Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   QU43_RS40615 Genome accession   NC_011000
Coordinates   882584..884089 (-) Length   501 a.a.
NCBI ID   WP_006483132.1    Uniprot ID   -
Organism   Burkholderia cenocepacia J2315     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type MGE coordinates Gene coordinates Relative position Distance (bp)
Genomic island 872939..881804 882584..884089 flank 780


Gene organization within MGE regions


Location: 872939..884089
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  QU43_RS40565 (BCAL0802) ispE 872939..873820 (-) 882 WP_006483733.1 4-(cytidine 5'-diphospho)-2-C-methyl-D-erythritol kinase -
  QU43_RS40570 (BCAL0803) lolB 873848..874468 (-) 621 WP_020979425.1 lipoprotein insertase outer membrane protein LolB -
  QU43_RS40575 (BCAL0804) - 874468..876291 (-) 1824 WP_006483151.1 tetratricopeptide repeat protein -
  QU43_RS40580 (BCAL0805) mutM 876539..877366 (+) 828 WP_006483152.1 bifunctional DNA-formamidopyrimidine glycosylase/DNA-(apurinic or apyrimidinic site) lyase -
  QU43_RS40585 (BCAL0806) mutY 877391..878497 (+) 1107 WP_006483131.1 A/G-specific adenine glycosylase -
  QU43_RS40590 (BCAL0807) - 878615..879250 (-) 636 WP_006483137.1 LON peptidase substrate-binding domain-containing protein -
  QU43_RS40595 (BCAL0808) rapZ 879277..880185 (-) 909 WP_006483144.1 RNase adapter RapZ -
  QU43_RS40600 (BCAL0809) hprK 880260..881228 (-) 969 WP_006483133.1 HPr(Ser) kinase/phosphatase -
  QU43_RS73395 (BCAL0810) - 881358..881870 (-) 513 Protein_817 PTS sugar transporter subunit IIA -
  QU43_RS40610 (BCAL0812) hpf 882066..882425 (-) 360 WP_006477786.1 ribosome hibernation-promoting factor, HPF/YfiA family -
  QU43_RS40615 (BCAL0813) rpoN/rpoN1 882584..884089 (-) 1506 WP_006483132.1 RNA polymerase factor sigma-54 Machinery gene

Sequence

Protein


Download         Length: 501 a.a.        Molecular weight: 54735.87 Da        Isoelectric Point: 4.8740

>NTDB_id=31168 QU43_RS40615 WP_006483132.1 882584..884089(-) (rpoN/rpoN1) [Burkholderia cenocepacia J2315]
MKASLQLRLSQHLALTPQLQQSIRLLQLSTLELQQEVAMAVAQNPLLENDDEWIASPLRVAADGSLIAQTPPAQNTEPAA
TNGSSPSSDRAERDEPAGADEYDGYGSGDGNDGPQWNLDEYGRSSGASDDDDLPPLQVQEAATSLRDHLAAQLRVTQAGP
RDRALVMFLIESLDDDGYLTATLDEVLADLPPELEIDCDELNAALALLHSFDPAGVGARSASECLKLQLLRLDPSPTRTL
ALEIVSQHLELLAARDFTRLRKHLKASDDALRDAHALIRSLEPFPGAAYGKAEADYVVPDIIVKKAGQGWLAELNPEVVP
RLRINNLYANILRNSRGDPSAGSLKQQLQEARWLIKNIQQRFDTILRVAQAIVERQKNFFAHGEIAMRPLVLREIADTLG
LHESTVSRVTTGKYMLTPFGTLEFKYFFGSHVSTDTGGAASSTAIRALIKQLIGAEDPKSPLSDSRIAELLAEQGFVVAR
RTVAKYREALKIPAVNLRKSL

Nucleotide


Download         Length: 1506 bp        

>NTDB_id=31168 QU43_RS40615 WP_006483132.1 882584..884089(-) (rpoN/rpoN1) [Burkholderia cenocepacia J2315]
ATGAAAGCCAGCCTTCAACTCCGCCTGTCGCAACATCTTGCGCTGACGCCTCAGCTGCAGCAGTCGATCCGGCTCCTGCA
GTTGTCGACGCTCGAACTGCAGCAGGAAGTCGCGATGGCCGTCGCGCAGAACCCGCTGCTCGAGAACGACGACGAATGGA
TCGCGAGCCCGCTGCGCGTCGCGGCGGACGGATCGCTGATCGCGCAGACGCCGCCCGCACAGAACACCGAGCCCGCCGCG
ACCAACGGCAGCAGCCCGTCCAGCGATCGCGCGGAGCGCGACGAACCGGCCGGCGCCGACGAATACGACGGTTACGGGTC
CGGCGACGGCAACGACGGCCCGCAGTGGAACCTCGACGAATACGGCCGCTCGAGCGGCGCGTCCGACGACGACGACCTGC
CGCCGCTGCAGGTGCAGGAAGCCGCGACGTCGCTGCGCGACCACCTCGCCGCGCAGTTGCGCGTCACGCAGGCCGGCCCG
CGCGATCGCGCGCTCGTGATGTTCCTGATCGAATCGCTCGACGACGACGGCTACCTGACCGCCACGCTCGACGAAGTGCT
CGCCGACCTGCCGCCCGAACTGGAAATCGACTGCGACGAACTCAACGCGGCGCTCGCGCTGCTGCACAGCTTCGACCCGG
CCGGTGTCGGCGCGCGCTCGGCGTCCGAATGCCTGAAGCTGCAGCTGCTGCGTCTCGATCCGTCCCCGACGCGCACGCTC
GCGCTCGAGATCGTGTCGCAGCACCTTGAACTGCTCGCCGCACGCGACTTCACACGGTTGCGCAAGCACCTGAAGGCGAG
CGACGACGCGCTGCGCGACGCGCACGCACTGATCCGCTCGCTGGAGCCGTTCCCCGGCGCCGCATACGGCAAGGCCGAGG
CCGACTACGTCGTGCCCGACATCATCGTGAAGAAGGCCGGCCAGGGCTGGCTCGCGGAGCTCAATCCGGAAGTCGTGCCG
CGCCTGCGGATCAACAACCTGTACGCGAACATCCTGCGCAACAGCCGCGGCGATCCGTCGGCCGGATCGCTGAAACAGCA
GCTCCAGGAAGCGCGCTGGCTGATCAAGAATATCCAGCAGCGATTCGACACGATCCTGCGTGTCGCGCAGGCTATTGTCG
AGCGTCAGAAGAATTTCTTTGCGCACGGTGAAATTGCCATGCGCCCCTTGGTTTTGCGGGAAATAGCTGATACGCTGGGC
CTACACGAGTCGACTGTCAGCCGTGTGACAACCGGGAAGTACATGCTGACCCCGTTCGGGACGCTTGAATTTAAGTACTT
CTTCGGATCTCACGTCTCGACCGACACCGGTGGCGCCGCCTCGTCGACCGCCATCCGAGCCCTCATCAAGCAACTGATAG
GAGCTGAAGACCCAAAATCGCCACTTTCGGACAGCCGCATTGCCGAGCTGCTGGCAGAACAGGGTTTCGTGGTCGCGCGC
CGCACGGTTGCGAAATATCGCGAAGCCCTCAAGATCCCGGCAGTGAATCTGCGCAAGTCTCTTTAA

Domains

Predicted by InterproScan.

Sigma-54, DNA binding domain (Sigma54_DBD)

(344-499)

Sigma-54 factor, Activator interacting domain (AID) (Sigma54_AID)

(4-48)

Sigma-54 factor, core binding domain (Sigma54_CBD)

(137-328)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure

Transmembrane helices

Transmembrane helices of protein were predicted by TMHMM 2.0 and visualized by seqviz and ECharts.


Visualization of predicted probability:


Similar proteins

Only experimentally validated proteins are listed.

Protein Organism Identities (%) Coverage (%) Ha-value
  rpoN/rpoN1 Ralstonia pseudosolanacearum GMI1000

68.182

100

0.689

Multiple sequence alignment