Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   LCHO_RS21040 Genome accession   NC_010524
Coordinates   4735796..4737406 (-) Length   536 a.a.
NCBI ID   WP_012349217.1    Uniprot ID   B1XYP0
Organism   Leptothrix cholodnii SP-6     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4730796..4742406
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LCHO_RS21015 (Lcho_4220) - 4731180..4731803 (+) 624 WP_012349212.1 TRAP transporter small permease subunit -
  LCHO_RS21020 (Lcho_4221) - 4731800..4733821 (+) 2022 WP_012349213.1 TRAP transporter large permease -
  LCHO_RS21025 (Lcho_4222) - 4733841..4734464 (-) 624 WP_012349214.1 membrane protein -
  LCHO_RS21030 (Lcho_4223) - 4734610..4735215 (+) 606 WP_012349215.1 2-hydroxychromene-2-carboxylate isomerase -
  LCHO_RS21035 (Lcho_4224) - 4735237..4735515 (-) 279 WP_150105540.1 hypothetical protein -
  LCHO_RS21040 (Lcho_4225) rpoN/rpoN1 4735796..4737406 (-) 1611 WP_012349217.1 RNA polymerase factor sigma-54 Machinery gene
  LCHO_RS21045 (Lcho_4226) lptB 4737426..4738202 (-) 777 WP_043706094.1 LPS export ABC transporter ATP-binding protein -
  LCHO_RS21050 (Lcho_4227) lptA 4738229..4738864 (-) 636 WP_012349219.1 lipopolysaccharide transport periplasmic protein LptA -
  LCHO_RS21055 (Lcho_4228) - 4739007..4739654 (-) 648 WP_338033640.1 thiol:disulfide interchange protein DsbA/DsbL -
  LCHO_RS21060 (Lcho_4229) - 4739710..4740360 (-) 651 WP_223210479.1 SPOR domain-containing protein -
  LCHO_RS21065 (Lcho_4230) argS 4740380..4742065 (-) 1686 WP_012349222.1 arginine--tRNA ligase -

Sequence

Protein


Download         Length: 536 a.a.        Molecular weight: 59119.57 Da        Isoelectric Point: 4.6180

>NTDB_id=30449 LCHO_RS21040 WP_012349217.1 4735796..4737406(-) (rpoN/rpoN1) [Leptothrix cholodnii SP-6]
MKPSLQVRLSQHLALTPQLQQSIRLLQLSTLELHQEVEQMLEQNPFLEAEEDSPTPESQVIQERSAPTQEESRYDADTGA
ADAAHEAGVGDPEPVSVEQLDFGAGESREDWDSGHDREDFNSLSDTPAARNGANEDDDSDWSERSTFTPSLPDHLRGQLL
GMRLAGEDMLLVESLIDSLNEDGYLADTLEEIAERLAFGIEAGAVVTGDAIDPVEAATMREELIDRLRCALGWLQSLEPT
GVGARDLPECLVLQLRELDPSPAQAAAIRICQHHLDLLARRDIKKLVTAVAADEALIREAQTLIVALEPKPGRRFARAEA
NIVVPDVIVQKAGRGWRVVLNPDVMPKLRINDMYAQVLRQHRSQRGGATNGGGDGGAMLSSRLQEARWFVKNILQRFDTI
QRVSQAIVERQKGFFTHGEIAMKPLVLREIADELGLHESTISRVTTAKYMNTPFGTFELKYFFGSSLNTDAGGNASSTAV
RALIKQFVAAEDPKKPLSDSQLSTMLEEQGIQVARRTVAKYREALKIAPANLRKDI

Nucleotide


Download         Length: 1611 bp        

>NTDB_id=30449 LCHO_RS21040 WP_012349217.1 4735796..4737406(-) (rpoN/rpoN1) [Leptothrix cholodnii SP-6]
GTGAAACCATCCCTGCAGGTCCGTCTTTCGCAGCATCTGGCGCTGACGCCCCAGTTGCAGCAGTCGATCCGGTTGCTGCA
ACTGTCGACCCTCGAGCTGCATCAGGAAGTCGAGCAGATGCTCGAACAGAACCCCTTCCTCGAGGCCGAAGAAGACAGCC
CCACGCCCGAGAGCCAGGTCATCCAGGAGCGCAGCGCCCCGACCCAGGAAGAGTCCCGCTACGACGCCGACACCGGTGCC
GCCGATGCGGCCCACGAAGCCGGCGTCGGCGACCCCGAGCCGGTGAGCGTCGAGCAGCTCGACTTCGGTGCCGGCGAGTC
GCGCGAAGACTGGGACAGCGGCCACGACCGCGAGGACTTCAACAGCCTGTCGGACACCCCCGCGGCGCGCAACGGCGCCA
ACGAGGACGACGACAGCGACTGGAGCGAGCGCTCCACCTTCACGCCCAGCCTGCCCGATCACCTGCGCGGCCAGCTGCTG
GGCATGCGCCTGGCCGGCGAGGACATGCTGCTGGTCGAGTCGCTGATCGACTCGCTCAACGAGGACGGCTACCTGGCCGA
CACGCTCGAGGAGATCGCCGAACGGCTGGCCTTCGGCATCGAGGCCGGTGCGGTCGTGACCGGCGACGCGATCGACCCGG
TCGAGGCCGCGACGATGCGCGAGGAGCTGATCGACCGCCTGCGCTGTGCGCTCGGCTGGCTGCAGAGCCTGGAGCCGACC
GGCGTCGGCGCGCGCGACCTGCCCGAGTGCCTGGTGCTGCAGCTGCGCGAGCTCGACCCGAGCCCGGCGCAGGCCGCCGC
CATCCGCATCTGCCAGCACCACCTCGACCTGCTGGCGCGGCGCGACATCAAGAAGCTCGTCACCGCCGTGGCCGCCGACG
AGGCGCTGATCCGCGAGGCGCAGACGCTGATCGTCGCGCTCGAGCCCAAGCCGGGGCGGCGCTTTGCCCGCGCCGAGGCC
AACATCGTCGTGCCCGACGTGATCGTGCAGAAGGCCGGGCGTGGCTGGCGGGTGGTGCTCAACCCCGACGTCATGCCCAA
GCTGCGCATCAACGACATGTACGCCCAGGTGCTGCGCCAGCACCGCAGCCAGCGCGGCGGTGCCACGAATGGCGGCGGTG
ACGGTGGCGCGATGCTGTCGTCGCGGCTGCAGGAGGCGCGCTGGTTCGTCAAGAACATCCTGCAGCGCTTCGACACCATC
CAGCGTGTCTCGCAGGCCATCGTCGAGCGCCAGAAGGGCTTCTTCACGCACGGCGAGATCGCCATGAAGCCGCTGGTGCT
GCGCGAGATCGCCGACGAGCTGGGGCTGCACGAGTCGACCATCTCGCGCGTGACGACGGCCAAGTACATGAACACGCCGT
TCGGCACCTTCGAGCTCAAGTACTTCTTCGGCAGCTCGCTCAACACCGATGCCGGCGGCAACGCGTCGAGCACCGCGGTG
CGGGCGCTGATCAAGCAGTTCGTGGCGGCCGAGGACCCCAAGAAACCGCTGTCGGACAGCCAGCTGAGCACCATGCTCGA
AGAGCAGGGCATCCAGGTGGCGCGCCGCACGGTGGCCAAGTACCGCGAGGCGCTCAAGATCGCACCGGCGAACCTGCGCA
AGGACATCTGA

Domains

Predicted by InterproScan.

Sigma-54 factor, core binding domain (Sigma54_CBD)

(143-354)

Sigma-54, DNA binding domain (Sigma54_DBD)

(379-534)

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

(4-48)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB B1XYP0

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

52.182

100

0.535

Multiple sequence alignment