Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   D3790_RS17510 Genome accession   NZ_CP032329
Coordinates   3812222..3813655 (-) Length   477 a.a.
NCBI ID   WP_041979155.1    Uniprot ID   -
Organism   Xenorhabdus nematophila strain YL001     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3807222..3818655
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  D3790_RS21195 - 3807691..3807963 (-) 273 WP_411572066.1 hypothetical protein -
  D3790_RS21200 - 3807963..3808265 (-) 303 Protein_3393 transposase -
  D3790_RS17480 (D3790_17480) cynR 3808511..3809398 (-) 888 WP_041979159.1 transcriptional regulator CynR -
  D3790_RS17485 (D3790_17485) cynS 3809529..3809999 (+) 471 WP_013185527.1 cyanase -
  D3790_RS17490 (D3790_17490) npr 3810118..3810390 (-) 273 WP_010847735.1 PTS phosphocarrier protein NPr -
  D3790_RS17495 (D3790_17495) rapZ 3810439..3811290 (-) 852 WP_010847736.1 RNase adapter RapZ -
  D3790_RS17500 (D3790_17500) ptsN 3811329..3811796 (-) 468 WP_013185526.1 PTS IIA-like nitrogen regulatory protein PtsN -
  D3790_RS17505 (D3790_17505) hpf 3811911..3812198 (-) 288 WP_010847739.1 ribosome hibernation promoting factor -
  D3790_RS17510 (D3790_17510) rpoN/rpoN1 3812222..3813655 (-) 1434 WP_041979155.1 RNA polymerase factor sigma-54 Machinery gene
  D3790_RS17515 (D3790_17515) lptB 3813725..3814450 (-) 726 WP_013185524.1 LPS export ABC transporter ATP-binding protein -
  D3790_RS17520 (D3790_17520) lptA 3814457..3815005 (-) 549 WP_010847742.1 lipopolysaccharide ABC transporter substrate-binding protein LptA -
  D3790_RS17525 (D3790_17525) lptC 3814986..3815579 (-) 594 WP_038219913.1 LPS export ABC transporter periplasmic protein LptC -
  D3790_RS17530 (D3790_17530) kdsC 3815597..3816160 (-) 564 WP_010847744.1 3-deoxy-manno-octulosonate-8-phosphatase KdsC -
  D3790_RS17535 (D3790_17535) kdsD 3816300..3817268 (-) 969 WP_010847745.1 arabinose-5-phosphate isomerase KdsD -
  D3790_RS17540 (D3790_17540) - 3817307..3818293 (-) 987 WP_010847746.1 calcium/sodium antiporter -

Sequence

Protein


Download         Length: 477 a.a.        Molecular weight: 54245.37 Da        Isoelectric Point: 4.4959

>NTDB_id=315025 D3790_RS17510 WP_041979155.1 3812222..3813655(-) (rpoN/rpoN1) [Xenorhabdus nematophila strain YL001]
MKQSLQLRLSQQLTMTPQLQQAIRLLQLSTLELQQEIQQALETNPLLEQDELHREVENPDPPATEVMDAREALEQKDMPE
ELPLDTSWDEIYTAGLSSGSHSDYDADDFPVYQGETTQTLQDYLMWQAGLTPFTETDTAIATAIIDAIDDSGYLTVSTEE
ILISLGDDELALEEVEAVLKRIQHFDPIGVAARDLRECLFIQLSMLPPQTRYLDEAKLVVNKYLELLGNRDFRNLLRQSK
LKENVLKEAIDIIQSLEPKPGLIVNTSESEYVIPDVLIQKENESWQVRLNTDSIPRLRINQHYAALGQQAHNESDSLFIR
NNLQEAKWLIKSLESRNETLLKVARCIAERQQDFFEYGEEHMKPLVLADIAYQVDMHESTISRVTTQKYLYSPRGIFELK
YFFSSHVNTDSGGEASSTAIRALVKKLVAAENPAKPLSDSKLTSMLVEQGIQVARRTVAKYRESLSIPPSNQRKKLV

Nucleotide


Download         Length: 1434 bp        

>NTDB_id=315025 D3790_RS17510 WP_041979155.1 3812222..3813655(-) (rpoN/rpoN1) [Xenorhabdus nematophila strain YL001]
ATGAAGCAAAGTTTACAACTTAGGCTCAGCCAACAACTGACAATGACGCCCCAGCTCCAGCAAGCAATACGTTTGTTGCA
ACTTTCCACGCTTGAACTTCAGCAGGAAATTCAACAGGCTCTGGAAACCAATCCACTGCTTGAGCAAGATGAACTGCATC
GGGAAGTGGAGAATCCAGATCCCCCTGCAACCGAAGTCATGGATGCCCGCGAAGCGCTTGAACAGAAAGATATGCCGGAA
GAGCTGCCACTGGATACCAGTTGGGATGAAATTTATACTGCCGGCCTGTCTTCAGGAAGCCACAGTGATTACGATGCTGA
TGACTTTCCCGTTTATCAGGGAGAAACCACCCAGACTCTCCAGGACTATCTTATGTGGCAGGCAGGGTTAACGCCGTTTA
CTGAAACGGATACTGCCATTGCCACTGCGATCATTGATGCAATTGATGATAGTGGCTATCTGACTGTTTCCACCGAGGAG
ATCCTGATCAGCCTTGGTGATGATGAACTGGCACTGGAAGAAGTCGAGGCCGTTCTTAAGCGCATACAGCATTTTGACCC
TATTGGCGTCGCTGCCCGTGATTTGCGCGAATGCCTGTTCATCCAACTTTCCATGTTACCGCCGCAAACACGTTATCTGG
ACGAAGCCAAACTCGTCGTTAACAAGTATCTCGAACTGCTGGGGAATCGGGACTTCCGTAATTTATTACGCCAGAGCAAA
TTAAAAGAAAACGTTCTGAAAGAAGCCATTGATATTATTCAATCACTGGAGCCGAAACCGGGATTGATAGTCAATACCAG
CGAATCCGAGTATGTTATTCCCGATGTACTGATACAGAAAGAAAATGAAAGCTGGCAAGTCAGACTAAATACCGATAGCA
TCCCCCGCCTGCGTATCAACCAGCACTACGCAGCGTTGGGACAACAGGCACATAATGAGAGTGATAGCCTGTTCATTCGC
AATAACTTACAAGAAGCCAAATGGCTGATAAAAAGTCTCGAAAGCCGTAATGAGACTTTGTTAAAAGTCGCACGCTGCAT
TGCTGAACGGCAACAGGACTTTTTTGAGTATGGGGAAGAGCATATGAAACCGCTGGTACTGGCCGATATTGCCTATCAGG
TTGATATGCATGAATCTACCATTTCACGTGTGACAACCCAGAAGTATCTGTATAGTCCACGAGGCATTTTTGAGCTTAAA
TATTTTTTCTCCAGTCATGTGAATACCGATAGCGGGGGTGAAGCCTCTTCTACCGCAATACGTGCCCTGGTGAAAAAACT
GGTCGCGGCAGAAAACCCGGCCAAGCCTCTGAGTGACAGTAAATTAACCAGCATGCTGGTTGAACAAGGCATTCAGGTGG
CACGTCGGACTGTCGCAAAATATAGAGAGTCGTTATCCATCCCGCCTTCGAACCAACGTAAAAAACTGGTTTGA

Domains

Predicted by InterProScan.

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

(4-48)

Sigma-54 factor, core binding domain (Sigma54_CBD)

(116-303)

Sigma-54, DNA binding domain (Sigma54_DBD)

(318-475)


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

45.652

100

0.484

Multiple sequence alignment