Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   V6S41_RS02980 Genome accession   NZ_CP145655
Coordinates   605915..607348 (-) Length   477 a.a.
NCBI ID   WP_000809051.1    Uniprot ID   A0A0H2VDV8
Organism   Escherichia coli strain S1-IND-01-B     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 600915..612348
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  V6S41_RS02945 (V6S41_02945) elbB 601607..602260 (+) 654 WP_001546146.1 isoprenoid biosynthesis glyoxalase ElbB -
  V6S41_RS02950 (V6S41_02950) mtgA 602257..602985 (+) 729 WP_000047069.1 monofunctional biosynthetic peptidoglycan transglycosylase -
  V6S41_RS02955 (V6S41_02955) yrbL 602982..603614 (-) 633 WP_000620405.1 PhoP regulatory network protein YrbL -
  V6S41_RS02960 (V6S41_02960) npr 603827..604099 (-) 273 WP_000216791.1 PTS phosphocarrier protein NPr -
  V6S41_RS02965 (V6S41_02965) rapZ 604096..604950 (-) 855 WP_000243741.1 RNase adapter RapZ -
  V6S41_RS02970 (V6S41_02970) ptsN 604996..605487 (-) 492 WP_000183674.1 PTS IIA-like nitrogen regulatory protein PtsN -
  V6S41_RS02975 (V6S41_02975) hpf 605605..605892 (-) 288 WP_001176599.1 ribosome hibernation promoting factor -
  V6S41_RS02980 (V6S41_02980) rpoN/rpoN1 605915..607348 (-) 1434 WP_000809051.1 RNA polymerase factor sigma-54 Machinery gene
  V6S41_RS02985 (V6S41_02985) lptB 607396..608121 (-) 726 WP_000224099.1 LPS export ABC transporter ATP-binding protein -
  V6S41_RS02990 (V6S41_02990) lptA 608128..608685 (-) 558 WP_000669785.1 lipopolysaccharide ABC transporter substrate-binding protein LptA -
  V6S41_RS02995 (V6S41_02995) lptC 608654..609229 (-) 576 WP_000030537.1 LPS export ABC transporter periplasmic protein LptC -
  V6S41_RS03000 (V6S41_03000) kdsC 609226..609792 (-) 567 WP_000030016.1 3-deoxy-manno-octulosonate-8-phosphatase KdsC -
  V6S41_RS03005 (V6S41_03005) kdsD 609813..610799 (-) 987 WP_001295557.1 arabinose-5-phosphate isomerase KdsD -
  V6S41_RS03010 (V6S41_03010) yrbG 610813..611790 (-) 978 WP_000922880.1 calcium/sodium antiporter -

Sequence

Protein


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

>NTDB_id=851584 V6S41_RS02980 WP_000809051.1 605915..607348(-) (rpoN/rpoN1) [Escherichia coli strain S1-IND-01-B]
MKQGLQLRLSQQLAMTPQLQQAIRLLQLSTLELQQELQQALESNPLLEQIDTHEEIDTRETQDSETLDTADALEQKEMPE
ELPLDASWDTIYTAGTPSGTSGDYIDDELPVYQGETTQTLQDYLMWQVELTPFSDTDRAIATSIVDAVDDTGYLTVPLED
ILESMGDEEIDIDEVEAVLKRIQRFDPVGVAAKDLRDCLLIQLSQFDKTTPWLEEARLIISDHLDLLANHDFRTLMRVTR
LKEDVLKEAVNLIQSLDPRPGQSIQTGEPEYVIPDVLVRKHNGHWTVELNSDSIPRLQINQHYASMCNNARNDGDSQFIR
SNLQDAKWLIKSLESRNDTLLRVSRCIVEQQQAFFEQGEEYMKPMVLADIAQAVEMHESTISRVTTQKYLHSPRGIFELK
YFFSSHVNTEGGGEASSTAIRALVKKLIAAENPAKPLSDSKLTSLLSEQGIMVARRTVAKYRESLSIPPSNQRKQLV

Nucleotide


Download         Length: 1434 bp        

>NTDB_id=851584 V6S41_RS02980 WP_000809051.1 605915..607348(-) (rpoN/rpoN1) [Escherichia coli strain S1-IND-01-B]
ATGAAGCAAGGTTTGCAACTCAGGCTTAGCCAACAACTGGCGATGACGCCACAGCTCCAACAGGCAATTCGTCTGTTGCA
GTTGTCGACGCTGGAACTTCAGCAAGAGCTACAGCAGGCGCTGGAGAGCAATCCGCTGCTTGAGCAAATCGACACTCATG
AAGAAATCGACACCCGCGAAACGCAAGACAGTGAAACACTGGACACCGCCGACGCGCTCGAACAAAAAGAGATGCCGGAA
GAGCTGCCGCTCGATGCCAGTTGGGACACCATTTACACCGCTGGTACACCATCCGGCACCAGCGGTGACTACATTGATGA
CGAGCTGCCGGTCTATCAGGGCGAAACGACGCAGACCTTACAGGATTACCTGATGTGGCAGGTCGAGTTGACACCGTTTT
CCGACACTGACCGCGCGATTGCTACCTCTATCGTCGATGCCGTTGATGACACCGGTTATCTGACTGTCCCGCTGGAAGAT
ATTCTCGAAAGTATGGGCGATGAAGAGATTGACATCGACGAAGTTGAAGCCGTCCTTAAGCGGATCCAACGGTTTGATCC
AGTCGGTGTGGCGGCAAAAGATCTGCGTGACTGCCTGCTGATCCAACTCTCCCAATTCGATAAGACCACGCCATGGCTGG
AAGAGGCCAGACTGATCATTAGCGATCATCTCGATCTATTAGCCAATCACGACTTCCGCACTTTAATGCGCGTCACGCGT
CTGAAAGAAGATGTGCTGAAAGAAGCCGTCAATCTGATCCAGTCGCTCGATCCGCGCCCCGGGCAGTCGATCCAGACTGG
CGAACCTGAGTATGTCATTCCAGATGTGCTGGTGCGTAAGCATAACGGCCACTGGACGGTAGAACTCAACAGTGACAGCA
TTCCGCGTCTGCAAATCAACCAGCACTACGCCTCGATGTGCAATAACGCGCGCAATGATGGTGATAGCCAGTTTATCCGC
AGCAATCTGCAGGATGCCAAATGGTTGATCAAGAGTCTGGAAAGCCGTAACGATACGCTACTGCGCGTGAGTCGCTGTAT
CGTTGAACAGCAGCAAGCCTTCTTTGAGCAAGGTGAAGAATATATGAAACCGATGGTACTGGCCGATATCGCCCAGGCTG
TCGAAATGCATGAATCGACGATATCTCGCGTGACCACGCAAAAATACCTGCATAGTCCACGAGGCATTTTTGAACTGAAA
TATTTCTTTTCCAGTCACGTCAATACTGAAGGCGGGGGTGAAGCCTCTTCCACAGCGATTCGTGCGCTGGTGAAGAAATT
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