Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   R8721_RS01840 Genome accession   NZ_AP028321
Coordinates   398397..399836 (+) Length   479 a.a.
NCBI ID   WP_010635929.1    Uniprot ID   -
Organism   Aeromonas dhakensis strain RYU-Ah62     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 393397..404836
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  R8721_RS01810 (Ri1_03430) mlaF 393974..394774 (-) 801 WP_017766396.1 phospholipid ABC transporter ATP-binding protein MlaF -
  R8721_RS01815 (Ri1_03440) - 394982..395977 (+) 996 WP_005305976.1 KpsF/GutQ family sugar-phosphate isomerase -
  R8721_RS01820 (Ri1_03450) kdsC 395977..396531 (+) 555 WP_010635926.1 3-deoxy-manno-octulosonate-8-phosphatase KdsC -
  R8721_RS01825 (Ri1_03460) lptC 396528..397088 (+) 561 WP_010635927.1 LPS export ABC transporter periplasmic protein LptC -
  R8721_RS01830 (Ri1_03470) lptA 397075..397602 (+) 528 WP_010635928.1 lipopolysaccharide transport periplasmic protein LptA -
  R8721_RS01835 (Ri1_03480) lptB 397606..398331 (+) 726 WP_005305964.1 LPS export ABC transporter ATP-binding protein -
  R8721_RS01840 (Ri1_03490) rpoN/rpoN1 398397..399836 (+) 1440 WP_010635929.1 RNA polymerase factor sigma-54 Machinery gene
  R8721_RS01845 (Ri1_03500) hpf 399858..400145 (+) 288 WP_005305957.1 ribosome hibernation promoting factor -
  R8721_RS01850 (Ri1_03510) ptsN 400148..400594 (+) 447 WP_317676866.1 PTS IIA-like nitrogen regulatory protein PtsN -
  R8721_RS01855 (Ri1_03520) rapZ 400637..401503 (+) 867 WP_005305946.1 RNase adapter RapZ -
  R8721_RS01860 (Ri1_03530) npr 401524..401796 (+) 273 WP_005305943.1 PTS phosphocarrier protein NPr -
  R8721_RS01865 (Ri1_03540) - 401812..403716 (-) 1905 WP_010635931.1 transcription antiterminator -
  R8721_RS01870 (Ri1_03550) - 403820..404560 (-) 741 WP_010635932.1 2-dehydro-3-deoxy-phosphogluconate aldolase -

Sequence

Protein


Download         Length: 479 a.a.        Molecular weight: 53848.82 Da        Isoelectric Point: 4.3584

>NTDB_id=104181 R8721_RS01840 WP_010635929.1 398397..399836(+) (rpoN/rpoN1) [Aeromonas dhakensis strain RYU-Ah62]
MKPTLQLRLGQSLTMTPQLQQAIRLLQLSTLELQQEIQQALDNNPLLEQEENDVQETSPVDQVDVSQLDSSDAMAQDQMP
DELPVDTTWEEVYSAGTAQSAGPIHDGEDSIYQGETTENLQDYLLWQMRLTPFSDVDAAIALAIIDAIDESGYLTVSLED
IQAAVSSEDVEVELDEVEAVLKRVQHFDPVGIAARSVQECLLIQLGQYSPDLPWLNEAREVILEHMDLLGNRDYRTLARK
TKLKENDLKEVLDLIQQLEPRPGNGVIQSESQYVIPDVSVVKKGNKWVVELNPDSAPRIRVNETYAAMARQARTSQDTQF
IRSHLQEAKWFIKSLESRNDTLLKVASCIVEQQQGFFEYGEEAMKPMVLNDIAEAVEMHESTISRVTTQKYMHTPRGIFE
LKFFFSSHVNTEGGGECSSTAIRALIKKLVTAENPAKPLSDSKIADLLAEQGIMVARRTIAKYRESLLIPPSNQRKRLV

Nucleotide


Download         Length: 1440 bp        

>NTDB_id=104181 R8721_RS01840 WP_010635929.1 398397..399836(+) (rpoN/rpoN1) [Aeromonas dhakensis strain RYU-Ah62]
ATGAAGCCGACATTACAGTTGCGTCTCGGTCAGTCCCTGACCATGACGCCGCAATTACAACAAGCGATTCGTCTGCTCCA
GCTCTCCACTCTGGAACTCCAGCAGGAAATTCAGCAAGCGCTCGACAACAACCCCTTGCTGGAGCAAGAGGAAAACGACG
TTCAGGAGACCAGCCCGGTCGACCAGGTGGACGTCAGCCAGCTCGATTCCAGCGATGCCATGGCCCAGGACCAGATGCCG
GACGAACTGCCGGTGGATACCACCTGGGAAGAGGTCTATTCGGCAGGCACGGCTCAGAGCGCAGGCCCCATCCATGACGG
GGAAGACAGCATCTATCAGGGTGAGACCACCGAGAACCTGCAGGACTACCTGTTGTGGCAGATGCGCTTGACCCCGTTCA
GCGACGTGGATGCCGCCATCGCCCTCGCCATCATAGATGCCATCGACGAATCCGGTTATCTGACGGTGTCGCTTGAGGAT
ATTCAGGCGGCGGTGAGCAGCGAGGATGTCGAGGTGGAACTCGATGAAGTGGAGGCCGTGCTCAAGCGGGTGCAGCATTT
CGATCCGGTCGGCATCGCCGCCCGCTCGGTGCAGGAGTGCCTGCTGATCCAGCTGGGCCAGTACTCCCCTGATCTGCCCT
GGCTCAACGAAGCCAGGGAGGTGATCCTCGAGCACATGGATCTGCTCGGCAACCGCGATTACCGCACCCTGGCCCGCAAG
ACCAAGCTGAAGGAGAACGACCTCAAGGAGGTGCTGGATCTCATCCAGCAGCTGGAGCCGCGGCCCGGAAACGGCGTCAT
CCAGAGCGAATCCCAGTACGTGATCCCGGATGTTTCCGTGGTCAAGAAGGGCAACAAGTGGGTGGTCGAGCTCAACCCTG
ACTCTGCCCCGCGCATTCGGGTCAACGAGACCTATGCCGCCATGGCCAGACAGGCCCGCACCAGTCAGGATACCCAGTTC
ATCCGCTCCCACCTGCAGGAAGCCAAGTGGTTCATCAAGAGTCTGGAGAGTCGCAACGACACCCTGCTCAAGGTGGCCAG
CTGCATCGTCGAGCAGCAGCAGGGCTTTTTCGAATACGGTGAAGAGGCCATGAAACCCATGGTGCTCAACGACATCGCCG
AAGCGGTGGAGATGCACGAGTCGACCATCTCGCGGGTGACCACCCAGAAGTACATGCACACGCCGCGCGGCATCTTCGAA
CTGAAGTTTTTTTTCTCCAGCCATGTAAACACCGAGGGAGGAGGAGAGTGCTCATCGACCGCAATTCGCGCGCTCATCAA
GAAGCTGGTCACGGCGGAGAATCCCGCCAAGCCGCTAAGTGATAGCAAGATCGCGGATTTGCTGGCCGAACAGGGTATTA
TGGTGGCGAGACGCACGATCGCAAAGTACCGTGAATCCTTGTTGATCCCGCCATCCAATCAGCGCAAACGCCTGGTTTAG

Domains

Predicted by InterproScan.

Sigma-54, DNA binding domain (Sigma54_DBD)

(319-477)

Sigma-54 factor, core binding domain (Sigma54_CBD)

(116-305)

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

(5-48)


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

45.866

100

0.486

Multiple sequence alignment