ViewGene

Locus Name:
GeneID:
Location:

GeneID:5284
TrivialName: PA14_41210
AnnotatorUID:
Modification Date/Time:2006-04-06 13:01:23
LocusName:PA14_41210
PAO1 Ortholog Locus:PA1804
Sequence Length:273
Protein Length:90
Start: 3675918
Stop: 3675646
Strand: -
Type:
ChromosomeID:2
Status: ACTIVE
Frame Discrepancy: FALSE
Missense Discrepancy:FALSE
Comments:
Homology: gb|AAG05193.1|AE004606_7 (AE004606) DNA-binding protein HU [Pseudomonas aeruginosa PAO1]
Identities = 90/90 (100%), Positives = 90/90 (100%)
Sequence:
GTGAACAAGTCGGAACTGATCGATGCAATTGCCGCATCTGCTGATATCCCGAAAGCTGTTGCCGGTCGCGCA
CTGGACGCAGTGATCGAGTCCGTCACTGGCGCCCTGAAGGCTGGTGACTCCGTCGTGCTGGTTGGTTTCGGC
ACCTTCGCTGTCAAAGAGCGCGCTGCTCGCACCGGTCGCAACCCGCAAACTGGCAAGCCGATCAAGATCGCC
GCTGCCAAGATCCCGGGTTTCAAAGCCGGTAAAGCCCTGAAGGATGCTGTCAACTAA
Translation:
MNKSELIDAIAASADIPKAVAGRALDAVIESVTGALKAGDSVVLVGFGTFAVKERAARTGRNPQTGKPIKIA
AAKIPGFKAGKALKDAVN*
AnnotationID:5289GeneID:5284
AnnotatorUID: diggins
Modification Date/Time: 2005-03-01 17:05:51
Gene Name:hupB
Confidence Code:1
GeneProduct:DNA-binding protein HU
Cell Localization:()
Synonyms:
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|AAN67916.1|AE016424_2 (AE016782) DNA-binding protein HU-beta [Pseudomonas putida
          KT2440]
          Length = 90

 Score =  158 bits (400), Expect = 5e-39
 Identities = 82/90 (91%), Positives = 84/90 (93%)

>gb|AAO57192.1| (AE016869) DNA-binding protein HU-beta [Pseudomonas syringae pv.
          tomato str. DC3000]
          Length = 90

 Score =  152 bits (383), Expect = 5e-37
 Identities = 79/90 (87%), Positives = 84/90 (93%)

>gb|AAN79034.1|AE016756_217 (AE016756) DNA-binding protein HU-beta [Escherichia coli CFT073]
          Length = 90

 Score =  141 bits (356), Expect = 7e-34
 Identities = 73/90 (81%), Positives = 78/90 (86%)
Structural Features:
pfam00216, Bac_DNA_binding, Bacterial DNA-binding protein.
CD-Length = 90 residues, 100.0% aligned
Score =  110 bits (278), Expect = 3e-26
Identities = 55/90 (61%), Positives = 66/90 (73%)

smart00411, BHL, bacterial (prokaryotic) histone like domain
CD-Length = 90 residues, 100.0% aligned
Score =  106 bits (267), Expect = 5e-25
Identities = 55/90 (61%), Positives = 65/90 (72%)
Genomic Context:
Comment:
ReferenceID:15300
Author/Investigator(s): GenNotator
Title:
PubMed:
MedLine:
Source:
Reference Type:BLASTP
Data:
URL:
ReferenceID:27714
Author/Investigator(s): GenNotator
Title: CDD Search
PubMed:
MedLine:
Source:
Reference Type:RPSBLAST
Data:
URL:
ReferenceID:37118
Author/Investigator(s):
Title: CDD Search
PubMed:
MedLine:
Source:
Reference Type:Misc (text/plain)
Data:5284_cdd.html
URL:
ReferenceID:37800
Author/Investigator(s): Delic-Attree I, Toussaint B, Vignais PM.
Title: Cloning and sequence analyses of the genes coding for the integration host factor (IHF) and HU proteins of Pseudomonas aeruginosa.
PubMed: 7867950
MedLine:
Source:
Gene. 1995 Feb 27;154(1):61-4.
Reference Type:Journal
Data:
URL:http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=7867950
Homologs By Global Alignment
Gene ID:5284

Identity:

0% 10% 20% 30% 40% 50% 60% 70% 80% 90% 100%
HomologID Accession Description Length PctIdentity PctSimilarity Gaps Score
7686 PA1804_tr translation of PA1804 90 99.99 99.99 0 434.0
195559 gb|AAG05193.1|AE004606_7 (AE004606) DNA-binding protein HU [Pseudomonas aeruginosa PAO1] 90 98.88 99.99 0 431.0
195560 gb|AAA65948.1| (L35257) HU protein [Pseudomonas aeruginosa] 90 95.55 96.66 1 404.0
195561 gb|AAK52475.1|AF345628_1 (AF345628) histone-like protein HU form B [Pseudomonas putida] 90 90.00 93.33 0 396.0
195562 gb|AAN67916.1|AE016424_2 (AE016782) DNA-binding protein HU-beta [Pseudomonas putida KT2440] 90 90.00 93.33 0 396.0
GC ORFID: 48286How Found: BLASTX
GC_TrimmedSeqID: 69Blast Result ID
Subject Sequence Name: t_PA1804Glimmer Score:
Start: 1277991Stop: 1278263
Length: 273
Start Codon: GTGTruncated Start:
Stop Codon: TAATruncated Stop:
Homolog: t_PA1804 translation of PA1804Homolog Bit Score 171.0
Other Homologs: psyr_15may02_Scaffold1_revised_gene779 (ORF: BLASTX 151.0), t_PA5348 (ORF: BLASTX 102.0), psyr_15may02_Scaffold2_revised_gene4210 (ORF: BLASTX 101.0), t_PA1804 (ORF: GLIMMER)
GC ORF Sequence
GTGAACAAGTCGGAACTGATCGATGCAATTGCCGCATCTGCTGATATCCCGAAAGCTGTTGCCGGTCGCGCA
CTGGACGCAGTGATCGAGTCCGTCACTGGCGCCCTGAAGGCTGGTGACTCCGTCGTGCTGGTTGGTTTCGGC
ACCTTCGCTGTCAAAGAGCGCGCTGCTCGCACCGGTCGCAACCCGCAAACTGGCAAGCCGATCAAGATCGCC
GCTGCCAAGATCCCGGGTTTCAAAGCCGGTAAAGCCCTGAAGGATGCTGTCAACTAA