ViewGene

Locus Name:
GeneID:
Location:

GeneID:3312
TrivialName: PA14_65880
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_65880
PAO1 Ortholog Locus:PA4983
Sequence Length:735
Protein Length:244
Start: 5870439
Stop: 5869705
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG08368.1|AE004911_3 (AE004911) probable two-component response regulator [Pseudomonas aeruginosa PAO1]
Identities = 243/244 (99%), Positives = 243/244 (99%)
Sequence:
ATGGCGATGGTTCCGCGCGTATTGGTGGTCGACGACGACCCGGTGATTCGTGAGCTTCTCCAGGCCTATCTC
GGCGAGGAGGGCTATGACGTCCTCTGCGCCGGCAACGCCGAGCAGGCGGAAGCCTGCCTTGCCGAGTGCGCC
CATCTCGGCCAGCCGGTCGAGCTGGTGCTGCTGGACATCCGCCTGCCCGGCAAGGACGGCCTGACCCTGACC
CGCGAGCTGCGGGTGCGCTCCGAGGTGGGGATCATCCTGATCACCGGGCGCAACGACGAGATCGATCGCATC
GTCGGCCTGGAGTGCGGCGCCGACGACTACGTGATCAAGCCGCTGAACCCGCGCGAACTGGTGTCGCGGGCG
AAGAACCTGATCCGCCGGGTGCGCCATGCCCAGGCCAGCGCCGCCCCCGCCCGGCAGGCCCTCAGGCAGTTC
GGCGACTGGCTGCTGGACGCCGACCGGCGCCGCCTGATCGACCACGCGGGCAACGAGACCCTGCTCACCCAC
GGCGAATTCCAATTGCTCGGCGCCTTCCTGCGCAACAGCGGGCATACCCTGAGCCGCGACCAGTTGATGGAC
CAGATCCGCAACCGCGAGTGGCTGCCCAGCGATCGCTCCATCGACGTGCTGGTCGGCCGCCTGCGTCGTAAG
CTGCGCGACGACCCGGCCGAACCGCAACTGATCATCACCATCCACGGCGCCGGCTACCTGTTCACCGCCGCG
GCCAGCGACGCCTGA
Translation:
MAMVPRVLVVDDDPVIRELLQAYLGEEGYDVLCAGNAEQAEACLAECAHLGQPVELVLLDIRLPGKDGLTLT
RELRVRSEVGIILITGRNDEIDRIVGLECGADDYVIKPLNPRELVSRAKNLIRRVRHAQASAAPARQALRQF
GDWLLDADRRRLIDHAGNETLLTHGEFQLLGAFLRNSGHTLSRDQLMDQIRNREWLPSDRSIDVLVGRLRRK
LRDDPAEPQLIITIHGAGYLFTAAASDA*
AnnotationID:3320GeneID:3312
AnnotatorUID: diggins
Modification Date/Time: 2005-03-14 07:07:48
Gene Name:
Confidence Code:3
GeneProduct:putative two-component response regulator
Cell Localization:()
Synonyms:dmsR
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(25) Transcriptional regulators
Alternate Gene Product Name:putative DNA-binding response regulator
Functional Category Confidence Code:5
COGs:COG0745,cd00156,cd00383,pfam00486
Secondary Functional Category(ies):transcriptional regulator
EC Number:
Status:ACTIVE
Pathway:
Homology:
>gb|AAN69326.1|AE016570_3 (AE016788) DNA-binding response regulator [Pseudomonas putida
           KT2440]
          Length = 238

 Score =  380 bits (976), Expect = e-105
 Identities = 196/242 (80%), Positives = 211/242 (87%), Gaps = 7/242 (2%)

>gb|AAB94871.1| (AF016236) DMSO/TMAO-response regulator [Rhodobacter sphaeroides]
          Length = 232

 Score =  205 bits (522), Expect = 2e-52
 Identities = 112/233 (48%), Positives = 149/233 (63%), Gaps = 7/233 (3%)

Structural Features:
COG0745, OmpR, Response regulators consisting of a CheY-like receiver domain and 
a winged-helix DNA-binding domain 
[Signal transduction mechanisms / Transcription]
CD-Length = 229 residues, 100.0% aligned
Score =  197 bits (502), Expect = 1e-51
Identities = 100/239 (41%), Positives = 140/239 (58%), Gaps = 12/239 (5%)

cd00156, REC, Signal receiver domain
CD-Length = 113 residues, 100.0% aligned
Score = 99.2 bits (247), Expect = 4e-22
Identities = 55/118 (46%), Positives = 80/118 (67%), Gaps = 6/118 (5%)

cd00383, trans_reg_C, Effector domain of response regulator.
CD-Length = 95 residues, 100.0% aligned
Score =  100 bits (252), Expect = 1e-22

pfam00486, Trans_reg_C, Transcriptional regulatory protein, C terminal. 
CD-Length = 75 residues, 100.0% aligned
Score = 77.1 bits (190), Expect = 2e-15
Identities = 29/77 (37%), Positives = 46/77 (59%), Gaps = 2/77 (2%)
Genomic Context:
Comment:
ReferenceID:6627
Author/Investigator(s): GenNotator
Title:
PubMed:
MedLine:
Source:
Reference Type:BLASTP
Data:
URL:
ReferenceID:23769
Author/Investigator(s): GenNotator
Title: CDD Search
PubMed:
MedLine:
Source:
Reference Type:RPSBLAST
Data:
URL:
ReferenceID:35090
Author/Investigator(s):
Title: CDD Search
PubMed:
MedLine:
Source:
Reference Type:Misc (text/plain)
Data:3312_cdd.html
URL:
Homologs By Global Alignment
Gene ID:3312

Identity:

0% 10% 20% 30% 40% 50% 60% 70% 80% 90% 100%
HomologID Accession Description Length PctIdentity PctSimilarity Gaps Score
5310 PA4983_tr translation of PA4983 244 99.59 99.59 0 1240.0
148553 gb|AAG08368.1|AE004911_3 (AE004911) probable two-component response regulator [Pseudomonas aeruginosa PAO1] 244 99.59 99.59 0 1240.0
148554 gb|AAN69326.1|AE016570_3 (AE016788) DNA-binding response regulator [Pseudomonas putida KT2440] 246 79.67 85.77 10 982.0
148557 dbj|BAA22330.1| (D89075) DmsR [Rhodobacter sphaeroides] 244 46.72 61.47 12 523.0
148562 gb|AAF94869.1| (AE004250) DNA-binding response regulator TorR [Vibrio cholerae O1 biovar eltor str. N16961] 246 46.34 59.75 14 506.0
GC ORFID: 46314How Found: BLASTX
GC_TrimmedSeqID: 69Blast Result ID
Subject Sequence Name: t_PA4983Glimmer Score:
Start: 5134122Stop: 5133388
Length: 735
Start Codon: ATGTruncated Start:
Stop Codon: TGATruncated Stop:
Homolog: t_PA4983 translation of PA4983Homolog Bit Score 482.0
Other Homologs: t_PA4101 (ORF: BLASTX 179.0), t_PA5200 (ORF: BLASTX 176.0), psyr_15may02_Scaffold2_revised_gene3175 (ORF: BLASTX 172.0), psyr_15may02_Scaffold3_revised_gene4416 (ORF: BLASTX 168.0), t_PA4983 (ORF: GLIMMER)
GC ORF Sequence
ATGGCGATGGTTCCGCGCGTATTGGTGGTCGACGACGACCCGGTGATTCGTGAGCTTCTCCAGGCCTATCTC
GGCGAGGAGGGCTATGACGTCCTCTGCGCCGGCAACGCCGAGCAGGCGGAAGCCTGCCTTGCCGAGTGCGCC
CATCTCGGCCAGCCGGTCGAGCTGGTGCTGCTGGACATCCGCCTGCCCGGCAAGGACGGCCTGACCCTGACC
CGCGAGCTGCGGGTGCGCTCCGAGGTGGGGATCATCCTGATCACCGGGCGCAACGACGAGATCGATCGCATC
GTCGGCCTGGAGTGCGGCGCCGACGACTACGTGATCAAGCCGCTGAACCCGCGCGAACTGGTGTCGCGGGCG
AAGAACCTGATCCGCCGGGTGCGCCATGCCCAGGCCAGCGCCGCCCCCGCCCGGCAGGCCCTCAGGCAGTTC
GGCGACTGGCTGCTGGACGCCGACCGGCGCCGCCTGATCGACCACGCGGGCAACGAGACCCTGCTCACCCAC
GGCGAATTCCAATTGCTCGGCGCCTTCCTGCGCAACAGCGGGCATACCCTGAGCCGCGACCAGTTGATGGAC
CAGATCCGCAACCGCGAGTGGCTGCCCAGCGATCGCTCCATCGACGTGCTGGTCGGCCGCCTGCGTCGTAAG
CTGCGCGACGACCCGGCCGAACCGCAACTGATCATCACCATCCACGGCGCCGGCTACCTGTTCACCGCCGCG
GCCAGCGACGCCTGA