Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   ABYD38_RS25420 Genome accession   NZ_CP159877
Coordinates   4986845..4988278 (+) Length   477 a.a.
NCBI ID   WP_032276664.1    Uniprot ID   -
Organism   Escherichia coli strain 12867     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4981845..4993278
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ABYD38_RS25390 (ABYD38_25390) yrbG 4982403..4983380 (+) 978 WP_000922901.1 calcium/sodium antiporter -
  ABYD38_RS25395 (ABYD38_25395) kdsD 4983394..4984380 (+) 987 WP_001295557.1 arabinose-5-phosphate isomerase KdsD -
  ABYD38_RS25400 (ABYD38_25400) kdsC 4984401..4984967 (+) 567 WP_000030018.1 3-deoxy-manno-octulosonate-8-phosphatase KdsC -
  ABYD38_RS25405 (ABYD38_25405) lptC 4984964..4985539 (+) 576 WP_000030537.1 LPS export ABC transporter periplasmic protein LptC -
  ABYD38_RS25410 (ABYD38_25410) lptA 4985508..4986065 (+) 558 WP_000669785.1 lipopolysaccharide ABC transporter substrate-binding protein LptA -
  ABYD38_RS25415 (ABYD38_25415) lptB 4986072..4986797 (+) 726 WP_000224099.1 LPS export ABC transporter ATP-binding protein -
  ABYD38_RS25420 (ABYD38_25420) rpoN/rpoN1 4986845..4988278 (+) 1434 WP_032276664.1 RNA polymerase factor sigma-54 Machinery gene
  ABYD38_RS25425 (ABYD38_25425) hpf 4988301..4988588 (+) 288 WP_001176599.1 ribosome hibernation promoting factor -
  ABYD38_RS25430 (ABYD38_25430) ptsN 4988706..4989197 (+) 492 WP_000183676.1 PTS IIA-like nitrogen regulatory protein PtsN -
  ABYD38_RS25435 (ABYD38_25435) rapZ 4989243..4990097 (+) 855 WP_000243741.1 RNase adapter RapZ -
  ABYD38_RS25440 (ABYD38_25440) npr 4990094..4990366 (+) 273 WP_000216791.1 PTS phosphocarrier protein NPr -
  ABYD38_RS25445 (ABYD38_25445) yrbL 4990580..4991212 (+) 633 WP_000620405.1 PhoP regulatory network protein YrbL -
  ABYD38_RS25450 (ABYD38_25450) mtgA 4991209..4991937 (-) 729 WP_000047091.1 monofunctional biosynthetic peptidoglycan transglycosylase -
  ABYD38_RS25455 (ABYD38_25455) elbB 4991934..4992587 (-) 654 WP_001299134.1 isoprenoid biosynthesis glyoxalase ElbB -

Sequence

Protein


Download         Length: 477 a.a.        Molecular weight: 54020.82 Da        Isoelectric Point: 4.3639

>NTDB_id=915487 ABYD38_RS25420 WP_032276664.1 4986845..4988278(+) (rpoN/rpoN1) [Escherichia coli strain 12867]
MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADALEQKEMPE
ELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDDTGYLTVPLED
ILESMGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIINDHLDLLANHDFRTLMRVTR
LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIR
SNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELK
YFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV

Nucleotide


Download         Length: 1434 bp        

>NTDB_id=915487 ABYD38_RS25420 WP_032276664.1 4986845..4988278(+) (rpoN/rpoN1) [Escherichia coli strain 12867]
ATGAAGCAAGGTTTGCAACTCAGGCTTAGCCAACAACTGGCGATGACGCCACAGCTCCAACAGGCAATTCGTCTGTTGCA
GTTGTCGACGCTGGAACTTCAGCAGGAGCTACAGCAGGCGCTGGAGAGTAATCCGCTGCTTGAGCAAATCGACACTCATG
AAGAAATCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGATGCGCTCGAACAAAAAGAGATGCCGGAA
GAGCTGCCGCTCGATGCCAGTTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCGGTGACTACATTGACGA
TGAGCTGCCGGTCTATCAGGGCGAAACGACGCAGACCTTGCAGGATTACCTGATGTGGCAGGTCGAGCTGACACCGTTTT
CCGACACTGACCGCGCTATTGCTACCTCTATCGTCGATGCCGTTGATGACACCGGTTATCTGACTGTCCCGCTGGAAGAT
ATTCTCGAAAGTATGGGCGATGAAGAGATCGACATCGACGAGGTTGAAGCCGTCCTTAAGCGGATCCAACGGTTTGATCC
GGTCGGTGTAGCGGCAAAAGATCTGCGTGACTGCCTGCTAATCCAACTCTCCCAATTCGATAAAACCACGCCGTGGCTGG
AAGAGGCCAGATTGATCATTAACGATCATCTCGATCTGTTAGCCAATCACGACTTCCGCACTTTAATGCGCGTCACGCGT
CTGAAAGAAGATGTGCTGAAAGAAGCCGTCAATCTGATCCAGTCGCTCGATCCGCGCCCCGGGCAGTCGATCCAGACTGG
CGAACCTGAGTATGTCATTCCAGATGTGCTGGTGCGTAAGCATAACGGTCACTGGACAGTAGAACTCAACAGTGACAGCA
TTCCGCGTCTGCAAATCAACCAGCACTACGCCTCGATGTGCAATAACGCTCGCAATGATGGTGACAGCCAGTTTATCCGC
AGCAATCTGCAGGATGCCAAATGGTTGATCAAGAGTCTGGAAAGCCGTAACGATACGCTACTGCGCGTGAGTCGCTGTAT
CGTTGAACAGCAGCAAGCCTTCTTTGAGCAAGGCGAAGAATATATGAAACCGATGGTACTGGCCGATATCGCCCAGGCTG
TCGAAATGCATGAATCGACGATATCTCGCGTGACCACGCAAAAATACCTGCATAGTCCACGAGGCATTTTTGAACTGAAG
TATTTCTTTTCCAGTCACGTCAATACCGAGGGCGGCGGCGAAGCTTCCTCCACGGCGATTCGTGCGCTGGTGAAGAAATT
AATCGCGGCGGAAAACCCAGCGAAACCGTTGAGCGACAGCAAGTTAACCTCTTTGCTGTCGGAACAAGGTATCATGGTGG
CACGCCGCACTGTTGCGAAGTACCGAGAGTCTTTATCCATTCCGCCGTCAAACCAGCGTAAACAGCTCGTTTGA

Domains

Predicted by InterProScan.

Sigma-54 factor, core binding domain (Sigma54_CBD)

(116-303)

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

(5-48)

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

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

44.422

100

0.468