ViewGene

Locus Name:
GeneID:
Location:

GeneID:904
TrivialName: PA14_67680
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_67680
PAO1 Ortholog Locus:PA5125
Sequence Length:1431
Protein Length:476
Start: 6045630
Stop: 6047060
Strand: +
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG08510.1|AE004925_8 (AE004925) two-component response regulator NtrC [Pseudomonas aeruginosa PAO1]
Identities = 476/476 (100%), Positives = 476/476 (100%)
Sequence:
ATGAGCCGATCAGAGACCGTCTGGATCGTCGACGACGACCGCTCCATCCGCTGGGTACTGGAAAAGGCCCTG
CAGCAGGAAGGCATGACCACGGTGAGCTTCGACAGCGCCGACAGCGTGATCGGCCGCCTCGGCCGGCAGCAG
CCGGACGTGATCATCTCCGATATCCGCATGCCCGGCGCCAGCGGCCTCGACCTGCTGGCGCAGATCCGCGAA
CTGCATCCGCGCCTACCGGTGATCATCATGACCGCGCATTCCGACCTCGACAGCGCGGTGGCCTCCTACCAG
GGCGGCGCCTTCGAATACCTGCCCAAGCCGTTCGACGTCGACGAGGCGGTCTCCCTGGTCAAGCGCGCCAAC
CAGCACGCCCAAGAGCAGCAGGGCCTGGAGCTGCCGGCGAACCAGGCGCGCACGCCGGAGATCATCGGCGAG
GCGCCGGCGATGCAGGAGGTATTCCGCGCCATCGGCCGCCTCAGCCATTCCAACATCACCGTGCTGATCAAC
GGCGAATCGGGTACCGGCAAGGAGCTGGTCGCCCATGCCCTGCATCGCCACAGCCCGCGCGCAGCCTCGCCA
TTCATCGCGCTGAACATGGCGGCGATCCCCAAGGACCTGATGGAATCCGAGCTGTTCGGCCATGAGAAGGGC
GCCTTCACCGGGGCCGCCGCCCAGCGCCGCGGACGCTTCGAGCAGGCCGATGGCGGCACCCTGTTCCTCGAC
GAGATCGGCGACATGCCGGCCGACACCCAGACCCGCCTGCTGCGCGTCCTGGCCGACGGCGAGTTCTACCGG
GTCGGCGGGCACACGCCGGTGAAGGTCGACGTGAGGATCATCGCCGCCACCCACCAGAACCTGGAAAGCCTG
GTGCGCGACGGCAAGTTCCGCGAGGACCTGTTCCATCGCCTGAACGTGATCCGCATCCACATCCCGCGGCTG
GCCGACCGCCGCGAGGACATCCCGGCGCTGGCCCGGCACTTCCTCAGCCGCGCCGCCCAGGAGCTGGCGGTG
GAACCCAAGCTGCTGAAGGCGGAAACCGAGGAGTACCTGAAGAACCTCGGCTGGCCGGGCAACGTCCGACAA
CTGGAGAACACCTGCCGCTGGATCACCGTGATGGCCTCCGGCCGCGAGGTGCACATCGACGACCTGCCGCCG
GAGCTGCTGACCCAGCCGCAGGACAGCGCGCCGGCGGCGAACTGGGAACAGGCCCTGCGCCAGTGGGCCGAC
CAGGCGCTGGGCCGCGGCCAGTCGAACCTGCTGGACAGCGCCGTGCCGGCCTTCGAACGGATCATGATAGAA
ACCGCCCTCAAGCACACCGCCGGCCGCCGCCGCGATGCCGCCGTGCTGCTCGGCTGGGGCCGCAATACCCTC
ACCCGCAAGATCAAGGAGCTGGGGATGAACGTCGATGGAGCCGACGACGAAGGCGACGACTGA
Translation:
MSRSETVWIVDDDRSIRWVLEKALQQEGMTTVSFDSADSVIGRLGRQQPDVIISDIRMPGASGLDLLAQIRE
LHPRLPVIIMTAHSDLDSAVASYQGGAFEYLPKPFDVDEAVSLVKRANQHAQEQQGLELPANQARTPEIIGE
APAMQEVFRAIGRLSHSNITVLINGESGTGKELVAHALHRHSPRAASPFIALNMAAIPKDLMESELFGHEKG
AFTGAAAQRRGRFEQADGGTLFLDEIGDMPADTQTRLLRVLADGEFYRVGGHTPVKVDVRIIAATHQNLESL
VRDGKFREDLFHRLNVIRIHIPRLADRREDIPALARHFLSRAAQELAVEPKLLKAETEEYLKNLGWPGNVRQ
LENTCRWITVMASGREVHIDDLPPELLTQPQDSAPAANWEQALRQWADQALGRGQSNLLDSAVPAFERIMIE
TALKHTAGRRRDAAVLLGWGRNTLTRKIKELGMNVDGADDEGDD*
AnnotationID:913GeneID:904
AnnotatorUID: diggins
Modification Date/Time: 2005-03-15 09:09:55
Gene Name:ntrC
Confidence Code:2
GeneProduct:two-component response regulator NtrC
Cell Localization:()
Synonyms:glnG
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(28) Two-component regulatory systems
Alternate Gene Product Name:itrogen regulation protein NR(I)
Functional Category Confidence Code:5
COGs:COG2204,pfam00158,COG1221
Secondary Functional Category(ies):transcriptional regulator
EC Number:
Status:ACTIVE
Pathway:
Homology:
>gb|AAO53896.1| (AE016857) nitrogen regulation protein NR(I) [Pseudomonas syringae
           pv. tomato str. DC3000]
          Length = 478

 Score =  867 bits (2240), Expect = 0.0
 Identities = 436/476 (91%), Positives = 451/476 (94%)

>gb|AAN70613.1|AE016704_4 (AE016793) two-component response regulator NtrC [Pseudomonas
           putida KT2440]
          Length = 478

 Score =  866 bits (2237), Expect = 0.0
 Identities = 437/477 (91%), Positives = 452/477 (94%), Gaps = 1/477 (0%)

>emb|CAC79244.1| (AJ320536) nitrogen regulation protein C [Pseudomonas stutzeri]
          Length = 478

 Score =  843 bits (2179), Expect = 0.0
 Identities = 423/477 (88%), Positives = 448/477 (93%), Gaps = 1/477 (0%)
Structural Features:
COG2204, AtoC, Response regulator containing CheY-like receiver, AAA-type ATPase, 
and DNA-binding domains 
[Signal transduction mechanisms]
CD-Length = 464 residues,  98.9% aligned
Score =  537 bits (1384), Expect = 1e-153
Identities = 227/470 (48%), Positives = 311/470 (66%), Gaps = 13/470 (2%)

pfam00158, Sigma54_activat, Sigma-54 interaction domain.
CD-Length = 222 residues, 100.0% aligned
Score =  319 bits (819), Expect = 5e-88
Identities = 137/222 (61%), Positives = 172/222 (77%)

COG1221, PspF, Transcriptional regulators containing an AAA-type ATPase domain 
and a DNA-binding domain 
[Transcription / Signal transduction mechanisms]
CD-Length = 403 residues,  87.8% aligned
Score =  275 bits (704), Expect = 9e-75
Identities = 142/362 (39%), Positives = 199/362 (54%), Gaps = 9/362 (2%)

Genomic Context:
Comment:
ReferenceID:1811
Author/Investigator(s): GenNotator
Title:
PubMed:
MedLine:
Source:
Reference Type:BLASTP
Data:
URL:
ReferenceID:18953
Author/Investigator(s): GenNotator
Title: CDD Search
PubMed:
MedLine:
Source:
Reference Type:RPSBLAST
Data:
URL:
ReferenceID:34935
Author/Investigator(s):
Title: CDD Search
PubMed:
MedLine:
Source:
Reference Type:Misc (text/plain)
Data:904_cdd.html
URL:
ReferenceID:35794
Author/Investigator(s): Backman K, Chen YM, Magasanik B.
Title: Physical and genetic characterization of the glnA--glnG region of the Escherichia coli chromosome.
PubMed: 6115384
MedLine:
Source:
Proc Natl Acad Sci U S A. 1981 Jun;78(6):3743-7.
Reference Type:Journal
Data:
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=6115384
ReferenceID:35795
Author/Investigator(s): Miranda-Rios J, Sanchez-Pescador R, Urdea M, Covarrubias AA.
Title: The complete nucleotide sequence of the glnALG operon of Escherichia coli K12.
PubMed: 2882477
MedLine:
Source:
Nucleic Acids Res. 1987 Mar 25;15(6):2757-70.
Reference Type:Journal
Data:
URL:http://www.pubmedcentral.nih.gov/articlerender.fcgi?tool=pubmed&pubmedid=2882477
Homologs By Global Alignment
Gene ID:904

Identity:

0% 10% 20% 30% 40% 50% 60% 70% 80% 90% 100%
HomologID Accession Description Length PctIdentity PctSimilarity Gaps Score
1605 PA5125_tr translation of PA5125 476 99.99 99.99 0 2439.0
58010 gb|AAG08510.1|AE004925_8 (AE004925) two-component response regulator NtrC [Pseudomonas aeruginosa PAO1] 476 99.99 99.99 0 2439.0
58012 gb|AAN70613.1|AE016704_4 (AE016793) two-component response regulator NtrC [Pseudomonas putida KT2440] 478 91.42 94.56 2 2239.0
58011 gb|AAO53896.1| (AE016857) nitrogen regulation protein NR(I) [Pseudomonas syringae pv. tomato str. DC3000] 478 91.21 94.35 2 2240.0
58013 emb|CAC79244.1| (AJ320536) nitrogen regulation protein C [Pseudomonas stutzeri] 478 88.49 93.72 2 2181.0
GC ORFID: 43906How Found: BLASTX
GC_TrimmedSeqID: 69Blast Result ID
Subject Sequence Name: t_PA5125Glimmer Score:
Start: 5309315Stop: 5310745
Length: 1431
Start Codon: ATGTruncated Start:
Stop Codon: TGATruncated Stop:
Homolog: t_PA5125 translation of PA5125Homolog Bit Score 944.0
Other Homologs: psyr_15may02_Scaffold6_revised_gene6894 (ORF: BLASTX 867.0), psyr_15may02_Scaffold15_revised_gene2516 (ORF: BLASTX 299.0), psyr_15may02_Scaffold1_revised_gene1290 (ORF: BLASTX 227.0), t_PA4726 (ORF: BLASTX 201.0), t_PA1097 (ORF: BLASTX 192.0), t_PA5511 (ORF: BLASTX 176.0), t_PA2005 (ORF: BLASTX 176.0), t_PA5125 (ORF: GLIMMER)
GC ORF Sequence
ATGAGCCGATCAGAGACCGTCTGGATCGTCGACGACGACCGCTCCATCCGCTGGGTACTGGAAAAGGCCCTG
CAGCAGGAAGGCATGACCACGGTGAGCTTCGACAGCGCCGACAGCGTGATCGGCCGCCTCGGCCGGCAGCAG
CCGGACGTGATCATCTCCGATATCCGCATGCCCGGCGCCAGCGGCCTCGACCTGCTGGCGCAGATCCGCGAA
CTGCATCCGCGCCTACCGGTGATCATCATGACCGCGCATTCCGACCTCGACAGCGCGGTGGCCTCCTACCAG
GGCGGCGCCTTCGAATACCTGCCCAAGCCGTTCGACGTCGACGAGGCGGTCTCCCTGGTCAAGCGCGCCAAC
CAGCACGCCCAAGAGCAGCAGGGCCTGGAGCTGCCGGCGAACCAGGCGCGCACGCCGGAGATCATCGGCGAG
GCGCCGGCGATGCAGGAGGTATTCCGCGCCATCGGCCGCCTCAGCCATTCCAACATCACCGTGCTGATCAAC
GGCGAATCGGGTACCGGCAAGGAGCTGGTCGCCCATGCCCTGCATCGCCACAGCCCGCGCGCAGCCTCGCCA
TTCATCGCGCTGAACATGGCGGCGATCCCCAAGGACCTGATGGAATCCGAGCTGTTCGGCCATGAGAAGGGC
GCCTTCACCGGGGCCGCCGCCCAGCGCCGCGGACGCTTCGAGCAGGCCGATGGCGGCACCCTGTTCCTCGAC
GAGATCGGCGACATGCCGGCCGACACCCAGACCCGCCTGCTGCGCGTCCTGGCCGACGGCGAGTTCTACCGG
GTCGGCGGGCACACGCCGGTGAAGGTCGACGTGAGGATCATCGCCGCCACCCACCAGAACCTGGAAAGCCTG
GTGCGCGACGGCAAGTTCCGCGAGGACCTGTTCCATCGCCTGAACGTGATCCGCATCCACATCCCGCGGCTG
GCCGACCGCCGCGAGGACATCCCGGCGCTGGCCCGGCACTTCCTCAGCCGCGCCGCCCAGGAGCTGGCGGTG
GAACCCAAGCTGCTGAAGGCGGAAACCGAGGAGTACCTGAAGAACCTCGGCTGGCCGGGCAACGTCCGACAA
CTGGAGAACACCTGCCGCTGGATCACCGTGATGGCCTCCGGCCGCGAGGTGCACATCGACGACCTGCCGCCG
GAGCTGCTGACCCAGCCGCAGGACAGCGCGCCGGCGGCGAACTGGGAACAGGCCCTGCGCCAGTGGGCCGAC
CAGGCGCTGGGCCGCGGCCAGTCGAACCTGCTGGACAGCGCCGTGCCGGCCTTCGAACGGATCATGATAGAA
ACCGCCCTCAAGCACACCGCCGGCCGCCGCCGCGATGCCGCCGTGCTGCTCGGCTGGGGCCGCAATACCCTC
ACCCGCAAGATCAAGGAGCTGGGGATGAACGTCGATGGAGCCGACGACGAAGGCGACGACTGA