Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   ACKVBY_RS11025 Genome accession   NZ_CP183111
Coordinates   2302628..2304061 (-) Length   477 a.a.
NCBI ID   WP_000809051.1    Uniprot ID   A0A0H2VDV8
Organism   Escherichia coli strain 488     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2297628..2309061
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACKVBY_RS10990 (ACKVBY_10975) elbB 2298319..2298972 (+) 654 WP_001299134.1 isoprenoid biosynthesis glyoxalase ElbB -
  ACKVBY_RS10995 (ACKVBY_10980) mtgA 2298969..2299697 (+) 729 WP_000047091.1 monofunctional biosynthetic peptidoglycan transglycosylase -
  ACKVBY_RS11000 (ACKVBY_10985) yrbL 2299694..2300326 (-) 633 WP_000620387.1 PhoP regulatory network protein YrbL -
  ACKVBY_RS11005 (ACKVBY_10990) npr 2300540..2300812 (-) 273 WP_000216791.1 PTS phosphocarrier protein NPr -
  ACKVBY_RS11010 (ACKVBY_10995) rapZ 2300809..2301663 (-) 855 WP_000243741.1 RNase adapter RapZ -
  ACKVBY_RS11015 (ACKVBY_11000) ptsN 2301709..2302200 (-) 492 WP_000183676.1 PTS IIA-like nitrogen regulatory protein PtsN -
  ACKVBY_RS11020 (ACKVBY_11005) hpf 2302318..2302605 (-) 288 WP_001176599.1 ribosome hibernation promoting factor -
  ACKVBY_RS11025 (ACKVBY_11010) rpoN/rpoN1 2302628..2304061 (-) 1434 WP_000809051.1 RNA polymerase factor sigma-54 Machinery gene
  ACKVBY_RS11030 (ACKVBY_11015) lptB 2304109..2304834 (-) 726 WP_000224099.1 LPS export ABC transporter ATP-binding protein -
  ACKVBY_RS11035 (ACKVBY_11020) lptA 2304841..2305398 (-) 558 WP_000669785.1 lipopolysaccharide ABC transporter substrate-binding protein LptA -
  ACKVBY_RS11040 (ACKVBY_11025) lptC 2305367..2305942 (-) 576 WP_000030537.1 LPS export ABC transporter periplasmic protein LptC -
  ACKVBY_RS11045 (ACKVBY_11030) kdsC 2305939..2306505 (-) 567 WP_000030016.1 3-deoxy-manno-octulosonate-8-phosphatase KdsC -
  ACKVBY_RS11050 (ACKVBY_11035) kdsD 2306526..2307511 (-) 986 Protein_2140 arabinose-5-phosphate isomerase KdsD -
  ACKVBY_RS11055 (ACKVBY_11040) yrbG 2307525..2308502 (-) 978 WP_000922872.1 calcium/sodium antiporter -

Sequence

Protein


Download         Length: 477 a.a.        Molecular weight: 53993.79 Da        Isoelectric Point: 4.3639

>NTDB_id=982021 ACKVBY_RS11025 WP_000809051.1 2302628..2304061(-) (rpoN/rpoN1) [Escherichia coli strain 488]
MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADALEQKEMPE
ELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDDTGYLTVPLED
ILESMGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR
LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIR
SNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELK
YFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV

Nucleotide


Download         Length: 1434 bp        

>NTDB_id=982021 ACKVBY_RS11025 WP_000809051.1 2302628..2304061(-) (rpoN/rpoN1) [Escherichia coli strain 488]
ATGAAGCAAGGTTTGCAACTCAGGCTTAGCCAACAACTGGCGATGACGCCACAGCTCCAACAGGCAATTCGTCTGTTGCA
GTTGTCGACGCTGGAACTTCAGCAGGAGCTACAGCAGGCGCTGGAGAGTAATCCGCTGCTTGAGCAAATCGACACTCATG
AAGAAATCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAA
GAGCTGCCGCTCGATGCCAGTTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCGGTGACTACATTGACGA
TGAGCTGCCGGTCTATCAGGGCGAAACGACGCAGACCTTGCAGGATTACCTGATGTGGCAGGTCGAGCTGACACCGTTTT
CCGACACTGACCGCGCTATTGCTACCTCTATCGTCGATGCCGTTGATGACACCGGTTATCTGACTGTTCCGCTGGAAGAT
ATTCTCGAAAGTATGGGCGATGAAGAGATCGACATCGACGAGGTTGAAGCCGTCCTTAAGCGGATCCAACGGTTTGATCC
GGTCGGTGTAGCGGCAAAAGATCTGCGTGACTGCCTGCTAATCCAACTCTCCCAATTCGATAAAACCACGCCGTGGCTGG
AAGAGGCCAGACTGATCATTAGCGATCATCTCGATCTGTTAGCCAATCACGACTTCCGCACTTTAATGCGCGTCACGCGT
CTGAAAGAAGATGTGCTGAAAGAAGCCGTCAATCTGATCCAGTCGCTCGATCCGCGCCCCGGGCAGTCGATCCAGACTGG
CGAACCTGAGTATGTCATTCCAGATGTGCTGGTGCGTAAGCATAACGGTCACTGGACGGTAGAACTCAACAGTGACAGCA
TTCCGCGTCTGCAAATCAACCAGCACTACGCCTCGATGTGCAATAACGCGCGCAACGATGGTGACAGCCAGTTTATCCGC
AGCAATCTGCAGGATGCCAAATGGTTGATCAAGAGTCTGGAAAGCCGTAACGATACGCTACTGCGCGTGAGTCGCTGTAT
CGTTGAACAGCAGCAAGCCTTCTTTGAGCAAGGTGAAGAATATATGAAACCGATGGTACTGGCCGATATCGCCCAGGCTG
TCGAAATGCATGAATCGACGATATCTCGCGTGACCACGCAAAAATACCTGCATAGTCCACGAGGCATTTTTGAACTGAAG
TATTTCTTTTCCAGTCACGTCAATACCGAGGGCGGCGGCGAAGCTTCCTCCACGGCGATTCGTGCGCTGGTGAAGAAATT
AATCGCGGCGGAAAACCCAGCGAAACCGTTGAGCGACAGCAAGTTAACCTCTTTGCTGTCGGAACAAGGTATCATGGTGG
CACGCCGCACTGTTGCGAAGTACCGAGAGTCTTTATCCATTCCGCCGTCAAACCAGCGTAAACAGCTCGTTTGA

Domains

Predicted by InterProScan.

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

(5-48)

Sigma-54, DNA binding domain (Sigma54_DBD)

(317-475)

Sigma-54 factor, core binding domain (Sigma54_CBD)

(116-303)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A0A0H2VDV8

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

44.223

100

0.465