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 Pput_0001
               gene Pput_0001                
Add this annotation to your clipboard
Key to gene image


View in GBrowse: (?)
46 putative orthologs Acknowledgements for this annotation
Feature Overview
Strain Pseudomonas putida F1 (Tax ID: 351746) Replicon Pseudomonas putida F1 chromosome, complete genome.
(5403 genes, 5959964 bp) [ RefSeq ]
Feature type gene  Genomic location 385 - 1902 (+ strand)
Name dnaA  (View this annotation at our new website) Alternate Names
Locus tag Pput_0001 Tranposon Mutant Available? No mutants described yet.
Product Information
Feature type CDS
Product Name chromosomal replication initiation protein
Product Name Confidence
Alternate Names
Charge at pH 7 (Predicted):4.33
Kyte-Doolittle Hydropathy Score (Predicted):-0.272
Molecular Weight (Predicted):56.4 kDa
Isoelectric Point (Predicted):8.25
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
Alternate Annotations and Cross-References
Entrez 5194200
RefSeq YP_001265362.1
GI 148545260
Precomputed BLAST results NCBI BLINK
KEGG Pput_0001
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!
Function Classification
PseudoCAP Function Class
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 136 472 2e-168 3.10
223666 COG0593 COG DnaA ATPase involved in DNA replication initiation [DNA replication, recombination, and repair] 164 501 5e-141 3.10
234667 PRK00149 PRK dnaA chromosomal replication initiation protein; Reviewed 164 503 0.0 3.10
144046 pfam00308 Pfam Bac_DnaA Bacterial dnaA protein 170 388 2e-105 3.10
197863 smart00760 SMART Bac_DnaA_C Bacterial dnaA protein helix-turn-helix domain 413 481 1e-29 3.10
119330 cd06571 CD Bac_DnaA_C C-terminal domain of bacterial DnaA proteins 414 503 2e-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.
TIGRFAM: chromosomal replication initiator protein DnaA PFAM: Chromosomal replication initiator, DnaA C-terminal domain
DNA Sequence
Upstream 500 BP Region AAGCTTTTTTGAAGAACTTATAACTCTTAAGTGGATAACCTTCTGTGGATAACCTGCGCTAGCCCATGAATTACGGGGTGTACAGAGTTTTACAACTTTG
TTCTGAACCCGTGCTGCGCTTGTTCCCATCGTGAGCGAAAGCTGTGGATGAAAACGCCCGTTATCCACAGTGGAGTTATCAACAGGCTAAGTGGTGGGGT
TGTGCATAGCCCTCATGGGCGTTTATCCACAGGGCTTATTCACAGAGGCGAAAAGCCGTTTTGGTCGATAAATGGCTGTTTTGTCGTGGTTCCTAACGTG
TCCACATGTGGATAACTGAACGCTCGACCGGTACAATGGCGGTTTGTTTTTGCCTCATCCGGCTTTCAAACTCAGGGGATATCC


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 GTGTCAGTGGAACTTTGGCAGCAGTGCGTGGAGCTTCTGCGCGATGAACTGCCTGCCCAGCAATTCAACACCTGGATCCGTCCGCTACAGGTCGAAGCCG
AAGGCGACGAGTTGCGCGTCTATGCGCCTAACCGTTTCGTTCTCGATTGGGTCAATGAAAAGTACCTGGGTCGTTTGCTCGAGCTGTTGGGTGAGAACGG
TAGCGGCATTGCACCAGCCCTTTCCTTATTAATAGGTAGCCGCCGCAGCTCGGCCCCAAGGGCTGCACCCAACGCGCCGGTCAGCGCTGCCGTTGCGGCT
TCGCTGGCGCAGACTCAGGCGCACAAGACGGCCCCGGCAGCAGCGGTTGAACCCGTTGCCGTGGCCGCGGCCGAGCCTGTATTGGTCGAGACGTCTTCGC
GTGACAGCTTTGATGCCATGGCCGAGCCTGCTGCTGCGCCGCCCAGTGGTGGCCGGGCTGAACAGCGCACCGTGCAGGTTGAAGGTGCGCTCAAGCACAC
CAGTTACCTGAACCGGACCTTTACCTTTGACACCTTCGTCGAAGGTAAGTCGAACCAGCTCGCCCGCGCGGCTGCCTGGCAGGTTGCGGACAACCCTAAG
CATGGCTACAACCCACTGTTCCTTTATGGCGGTGTGGGTTTGGGTAAAACCCACCTTATGCATGCTGTGGGTAACCATCTGCTGAAGAAGAATCCGAACG
CCAAGGTGGTGTACCTGCATTCGGAGCGCTTCGTCGCGGACATGGTCAAAGCGTTGCAACTCAACGCCATCAACGAATTCAAGCGCTTCTACCGCTCGGT
GGACGCGTTGCTGATCGACGATATCCAGTTCTTCGCTCGCAAAGAGCGCTCGCAAGAAGAGTTTTTCCACACCTTCAACGCCTTGCTTGAGGGTGGCCAG
CAGGTAATCCTTACCTCTGACCGCTATCCCAAGGAAATCGAAGGCCTGGAAGAGCGTCTGAAGTCGCGCTTTGGTTGGGGCCTGACGGTGGCTGTCGAGC
CGCCAGAGCTGGAGACCCGCGTAGCGATCCTGATGAAGAAGGCCGACCAGGCCAAAGTCGAGCTCCCGCATGACGCAGCCTTTTTCATCGCTCAGCGCAT
CCGGTCCAACGTCCGTGAGCTGGAAGGTGCACTGAAGCGAGTTATTGCTCACTCGCACTTCATGGGGCGTGACATCACCATCGAGCTGATTCGTGAATCG
CTCAAGGATCTGTTGGCGCTGCAAGACAAACTGGTCAGTGTGGATAACATTCAGCGTACCGTCGCTGAGTACTACAAGATCAAGATCTCCGATCTGTTGT
CCAAGCGTCGTTCGCGTTCTGTCGCGCGCCCGCGTCAGGTAGCCATGGCCCTGTCCAAGGAGTTGACCAACCACAGTCTGCCGGAAATCGGCGACATGTT
CGGTGGTCGCGACCATACGACCGTGCTGCACGCCTGCCGCAAAATCAATGAACTGAAGGAATCCGACGCGGACATCCGCGAGGACTACAAGAACCTGCTG
CGGACGCTGACGACCTGA


BLAST search against this genome or other genomes in database

Downstream 500 BP region TGGCCGTCTGCGCAGCTAATTGAAGGCAAGGGACTAGACCATGCATTTCACCATTCAACGCGAAGCCCTGTTGAAACCCCTGCAACTGGTCGCCGGTGTC
GTCGAGCGCCGTCAGACCTTGCCGGTCCTGTCCAACGTATTGCTGGTCGTACAAGGCCAGCAACTGTCGTTGACCGGTACCGACCTGGAAGTCGAGCTGG
TAGGCCGCGTGCAACTGGAAGAGCCGGCCGAGCCTGGCGAGATCACTGTTCCGGCGCGCAAGCTGATGGACATCTGCAAAAGCCTGCCTAACGACGCCCT
GATCGATATCAAGGTCGATGAGCAGAAATTGTTGGTAAAGGCCGGCCGCAGCCGCTTCACCCTGTCGACCCTGCCTGCCAATGACTTCCCGACTGTGGAA
GAAGGCCCGGGTTCGCTGACCTGCAACCTGGAGCAGAGCAAGCTGCGCCGCCTGATCGAGCGAACCAGCTTCGCCATGGCCCAGCAGGATGTGCGCTATT
A


Protein Sequence
Protein Sequence MSVELWQQCVELLRDELPAQQFNTWIRPLQVEAEGDELRVYAPNRFVLDWVNEKYLGRLLELLGENGSGIAPALSLLIGSRRSSAPRAAPNAPVSAAVAA
SLAQTQAHKTAPAAAVEPVAVAAAEPVLVETSSRDSFDAMAEPAAAPPSGGRAEQRTVQVEGALKHTSYLNRTFTFDTFVEGKSNQLARAAAWQVADNPK
HGYNPLFLYGGVGLGKTHLMHAVGNHLLKKNPNAKVVYLHSERFVADMVKALQLNAINEFKRFYRSVDALLIDDIQFFARKERSQEEFFHTFNALLEGGQ
QVILTSDRYPKEIEGLEERLKSRFGWGLTVAVEPPELETRVAILMKKADQAKVELPHDAAFFIAQRIRSNVRELEGALKRVIAHSHFMGRDITIELIRES
LKDLLALQDKLVSVDNIQRTVAEYYKIKISDLLSKRRSRSVARPRQVAMALSKELTNHSLPEIGDMFGGRDHTTVLHACRKINELKESDADIREDYKNLL
RTLTT


BLAST search against this genome or other genomes in database
Precomputed BLAST results at BLINK
Operons/Regulons
1) dnaA-Pput_0002-recF-gyrB ( View in GBrowse  )
Genomic Location: From 385 to 6590 bp on + strand
Genes:
Pput_0001 (dnaA) Pput_0002 (Pput_0002) Pput_0003 (recF) Pput_0004 (gyrB)
Estimated Length: 6205 bp (From 385 to 6590 bp)
Evidence:
Class 3: Computationally-predicted.
 [PubMed:18988623]
Cross Reference: DOOR (No external cross-reference is available).