Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   VB129_RS02610 Genome accession   NZ_CP141844
Coordinates   541906..543339 (-) Length   477 a.a.
NCBI ID   WP_000809051.1    Uniprot ID   A0A0H2VDV8
Organism   Escherichia coli strain HN68     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 536906..548339
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VB129_RS02575 (VB129_02575) elbB 537597..538250 (+) 654 WP_001299134.1 isoprenoid biosynthesis glyoxalase ElbB -
  VB129_RS02580 (VB129_02580) mtgA 538247..538975 (+) 729 WP_324679361.1 monofunctional biosynthetic peptidoglycan transglycosylase -
  VB129_RS02585 (VB129_02585) yrbL 538972..539604 (-) 633 WP_000620405.1 PhoP regulatory network protein YrbL -
  VB129_RS02590 (VB129_02590) npr 539818..540090 (-) 273 WP_000216791.1 PTS phosphocarrier protein NPr -
  VB129_RS02595 (VB129_02595) rapZ 540087..540941 (-) 855 WP_000243741.1 RNase adapter RapZ -
  VB129_RS02600 (VB129_02600) ptsN 540987..541478 (-) 492 WP_000183676.1 PTS IIA-like nitrogen regulatory protein PtsN -
  VB129_RS02605 (VB129_02605) hpf 541596..541883 (-) 288 WP_324679364.1 ribosome hibernation promoting factor -
  VB129_RS02610 (VB129_02610) rpoN/rpoN1 541906..543339 (-) 1434 WP_000809051.1 RNA polymerase factor sigma-54 Machinery gene
  VB129_RS02615 (VB129_02615) lptB 543387..544112 (-) 726 WP_000224099.1 LPS export ABC transporter ATP-binding protein -
  VB129_RS02620 (VB129_02620) lptA 544119..544676 (-) 558 WP_000669785.1 lipopolysaccharide ABC transporter substrate-binding protein LptA -
  VB129_RS02625 (VB129_02625) lptC 544645..545220 (-) 576 WP_000030537.1 LPS export ABC transporter periplasmic protein LptC -
  VB129_RS02630 (VB129_02630) kdsC 545217..545783 (-) 567 WP_000030016.1 3-deoxy-manno-octulosonate-8-phosphatase KdsC -
  VB129_RS02635 (VB129_02635) kdsD 545804..546790 (-) 987 WP_001295557.1 arabinose-5-phosphate isomerase KdsD -
  VB129_RS02640 (VB129_02640) yrbG 546804..547781 (-) 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=838508 VB129_RS02610 WP_000809051.1 541906..543339(-) (rpoN/rpoN1) [Escherichia coli strain HN68]
MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADALEQKEMPE
ELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDDTGYLTVPLED
ILESMGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR
LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIR
SNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELK
YFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV

Nucleotide


Download         Length: 1434 bp        

>NTDB_id=838508 VB129_RS02610 WP_000809051.1 541906..543339(-) (rpoN/rpoN1) [Escherichia coli strain HN68]
ATGAAGCAAGGTTTGCAACTCAGGCTTAGCCAACAACTGGCGATGACGCCACAGCTCCAACAGGCAATTCGTCTGTTGCA
GTTGTCGACGCTGGAACTTCAGCAGGAGCTACAGCAGGCGCTGGAGAGTAATCCGCTGCTTGAGCAAATCGACACTCATG
AAGAAATCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAA
GAGCTGCCGCTCGATGCCAGTTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCGGTGACTACATTGACGA
TGAGCTGCCGGTCTATCAGGGCGAAACGACGCAGACCTTGCAGGATTACCTGATGTGGCAGGTCGAGCTGACACCGTTTT
CCGACACTGACCGCGCTATTGCTACCTCTATCGTCGATGCCGTTGATGACACCGGTTATCTGACTGTCCCGCTGGAAGAT
ATTCTCGAAAGTATGGGCGATGAAGAGATCGACATCGACGAGGTTGAAGCCGTCCTTAAGCGGATCCAACGGTTTGATCC
GGTCGGTGTAGCGGCAAAAGATCTGCGTGACTGCCTGCTAATCCAACTCTCCCAATTCGATAAAACCACGCCGTGGCTGG
AAGAGGCCAGATTGATCATTAGCGATCATCTCGATCTGTTAGCCAATCACGACTTCCGCACTTTAATGCGCGTCACGCGT
CTGAAAGAAGATGTGCTGAAAGAAGCCGTCAATCTGATCCAGTCGCTCGATCCGCGCCCCGGGCAGTCGATCCAGACTGG
CGAACCTGAGTATGTCATTCCAGATGTGCTGGTGCGTAAGCATAACGGTCACTGGACAGTAGAACTCAACAGTGACAGCA
TTCCGCGTCTGCAAATCAACCAGCACTACGCCTCGATGTGCAATAACGCTCGCAATGATGGTGACAGCCAGTTTATCCGC
AGCAATCTGCAGGATGCCAAATGGTTGATCAAGAGTCTGGAAAGCCGTAACGATACGCTACTGCGCGTGAGTCGCTGTAT
CGTTGAACAGCAGCAAGCCTTCTTTGAGCAAGGCGAAGAATATATGAAACCGATGGTACTGGCCGATATCGCCCAGGCTG
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