ViewGene

Locus Name:
GeneID:
Location:

GeneID:5262
TrivialName: PA14_70600
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_70600
PAO1 Ortholog Locus:PA5348
Sequence Length:273
Protein Length:90
Start: 6290341
Stop: 6290069
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG08733.1|AE004947_3 (AE004947) probable DNA-binding protein [Pseudomonas aeruginosa PAO1]
Identities = 90/90 (100%), Positives = 90/90 (100%)
Sequence:
ATGCGTAAACCAGAACTAGCCGCCGCTATCGCCGAAAAGGCCGATCTCACCAAGGAACAGGCCAATCGCGTT
CTCAACGCCCTGTTGGATGAAATCACCGGCGCGCTGAACCGCAAGGACAGCGTGACCCTGGTCGGTTTCGGC
ACCTTCCTGCAACGCCATCGCGGAGCCCGCACGGGGAAGAACCCGCAGACCGGCCAGCCGGTGAAGATCAAG
GCCAGCAACACCGTCGCCTTCAAGCCGGGCAAGGCCCTGCGCGACGCGGTCAACTGA
Translation:
MRKPELAAAIAEKADLTKEQANRVLNALLDEITGALNRKDSVTLVGFGTFLQRHRGARTGKNPQTGQPVKIK
ASNTVAFKPGKALRDAVN*
AnnotationID:5267GeneID:5262
AnnotatorUID: diggins
Modification Date/Time: 2005-03-17 06:06:18
Gene Name:
Confidence Code:3
GeneProduct:putative DNA-binding protein HU family
Cell Localization:()
Synonyms:hupA
Cell Localization Confidence Code:5
MolecularFunction:
Functional Category:(11) DNA replication, recombination, modification and repair
Alternate Gene Product Name:
Functional Category Confidence Code:5
COGs:pfam00216,smart00411
Secondary Functional Category(ies):
EC Number:
Status:ACTIVE
Pathway:
Homology:
>gb|AAO58891.1| (AE016875) DNA-binding protein HU family [Pseudomonas syringae pv.
           tomato str. DC3000]
          Length = 111

 Score =  166 bits (419), Expect = 3e-41
 Identities = 81/90 (90%), Positives = 90/90 (100%)

>gb|AAN70878.1|AE016732_3 (AE016794) DNA-binding protein HU-alpha [Pseudomonas putida
          KT2440]
          Length = 99

 Score =  150 bits (378), Expect = 2e-36
 Identities = 76/90 (84%), Positives = 85/90 (94%), Gaps = 1/90 (1%)

Structural Features:
pfam00216, Bac_DNA_binding, Bacterial DNA-binding protein.
CD-Length = 90 residues, 100.0% aligned
Score =  107 bits (269), Expect = 3e-25
Identities = 49/90 (54%), Positives = 62/90 (68%)

smart00411, BHL, bacterial (prokaryotic) histone like domain
CD-Length = 90 residues, 100.0% aligned
Score = 99.5 bits (248), Expect = 7e-23
Identities = 47/90 (52%), Positives = 60/90 (66%)
Genomic Context:
Comment:
ReferenceID:10524
Author/Investigator(s): GenNotator
Title:
PubMed:
MedLine:
Source:
Reference Type:BLASTP
Data:
URL:
ReferenceID:27670
Author/Investigator(s): GenNotator
Title: CDD Search
PubMed:
MedLine:
Source:
Reference Type:RPSBLAST
Data:
URL:
ReferenceID:34738
Author/Investigator(s):
Title: CDD Search
PubMed:
MedLine:
Source:
Reference Type:Misc (text/plain)
Data:5262_cdd.html
URL:
Homologs By Global Alignment
Gene ID:5262

Identity:

0% 10% 20% 30% 40% 50% 60% 70% 80% 90% 100%
HomologID Accession Description Length PctIdentity PctSimilarity Gaps Score
7666 PA5348_tr translation of PA5348 90 99.99 99.99 0 448.0
195310 gb|AAG08733.1|AE004947_3 (AE004947) probable DNA-binding protein [Pseudomonas aeruginosa PAO1] 90 99.99 99.99 0 448.0
195312 gb|AAN70878.1|AE016732_3 (AE016794) DNA-binding protein HU-alpha [Pseudomonas putida KT2440] 100 76.00 85.00 11 380.0
195311 gb|AAO58891.1| (AE016875) DNA-binding protein HU family [Pseudomonas syringae pv. tomato str. DC3000] 111 72.97 81.08 21 419.0
195313 gb|AAG05193.1|AE004606_7 (AE004606) DNA-binding protein HU [Pseudomonas aeruginosa PAO1] 90 57.77 71.11 0 259.0
GC ORFID: 48264How Found: BLASTX
GC_TrimmedSeqID: 69Blast Result ID
Subject Sequence Name: t_PA5348Glimmer Score:
Start: 5554030Stop: 5553758
Length: 273
Start Codon: ATGTruncated Start:
Stop Codon: TGATruncated Stop:
Homolog: t_PA5348 translation of PA5348Homolog Bit Score 177.0
Other Homologs: psyr_15may02_Scaffold2_revised_gene4210 (ORF: BLASTX 167.0), t_PA1804 (ORF: BLASTX 102.0), t_PA5348 (ORF: GLIMMER)
GC ORF Sequence
ATGCGTAAACCAGAACTAGCCGCCGCTATCGCCGAAAAGGCCGATCTCACCAAGGAACAGGCCAATCGCGTT
CTCAACGCCCTGTTGGATGAAATCACCGGCGCGCTGAACCGCAAGGACAGCGTGACCCTGGTCGGTTTCGGC
ACCTTCCTGCAACGCCATCGCGGAGCCCGCACGGGGAAGAACCCGCAGACCGGCCAGCCGGTGAAGATCAAG
GCCAGCAACACCGTCGCCTTCAAGCCGGGCAAGGCCCTGCGCGACGCGGTCAACTGA