Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   N5859_RS02560 Genome accession   NZ_CP104618
Coordinates   535428..536861 (-) Length   477 a.a.
NCBI ID   WP_000809057.1    Uniprot ID   P24255
Organism   Escherichia coli strain AHM9C68I     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 530428..541861
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  N5859_RS02525 (N5859_02525) elbB 531119..531772 (+) 654 WP_001300411.1 isoprenoid biosynthesis glyoxalase ElbB -
  N5859_RS02530 (N5859_02530) mtgA 531769..532497 (+) 729 WP_000047091.1 monofunctional biosynthetic peptidoglycan transglycosylase -
  N5859_RS02535 (N5859_02535) yrbL 532494..533126 (-) 633 WP_000620405.1 PhoP regulatory network protein YrbL -
  N5859_RS02540 (N5859_02540) npr 533340..533612 (-) 273 WP_000216791.1 PTS phosphocarrier protein NPr -
  N5859_RS02545 (N5859_02545) rapZ 533609..534463 (-) 855 WP_000243741.1 RNase adapter RapZ -
  N5859_RS02550 (N5859_02550) ptsN 534509..535000 (-) 492 WP_000183676.1 PTS IIA-like nitrogen regulatory protein PtsN -
  N5859_RS02555 (N5859_02555) hpf 535118..535405 (-) 288 WP_001176599.1 ribosome hibernation promoting factor -
  N5859_RS02560 (N5859_02560) rpoN/rpoN1 535428..536861 (-) 1434 WP_000809057.1 RNA polymerase factor sigma-54 Machinery gene
  N5859_RS02565 (N5859_02565) lptB 536909..537634 (-) 726 WP_000224099.1 LPS export ABC transporter ATP-binding protein -
  N5859_RS02570 (N5859_02570) lptA 537641..538198 (-) 558 WP_001723950.1 lipopolysaccharide ABC transporter substrate-binding protein LptA -
  N5859_RS02575 (N5859_02575) lptC 538167..538742 (-) 576 WP_000030537.1 LPS export ABC transporter periplasmic protein LptC -
  N5859_RS02580 (N5859_02580) kdsC 538739..539305 (-) 567 WP_000030005.1 3-deoxy-manno-octulosonate-8-phosphatase KdsC -
  N5859_RS02585 (N5859_02585) kdsD 539326..540312 (-) 987 WP_001295557.1 arabinose-5-phosphate isomerase KdsD -
  N5859_RS02590 (N5859_02590) yrbG 540326..541303 (-) 978 WP_000922901.1 calcium/sodium antiporter -

Sequence

Protein


Download         Length: 477 a.a.        Molecular weight: 53989.78 Da        Isoelectric Point: 4.3663

>NTDB_id=631784 N5859_RS02560 WP_000809057.1 535428..536861(-) (rpoN/rpoN1) [Escherichia coli strain AHM9C68I]
MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADALEQKEMPE
ELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDETGYLTVPLED
ILESIGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR
LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIR
SNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELK
YFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV

Nucleotide


Download         Length: 1434 bp        

>NTDB_id=631784 N5859_RS02560 WP_000809057.1 535428..536861(-) (rpoN/rpoN1) [Escherichia coli strain AHM9C68I]
ATGAAGCAAGGTTTGCAACTCAGGCTTAGCCAACAACTGGCGATGACGCCACAGCTCCAACAGGCAATTCGTCTGTTGCA
GTTGTCGACGCTGGAACTTCAGCAGGAGCTACAGCAGGCGCTGGAGAGTAATCCGCTGCTTGAGCAAATCGACACTCATG
AAGAAATCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAA
GAGCTGCCGCTCGATGCCAGTTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCGGTGACTACATTGACGA
CGAGCTGCCGGTCTACCAGGGCGAAACGACGCAGACCTTGCAGGATTACCTGATGTGGCAGGTTGAGCTGACACCGTTTT
CCGACACTGACCGCGCTATTGCTACCTCTATCGTCGATGCCGTTGATGAAACCGGTTATCTGACTGTCCCGCTGGAAGAT
ATTCTCGAAAGTATAGGCGATGAAGAGATCGACATCGACGAAGTTGAAGCCGTCCTTAAGCGGATCCAACGGTTTGATCC
GGTCGGTGTGGCGGCAAAAGATCTGCGTGACTGTCTGCTGATCCAACTCTCCCAATTCGATAAGACCACGCCGTGGCTGG
AAGAGGCCAGACTGATCATTAGCGATCATCTCGATCTGTTAGCCAATCACGACTTCCGCACTTTAATGCGCGTCACGCGT
CTGAAAGAAGATGTGCTGAAAGAAGCCGTCAATCTGATCCAGTCGCTCGATCCGCGCCCCGGGCAGTCGATCCAGACTGG
CGAACCTGAGTATGTCATTCCAGATGTGCTGGTGCGTAAGCATAACGGTCACTGGACGGTAGAACTCAACAGTGACAGCA
TTCCGCGTCTGCAAATCAACCAGCACTACGCCTCGATGTGCAATAACGCGCGCAACGATGGTGACAGCCAGTTTATCCGC
AGCAATCTGCAGGATGCCAAATGGTTGATCAAGAGTCTGGAAAGCCGTAACGATACGCTACTGCGCGTGAGTCGCTGTAT
CGTTGAACAGCAGCAAGCCTTCTTTGAGCAAGGTGAAGAATATATGAAACCGATGGTACTGGCCGATATCGCCCAGGCTG
TCGAAATGCATGAATCGACGATATCTCGCGTGACCACGCAAAAATACCTGCATAGTCCACGAGGCATTTTTGAACTGAAG
TATTTCTTTTCCAGTCACGTCAATACCGAGGGCGGCGGCGAAGCTTCCTCCACGGCGATTCGTGCGCTGGTGAAGAAATT
AATCGCGGCGGAAAACCCAGCGAAACCGTTGAGCGACAGCAAGTTAACCTCTTTGCTGTCGGAACAAGGTATCATGGTGG
CACGCCGCACTGTTGCGAAGTACCGAGAGTCTTTATCCATTCCGCCGTCAAACCAGCGTAAACAACTCGTTTGA

Domains

Predicted by InterProScan.

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

(5-48)

Sigma-54 factor, core binding domain (Sigma54_CBD)

(116-303)

Sigma-54, DNA binding domain (Sigma54_DBD)

(317-475)


Secondary structure

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



3D structure

Source ID Structure
  PDB 2MT3
  PDB 8F1I
  PDB 8F1J
  PDB 8F1K
  PDB 9MSE
  PDB 9MSF
  PDB 9MSG
  PDB 9MSH
  PDB 9MSJ

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

44.024

100

0.463