Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   VYI62_RS13430 Genome accession   NZ_CP142925
Coordinates   2710649..2712082 (+) Length   477 a.a.
NCBI ID   WP_000809051.1    Uniprot ID   A0A0H2VDV8
Organism   Escherichia coli strain B20105     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2705649..2717082
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VYI62_RS13400 (VYI62_13410) yrbG 2706207..2707184 (+) 978 WP_000922873.1 calcium/sodium antiporter -
  VYI62_RS13405 (VYI62_13415) kdsD 2707198..2708184 (+) 987 WP_001295557.1 arabinose-5-phosphate isomerase KdsD -
  VYI62_RS13410 (VYI62_13420) kdsC 2708205..2708771 (+) 567 WP_000030006.1 3-deoxy-manno-octulosonate-8-phosphatase KdsC -
  VYI62_RS13415 (VYI62_13425) lptC 2708768..2709343 (+) 576 WP_000030537.1 LPS export ABC transporter periplasmic protein LptC -
  VYI62_RS13420 (VYI62_13430) lptA 2709312..2709869 (+) 558 WP_000669785.1 lipopolysaccharide ABC transporter substrate-binding protein LptA -
  VYI62_RS13425 (VYI62_13435) lptB 2709876..2710601 (+) 726 WP_000224099.1 LPS export ABC transporter ATP-binding protein -
  VYI62_RS13430 (VYI62_13440) rpoN/rpoN1 2710649..2712082 (+) 1434 WP_000809051.1 RNA polymerase factor sigma-54 Machinery gene
  VYI62_RS13435 (VYI62_13445) hpf 2712105..2712392 (+) 288 WP_001176599.1 ribosome hibernation promoting factor -
  VYI62_RS13440 (VYI62_13450) ptsN 2712510..2713001 (+) 492 WP_000183676.1 PTS IIA-like nitrogen regulatory protein PtsN -
  VYI62_RS13445 (VYI62_13455) rapZ 2713047..2713901 (+) 855 WP_000243741.1 RNase adapter RapZ -
  VYI62_RS13450 (VYI62_13460) npr 2713898..2714170 (+) 273 WP_000216791.1 PTS phosphocarrier protein NPr -
  VYI62_RS13455 (VYI62_13465) yrbL 2714383..2715015 (+) 633 WP_000620396.1 PhoP regulatory network protein YrbL -
  VYI62_RS13460 (VYI62_13470) mtgA 2715012..2715740 (-) 729 WP_020233285.1 monofunctional biosynthetic peptidoglycan transglycosylase -
  VYI62_RS13465 (VYI62_13475) elbB 2715737..2716390 (-) 654 WP_001300411.1 isoprenoid biosynthesis glyoxalase ElbB -

Sequence

Protein


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

>NTDB_id=842641 VYI62_RS13430 WP_000809051.1 2710649..2712082(+) (rpoN/rpoN1) [Escherichia coli strain B20105]
MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADALEQKEMPE
ELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDDTGYLTVPLED
ILESMGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR
LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIR
SNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELK
YFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV

Nucleotide


Download         Length: 1434 bp        

>NTDB_id=842641 VYI62_RS13430 WP_000809051.1 2710649..2712082(+) (rpoN/rpoN1) [Escherichia coli strain B20105]
ATGAAGCAAGGTTTGCAACTCAGGCTTAGCCAACAACTGGCGATGACGCCACAGCTCCAACAGGCAATTCGTCTGTTGCA
GTTGTCGACGCTGGAACTTCAGCAGGAGCTACAGCAGGCGCTGGAGAGTAATCCGCTGCTTGAGCAAATCGACACTCATG
AAGAAATCGACACCCGCGAAACGCAAGACAGTGAAACGCTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAA
GAGCTGCCGCTCGATGCCAGTTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCGGTGACTACATTGACGA
CGAGCTGCCGGTCTATCAGGGCGAAACGACGCAGACCTTGCAGGATTACCTGATGTGGCAGGTCGAGTTGACACCGTTTT
CTGACACTGACCGCGCTATTGCTACCTCTATCGTCGATGCCGTTGATGACACCGGTTATCTGACTGTCCCACTGGAAGAT
ATTCTCGAAAGTATGGGCGATGAAGAGATTGACATCGACGAAGTTGAAGCCGTCCTTAAGCGGATCCAACGGTTTGATCC
GGTCGGTGTGGCAGCAAAAGATCTGCGTGACTGTCTGCTGATCCAACTCTCCCAATTCGATAAAACCACGCCATGGCTGG
AAGAGGCCAGACTGATCATTAGCGATCATCTCGATCTGTTAGCCAATCACGACTTCCGCACTTTAATGCGCGTCACGCGT
CTGAAAGAAGATGTGCTGAAAGAAGCCGTCAATCTGATCCAGTCGCTCGATCCGCGCCCCGGGCAGTCGATCCAGACGGG
CGAACCTGAGTATGTCATTCCAGATGTGCTGGTGCGTAAGCATAACGGTCACTGGACGGTAGAACTCAACAGTGACAGCA
TTCCGCGTCTGCAAATCAACCAGCACTACGCCTCGATGTGCAATAACGCGCGCAACGATGGTGACAGCCAGTTTATCCGC
AGCAATCTGCAGGATGCCAAATGGTTGATCAAGAGTCTGGAAAGCCGTAACGATACGCTACTGCGCGTGAGTCGCTGTAT
CGTTGAACAGCAGCAAGCCTTCTTTGAGCAAGGCGAAGAATATATGAAACCGATGGTACTGGCCGATATCGCCCAGGCTG
TCGAAATGCATGAATCGACGATATCTCGCGTGACCACGCAAAAATACCTGCATAGTCCACGAGGCATTTTTGAACTGAAG
TATTTCTTTTCCAGTCACGTCAATACCGAGGGCGGCGGCGAAGCTTCCTCCACGGCGATTCGTGCGCTGGTTAAGAAATT
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