ViewGene

Locus Name:
GeneID:
Location:

GeneID:2392
TrivialName: PA14_42610
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_42610
PAO1 Ortholog Locus:PA1694
Sequence Length:930
Protein Length:309
Start: 3790665
Stop: 3791594
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG05083.1|AE004596_9 (AE004596) translocation protein in type III secretion [Pseudomonas aeruginosa PAO1]
Identities = 305/309 (98%), Positives = 306/309 (99%)
Sequence:
ATGAACGGTGCGGACCTCGACCTGCCGCTCGCCAGCCGCGCCGAACTGGATCTCCAGCGACGTCTCGCACGT
TGCCGTCGCCACTATGTCGGCAACGCTTTGCAAGCGCGCCTGGACATCGCCCAGGCCGCCCCCGACGTCGAT
CTCGAACTGAGCCTGGCGTGGGACGGCCTGCCCCTGCGCTTTCTCTGCCAGGCCCCGGCGCTGGCCCGCTGG
CTCGCGCCGAACCTGCAGGAGGCAGCCTTCGCCAGCCTGCCGGCGGCCCTGCAACTGGCCTTGCTGGAGCGC
GAAGGCAACGTCTTTCCCGGCCTGGTCTGGTACGGCCTGAGCCCGGCGCAACCACGCGCTGCGATGGGCCTG
CGCCTGAGCCTGGAACGCGACGACCAGCGCCTGGCGCTCTGGCTCGACGGCGATCCCGCGACGCTGCTGGCA
CGCCTGCCGCCGCGCCCCTCGGCGCAACGCCTGGCCATACCGCTGCGCCTGTCGCTGCAATGGCCCGGCCTG
CCGCTGGAGGCCGGCGAGCTGCGCACCCTGGAGCCCGGCGACCTGTTGCTGCTGCCTGCCGGCCATCGCCCC
GACGCAGCGCTGCTGGGGGTTCTCGAAGGACGCCCCTGGGCGCGCTGCCAACTCCACTCCACGCAACTGGAA
CTGCTCGACATGCACGACACCCCCTCCCTCGCCGACAGCGAGGACCTGCACGAACTCGACCAACTGCCGATC
CCGGTCAGCTTCGAGGTCGGCCGCCGCACCCTGGACCTGCATACCCTCTCGACCCTGCAGCCAGGCTCGCTG
CTCGATCTCGACTGTGCCCTGGACGGCGAAGTGCGCATCCTCGCCAACCAGCGCTGCCTCGGTATCGGCGAA
CTGGTGAGGCTCCAGGACCGGCTCGGGGTGCGCGTAACCCGTCTGTTCGGACACGACGAAGCATGA
Translation:
MNGADLDLPLASRAELDLQRRLARCRRHYVGNALQARLDIAQAAPDVDLELSLAWDGLPLRFLCQAPALARW
LAPNLQEAAFASLPAALQLALLEREGNVFPGLVWYGLSPAQPRAAMGLRLSLERDDQRLALWLDGDPATLLA
RLPPRPSAQRLAIPLRLSLQWPGLPLEAGELRTLEPGDLLLLPAGHRPDAALLGVLEGRPWARCQLHSTQLE
LLDMHDTPSLADSEDLHELDQLPIPVSFEVGRRTLDLHTLSTLQPGSLLDLDCALDGEVRILANQRCLGIGE
LVRLQDRLGVRVTRLFGHDEA*
AnnotationID:2400GeneID:2392
AnnotatorUID: diggins
Modification Date/Time: 2005-02-28 06:06:27
Gene Name:pscQ
Confidence Code:2
GeneProduct:translocation protein in type III secretion
Cell Localization:()
Synonyms:yscQ
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(19) Protein secretion/export apparatus
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:COG1886,pfam01052
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:
Homology:
>gb|AAO18041.1| (AY144116) LscQ [Photorhabdus luminescens]
          Length = 309

 Score =  248 bits (634), Expect = 2e-65
 Identities = 147/303 (48%), Positives = 183/303 (60%), Gaps = 6/303 (1%)

>gb|AAN37558.1| (AY150843) YscQ [Yersinia enterocolitica]
          Length = 307

 Score =  217 bits (552), Expect = 8e-56
 Identities = 124/299 (41%), Positives = 177/299 (59%), Gaps = 2/299 (0%)

>gb|AAC69788.1| (AF074612) type III secretion protein [Yersinia pestis KIM]
          Length = 307

 Score =  211 bits (538), Expect = 3e-54
 Identities = 122/299 (40%), Positives = 175/299 (58%), Gaps = 2/299 (0%)
Structural Features:
COG1886, FliN, Flagellar motor switch/type III secretory pathway protein 
[Cell motility and secretion / Intracellular trafficking and secretion]
CD-Length = 136 residues, 100.0% aligned
Score = 89.3 bits (221), Expect = 5e-19
Identities = 39/165 (23%), Positives = 58/165 (35%), Gaps = 29/165 (17%)

pfam01052, SpoA, Surface presentation of antigens (SPOA) protein.
CD-Length = 77 residues, 100.0% aligned
Score = 72.1 bits (177), Expect = 8e-14
Identities = 31/77 (40%), Positives = 42/77 (54%)
Genomic Context:
Comment:
ReferenceID:4787
Author/Investigator(s): GenNotator
Title:
PubMed:
MedLine:
Source:
Reference Type:BLASTP
Data:
URL:
ReferenceID:21933
Author/Investigator(s): GenNotator
Title: CDD Search
PubMed:
MedLine:
Source:
Reference Type:RPSBLAST
Data:
URL:
ReferenceID:37253
Author/Investigator(s):
Title: CDD Search
PubMed:
MedLine:
Source:
Reference Type:Misc (text/plain)
Data:2392_cdd.html
URL:
ReferenceID:37858
Author/Investigator(s): Bergman T, Erickson K, Galyov E, Persson C, Wolf-Watz H.
Title: The lcrB (yscN/U) gene cluster of Yersinia pseudotuberculosis is involved in Yop secretion and shows high homology to the spa gene clusters of Shigella flexneri and Salmonella typhimurium.
PubMed: 8169210
MedLine:
Source:
J Bacteriol. 1994 May;176(9):2619-26.
Reference Type:Journal
Data:
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=8169210
ReferenceID:37868
Author/Investigator(s): Fields KA, Plano GV, Straley SC.
Title: A low-Ca2+ response (LCR) secretion (ysc) locus lies within the lcrB region of the LCR plasmid in Yersinia pestis.
PubMed: 8300512
MedLine:
Source:
J Bacteriol. 1994 Feb;176(3):569-79.
Reference Type:Journal
Data:
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=8300512
Homologs By Global Alignment
Gene ID:2392

Identity:

0% 10% 20% 30% 40% 50% 60% 70% 80% 90% 100%
HomologID Accession Description Length PctIdentity PctSimilarity Gaps Score
4042 PA1694_tr translation of PA1694 309 98.70 99.02 0 1570.0
121413 gb|AAG05083.1|AE004596_9 (AE004596) translocation protein in type III secretion [Pseudomonas aeruginosa PAO1] 309 98.70 99.02 0 1570.0
121414 gb|AAO18041.1| (AY144116) LscQ [Photorhabdus luminescens] 313 47.60 59.74 8 640.0
121415 emb|CAD56763.1| (AJ516008) ascQ protein [Aeromonas salmonicida subsp. salmonicida] 314 47.13 59.55 11 611.0
121416 emb|CAE16142.1| (BX571871) Type III secretion component protein SctQ [Photorhabdus luminescens subsp. laumondii TTO1] 313 46.00 58.14 7 607.0
GC ORFID: 45394How Found: BLASTX
GC_TrimmedSeqID: 69Blast Result ID
Subject Sequence Name: t_PA1694Glimmer Score:
Start: 1163244Stop: 1162315
Length: 930
Start Codon: ATGTruncated Start:
Stop Codon: TGATruncated Stop:
Homolog: t_PA1694 translation of PA1694Homolog Bit Score 609.0
Other Homologs: t_PA1694 (ORF: GLIMMER)
GC ORF Sequence
ATGAACGGTGCGGACCTCGACCTGCCGCTCGCCAGCCGCGCCGAACTGGATCTCCAGCGACGTCTCGCACGT
TGCCGTCGCCACTATGTCGGCAACGCTTTGCAAGCGCGCCTGGACATCGCCCAGGCCGCCCCCGACGTCGAT
CTCGAACTGAGCCTGGCGTGGGACGGCCTGCCCCTGCGCTTTCTCTGCCAGGCCCCGGCGCTGGCCCGCTGG
CTCGCGCCGAACCTGCAGGAGGCAGCCTTCGCCAGCCTGCCGGCGGCCCTGCAACTGGCCTTGCTGGAGCGC
GAAGGCAACGTCTTTCCCGGCCTGGTCTGGTACGGCCTGAGCCCGGCGCAACCACGCGCTGCGATGGGCCTG
CGCCTGAGCCTGGAACGCGACGACCAGCGCCTGGCGCTCTGGCTCGACGGCGATCCCGCGACGCTGCTGGCA
CGCCTGCCGCCGCGCCCCTCGGCGCAACGCCTGGCCATACCGCTGCGCCTGTCGCTGCAATGGCCCGGCCTG
CCGCTGGAGGCCGGCGAGCTGCGCACCCTGGAGCCCGGCGACCTGTTGCTGCTGCCTGCCGGCCATCGCCCC
GACGCAGCGCTGCTGGGGGTTCTCGAAGGACGCCCCTGGGCGCGCTGCCAACTCCACTCCACGCAACTGGAA
CTGCTCGACATGCACGACACCCCCTCCCTCGCCGACAGCGAGGACCTGCACGAACTCGACCAACTGCCGATC
CCGGTCAGCTTCGAGGTCGGCCGCCGCACCCTGGACCTGCATACCCTCTCGACCCTGCAGCCAGGCTCGCTG
CTCGATCTCGACTGTGCCCTGGACGGCGAAGTGCGCATCCTCGCCAACCAGCGCTGCCTCGGTATCGGCGAA
CTGGTGAGGCTCCAGGACCGGCTCGGGGTGCGCGTAACCCGTCTGTTCGGACACGACGAAGCATGA