)
Data:4351_cdd.html
URL:
ReferenceID:36721
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:36754
Author/Investigator(s): Wittmann-Liebold B, Greuer B.
Title: The primary structure of protein S5 from the small subunit of the Escherichia coli ribosome.
PubMed: 363452
MedLine:
Source:
FEBS Lett. 1978 Nov 1;95(1):91-8.
Reference Type:Journal
Data:
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=79065493&dopt=Abstract
Homologs By Global Alignment
Gene ID:4351

Identity:

0% 10% 20% 30% 40% 50% 60% 70% 80% 90% 100%
HomologID Accession Description Length PctIdentity PctSimilarity Gaps Score
6685 PA4246_tr translation of PA4246 166 99.99 99.99 0 830.0
179658 gb|AAG07634.1|AE004841_12 (AE004841) 30S ribosomal protein S5 [Pseudomonas aeruginosa PAO1] 166 99.99 99.99 0 830.0
179659 gb|AAN66101.1|AE016238_19 (AE016775) ribosomal protein S5 [Pseudomonas putida KT2440] 166 93.37 96.98 0 784.0
179660 gb|AAO54185.1| (AE016858) ribosomal protein S5 [Pseudomonas syringae pv. tomato str. DC3000] 166 91.56 96.98 0 773.0
179668 gb|AAG58424.1|AE005556_17 (AE005556) 30S ribosomal subunit protein S5 [Escherichia coli O157:H7 EDL933] 168 76.19 83.33 3 618.0
GC ORFID: 47353How Found: BLASTX
GC_TrimmedSeqID: 69Blast Result ID
Subject Sequence Name: t_PA4246Glimmer Score:
Start: 4186690Stop: 4186190
Length: 501
Start Codon: ATGTruncated Start:
Stop Codon: TAATruncated Stop:
Homolog: t_PA4246 translation of PA4246Homolog Bit Score 324.0
Other Homologs: psyr_15may02_Scaffold4_revised_gene5204 (ORF: BLASTX 302.0), t_PA4246 (ORF: GLIMMER)
GC ORF Sequence
ATGGCAAACAACGAGCAAAAGCGCGACGAAGGCTACATCGAGAAGCTGGTTCAGGTTAACCGCGTCGCCAAA
ACCGTAAAAGGTGGCCGTATCTTCGCTTTCACCGCACTGACCGTGGTGGGTGATGGCAAGGGTCGCGTTGGT
TTCGGTCGTGGCAAGGCGCGTGAAGTGCCGGCCGCCATCCAGAAAGCAATGGAAGCCGCTCGCCGCAACATG
ATCCAAGTCGATCTGAACGGCACCACCCTGCAGTATCCGACCAAGTCCGCCCATGGCGCCTCCAAGGTGTAC
ATGCAGCCGGCTTCGGAAGGTACCGGCATCATCGCCGGCGGCGCCATGCGTGCCGTTCTGGAAGTGGCTGGT
GTGCAGAACGTCCTGGCCAAGTGCTATGGCTCCACCAATCCGGTGAACGTGGTTTACGCCACCTTCAAGGGC
CTGAAGAACATGCAGGCTCCGGAAGCAGTAGCGGCCAAGCGTGGCAAGAGCGTCGAGGAGATTCTCTAA