Please note that we will be retiring this old site on Tuesday, August 25th, 2015.
At that point, the URL for www.pseudomonas.com will bring you to our new site currently hosted at beta.pseudomonas.com. We encourage you to visit the new site now and see a more recent set of updated gene annotations and MANY more Pseudomonas strains.
Pseudomonas Genome Database - Annotation for PALES_00001
               gene PALES_00001                
Add this annotation to your clipboard
Key to gene image


View in GBrowse: (?)
46 putative orthologs Acknowledgements for this annotation
Feature Overview
Strain Pseudomonas aeruginosa LESB58 (Tax ID: 557722) Replicon Pseudomonas aeruginosa LESB58 chromosome, complete genome.
(6028 genes, 6601757 bp) [ RefSeq ]
Feature type gene  Genomic location 483 - 2027 (+ strand)
Name dnaA  (View this annotation at our new website) Alternate Names
Locus tag PALES_00001 Tranposon Mutant Available? No mutants described yet.
Product Information
Feature type CDS
Product Name chromosomal replication initiation protein
Product Name Confidence Class 2: Function of highly similar gene experimentally demonstrated in another organism (and gene context consistent in terms of pathways its involved in, if known).
Alternate Names
Charge at pH 7 (Predicted):6.33
Kyte-Doolittle Hydropathy Score (Predicted):-0.286
Molecular Weight (Predicted):57.7 kDa
Isoelectric Point (Predicted):8.88
Subcellular localization
CompartmentTypeConfidence LevelExplanation of Localization Confidence
Cytoplasmic Primary Class 3: Subcellular localization computationally predicted by PSORTb V3.0.
Orthologs/Comparative Genomics
Pseudomonas Ortholog Group Explanation of Orthologous Groups
Number of Orthologs in Pseudomonas species 46 putative orthologs
OrtholugeDB (New!) Explanation of Orthologous Groups
Secondary Genomic Features contained in PALES_00001
Name Sequence Start Stop Strand PubMed IDs Cross Reference Other Notes
Inverted repeat (palindrome) of 1598..1587
Retrieve 1541 1552 + 10827456
Software: Palindrome (Emboss 6.2.0)
Software: Palindrome (Emboss 6.2.0)
Inverted repeat (palindrome) of 1541..1552
Retrieve 1587 1598 - 10827456
Software: Palindrome (Emboss 6.2.0)
Software: Palindrome (Emboss 6.2.0)
Alternate Annotations and Cross-References
Entrez 7181216
RefSeq YP_002437611
GI 218888747
Precomputed BLAST results NCBI BLINK
GBrowse Click GBrowse for a GBrowse View of this and other annotations.
Gene Ontology (GO) - Participate in the 2014 Gene Ontology Annotation initiative and get your name on a consortium publication!
GO Accession GO Term Evidence
Code
Reviewed
by curator?
Reference
Molecular Function
GO:0003677 DNA binding ISS Yes
GO:0003688 DNA replication origin binding ISS Yes
GO:0043565 sequence-specific DNA binding ISS Yes
Biological Process
GO:0006275 regulation of DNA replication IEA No
GO:0006260 DNA replication ISS Yes
Cellular Component
Function Classification
PseudoCAP Function Class DNA replication, recombination, modification and repair
DNA replication, recombination, modification and repair
Homology
BLINK Precomputed BLAST results at BLINK
Structure Features
CDD predictions Explanation of CDD predictions
CDD Accession External Accession Database Short Name Description Start Stop E-value Release Number
232941 TIGR00362 TIGRFAM DnaA chromosomal replication initiator protein DnaA 163 481 1e-167 3.10
223666 COG0593 COG DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair] 173 510 5e-142 3.10
234667 PRK00149 PRK dnaA chromosomal replication initiation protein; Reviewed 173 512 0.0 3.10
144046 pfam00308 Pfam Bac_DnaA Bacterial dnaA protein 179 397 2e-105 3.10
197863 smart00760 SMART Bac_DnaA_C Bacterial dnaA protein helix-turn-helix domain 422 490 2e-29 3.10
119330 cd06571 CD Bac_DnaA_C C-terminal domain of bacterial DnaA proteins 423 512 3e-33 3.10
 
Comments
Comments binds to the dnaA-box as an ATP-bound complex at the origin of replication during the initiation of chromosomal replication; can also affect transcription of multiple genes including itself.
DNA Sequence
Upstream 500 BP Region TTTAAAGAGACCGGCGATTCTAGTGAAATCGAACGGGCAGGTCAATTTCCAACCAGCGATGACGTAATAGATAGATACAAGGAAGTCATTTTTCTTTTAA
AGGATAGAAACGGTTAATGCTCTTGGGACGGCGCTTTTCTGTGCATAACTCGATGAAGCCCAGCAATTGCGTGTTTCTCCGGCAGGCAAAAGGTTGTCGA
GAACCGGTGTCGAGGCTGTTTCCTTCCTGAGCGAAGCCTGGGGATGAACGAGATGGTTATCCACAGCGGTTTTTTCCACACGGCTGTGCGCAGGGATGTA
CCCCCTTCAAAGCAAGGGTTATCCACAAAGTCCAGGACGACCGTCCGTCGGCCTGCCTGCTTTTATTAAGGTCTTGATTTGCTTGGGGCCTCAGCGCATC
GGCATGTGGATAAGTCCGGCCCGTCCGGCTACAATAGGCGCTTATTTCGTTGTGCCGCCTTTCCAATCTTTGGGGGATATCC


BLAST search against this genome or other genomes in database
Need more than 500 BP? Try our sequence retrieval tool or view intergenic regions in GBrowse.

DNA Sequence GTGTCCGTGGAACTTTGGCAGCAGTGCGTGGATCTTCTCCGCGATGAGCTGCCGTCCCAACAATTCAACACCTGGATCCGTCCCTTGCAGGTCGAAGCCG
AAGGCGACGAATTGCGTGTGTATGCACCCAACCGTTTCGTCCTCGATTGGGTGAACGAGAAATACCTCGGTCGGCTTCTGGAACTGCTCGGTGAACGCGG
CGAGGGTCAGTTGCCCGCGCTTTCCTTATTAATAGGCAGCAAGCGTAGCCGTACGCCGCGCGCCGCCATCGTCCCATCGCAGACCCACGTGGCTCCCCCG
CCTCCGGTTGCTCCGCCGCCGGCGCCAGTGCAGCCGGTATCGGCCGCGCCCGTGGTAGTGCCACGTGAAGAGCTGCCGCCAGTGACGACGGCTCCCAGCG
TGTCGAGCGATCCCTATGAGCCGGAAGAACCCAGCATCGATCCGCTGGCCGCCGCCATGCCGGCCGGAGCAGCGCCTGCGGTGCGCACCGAGCGCAACGT
CCAGGTCGAAGGTGCGCTGAAGCACACCAGCTATCTCAACCGTACCTTCACCTTCGAGAACTTTGTCGAGGGCAAGTCCAACCAGTTGGCCCGCGCCGCC
GCCTGGCAGGTGGCGGACAACCTCAAGCACGGCTACAACCCGCTGTTCCTCTACGGTGGCGTCGGTCTGGGCAAGACCCACCTGATGCATGCGGTGGGCA
ACCACCTGCTGAAGAAGAACCCGAACGCCAAGGTGGTCTACCTGCATTCGGAACGTTTCGTCGCGGACATGGTGAAGGCCTTGCAGCTCAACGCCATCAA
CGAATTCAAGCGCTTCTACCGCTCGGTGGACGCACTGTTGATCGACGACATCCAGTTCTTCGCCCGTAAGGAGCGCTCCCAGGAGGAGTTCTTCCACACC
TTCAATGCCCTTCTCGAAGGCGGCCAGCAGGTGATCCTCACCAGCGACCGCTATCCGAAGGAAATCGAAGGCCTGGAAGAGCGGCTGAAATCCCGCTTCG
GCTGGGGCCTGACGGTGGCCGTCGAGCCGCCGGAACTGGAAACCCGGGTGGCGATCCTGATGAAGAAGGCTGAGCAGGCGAAGATCGAGCTGCCGCACGA
TGCGGCCTTCTTCATCGCCCAGCGCATCCGTTCCAACGTGCGCGAACTGGAAGGTGCGCTGAAGCGGGTGATAGCCCACTCGCACTTCATGGGCCGGCCG
ATCACCATCGAGCTGATTCGCGAGTCGCTGAAGGACCTGTTGGCCCTTCAGGACAAGCTGGTCAGCATCGACAACATCCAGCGCACCGTCGCCGAGTACT
ACAAGATCAAGATATCCGATCTGTTGTCCAAGCGGCGTTCGCGCTCGGTGGCGCGCCCGCGCCAGGTGGCCATGGCGCTCTCCAAGGAGCTGACCAACCA
CAGCCTGCCGGAGATCGGCGTGGCCTTCGGCGGTCGGGATCACACCACGGTGTTGCACGCCTGTCGTAAGATCGCTCAACTTAGGGAATCCGACGCGGAT
ATCCGCGAGGACTACAAGAACCTGCTGCGTACCCTGACAACCTGA


BLAST search against this genome or other genomes in database

Downstream 500 BP region CGCAGCCCACGAGGCAAGGGACTAGACCATGCATTTCACCATTCAACGCGAAGCCCTGTTGAAACCGCTGCAACTGGTCGCCGGCGTCGTGGAACGCCGC
CAGACATTGCCGGTTCTCTCCAACGTCCTGCTGGTGGTCGAAGGCCAGCAACTGTCGCTGACCGGCACCGACCTCGAAGTCGAGCTGGTTGGTCGCGTGG
TACTGGAAGATGCCGCCGAACCCGGCGAGATCACCGTACCGGCGCGCAAGCTGATGGACATCTGCAAGAGCCTGCCGAACGACGTGCTGATCGACATCCG
TGTCGAAGAGCAGAAACTTCTGGTGAAGGCCGGGCGTAGCCGCTTCACCCTGTCCACCCTGCCGGCCAACGATTTCCCCACCGTAGAGGAAGGTCCCGGC
TCGCTGAACTTCAGCATTGCCCAGAGCAAGCTGCGTCGCCTGATCGACCGCACCAGCTTCGCCATGGCCCAGCAGGACGTGCGTTACTACCTCAACGGCA
T


Protein Sequence
Protein Sequence MSVELWQQCVDLLRDELPSQQFNTWIRPLQVEAEGDELRVYAPNRFVLDWVNEKYLGRLLELLGERGEGQLPALSLLIGSKRSRTPRAAIVPSQTHVAPP
PPVAPPPAPVQPVSAAPVVVPREELPPVTTAPSVSSDPYEPEEPSIDPLAAAMPAGAAPAVRTERNVQVEGALKHTSYLNRTFTFENFVEGKSNQLARAA
AWQVADNLKHGYNPLFLYGGVGLGKTHLMHAVGNHLLKKNPNAKVVYLHSERFVADMVKALQLNAINEFKRFYRSVDALLIDDIQFFARKERSQEEFFHT
FNALLEGGQQVILTSDRYPKEIEGLEERLKSRFGWGLTVAVEPPELETRVAILMKKAEQAKIELPHDAAFFIAQRIRSNVRELEGALKRVIAHSHFMGRP
ITIELIRESLKDLLALQDKLVSIDNIQRTVAEYYKIKISDLLSKRRSRSVARPRQVAMALSKELTNHSLPEIGVAFGGRDHTTVLHACRKIAQLRESDAD
IREDYKNLLRTLTT


BLAST search against this genome or other genomes in database
Precomputed BLAST results at BLINK
Operons/Regulons
1) dnaA-dnaN-recF-gyrB ( View in GBrowse  )
Genomic Location: From 483 to 6695 bp on + strand
Genes:
PALES_00001 (dnaA) PALES_00011 (dnaN) PALES_00021 (recF) PALES_00031 (gyrB)
Estimated Length: 6212 bp (From 483 to 6695 bp)
Evidence:
Class 3: Computationally-predicted.
 [PubMed:18988623]
Cross Reference: DOOR (No external cross-reference is available).