Detailed information    

insolico Bioinformatically predicted

Overview

Name   rpoN/rpoN1   Type   Machinery gene
Locus tag   PCP88_RS28570 Genome accession   NZ_CP115291
Coordinates   6062391..6063884 (+) Length   497 a.a.
NCBI ID   WP_329006928.1    Uniprot ID   -
Organism   Pseudomonas aeruginosa strain F003     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 6057391..6068884
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PCP88_RS28540 (PCP88_28540) - 6057603..6058412 (-) 810 WP_003094343.1 ABC transporter ATP-binding protein -
  PCP88_RS28545 (PCP88_28545) kdsD 6058826..6059806 (+) 981 WP_003094347.1 arabinose-5-phosphate isomerase KdsD -
  PCP88_RS28550 (PCP88_28550) - 6059806..6060345 (+) 540 WP_003098849.1 KdsC family phosphatase -
  PCP88_RS28555 (PCP88_28555) lptC 6060354..6060926 (+) 573 WP_003094353.1 LPS export ABC transporter periplasmic protein LptC -
  PCP88_RS28560 (PCP88_28560) lptA 6060913..6061440 (+) 528 WP_003120916.1 lipopolysaccharide transport periplasmic protein LptA -
  PCP88_RS28565 (PCP88_28565) lptB 6061440..6062165 (+) 726 WP_003094355.1 LPS export ABC transporter ATP-binding protein -
  PCP88_RS28570 (PCP88_28570) rpoN/rpoN1 6062391..6063884 (+) 1494 WP_329006928.1 RNA polymerase factor sigma-54 Machinery gene
  PCP88_RS28575 (PCP88_28575) hpf 6063962..6064270 (+) 309 WP_003094359.1 ribosome hibernation-promoting factor, HPF/YfiA family -
  PCP88_RS28580 (PCP88_28580) ptsN 6064284..6064748 (+) 465 WP_073649628.1 PTS IIA-like nitrogen regulatory protein PtsN -
  PCP88_RS28585 (PCP88_28585) rapZ 6064750..6065610 (+) 861 WP_003094361.1 RNase adapter RapZ -
  PCP88_RS28590 (PCP88_28590) - 6065640..6065912 (+) 273 WP_003094362.1 HPr family phosphocarrier protein -
  PCP88_RS28595 (PCP88_28595) - 6066009..6066941 (-) 933 WP_003120918.1 ZIP family metal transporter -
  PCP88_RS28600 (PCP88_28600) - 6066960..6067571 (-) 612 WP_003098862.1 superoxide dismutase -
  PCP88_RS28605 (PCP88_28605) - 6067584..6068033 (-) 450 WP_003094369.1 hypothetical protein -

Sequence

Protein


Download         Length: 497 a.a.        Molecular weight: 56014.19 Da        Isoelectric Point: 4.4070

>NTDB_id=702333 PCP88_RS28570 WP_329006928.1 6062391..6063884(+) (rpoN/rpoN1) [Pseudomonas aeruginosa strain F003]
MKPSLVLKMGQQLTMTPQLQQAIRLLQLSTLDLQQEIQEALESNPMLERQEDGDDFDNSDPLADGAEQAASAPQESPLQE
SATPSVESLDDDQWSERIPSELPVDTAWEDIYQTSASSLPSNDDDEWDFTARTSSGESLHSHLLWQVNLAPMSDTDRMIA
VTIIDSINNDGYLEESLEEILAAIDPELDVELDEVEVVLRRIQQLEPAGIGARNLRECLLLQLRQLPSTTPWLNEALRLV
SDYLDLLGGRDYSQLMRRMKLKEDELRQVIELIQCLHPRPGSQIESSEAEYIVPDVIVRKDNERWLVELNQEAMPRLRVN
ATYAGMVRRADSSADNTFMRNQLQEARWFIKSLQSRNETLMKVATQIVEHQRGFLDYGEEAMKPLVLHDIAEAVGMHEST
ISRVTTQKYMPTPRGIFELKYFFSSHVSTAEGGECSSTAIRAIIKKLVAAENAKKPLSDSKIAGLLEAQGIQVARRTVAK
YRESLGIAPSSERKRLV

Nucleotide


Download         Length: 1494 bp        

>NTDB_id=702333 PCP88_RS28570 WP_329006928.1 6062391..6063884(+) (rpoN/rpoN1) [Pseudomonas aeruginosa strain F003]
ATGAAACCATCGCTAGTCCTCAAGATGGGCCAGCAGCTGACGATGACGCCGCAGCTGCAACAGGCCATACGCCTCCTCCA
GCTATCCACCCTGGACCTCCAGCAGGAAATCCAGGAAGCGCTGGAATCCAATCCCATGCTCGAACGCCAGGAAGACGGCG
ACGATTTCGACAACAGCGACCCTCTCGCCGATGGCGCCGAACAGGCGGCCAGCGCGCCCCAGGAGAGCCCCCTCCAGGAA
AGCGCCACGCCCAGCGTCGAAAGCCTCGACGACGACCAGTGGAGCGAACGCATACCCAGCGAGTTGCCGGTGGATACCGC
CTGGGAAGACATCTACCAGACCAGCGCCAGCAGCCTGCCCAGCAACGACGATGACGAGTGGGACTTCACCGCGCGCACCA
GCAGCGGCGAGAGCCTGCACAGCCACCTGCTCTGGCAGGTCAACCTGGCACCGATGTCGGACACCGATCGGATGATCGCG
GTGACCATCATCGATAGCATCAACAACGATGGCTACCTCGAAGAGTCCCTCGAAGAAATCCTCGCCGCCATCGATCCGGA
ACTGGACGTCGAGCTCGACGAAGTGGAAGTCGTGCTGCGCCGCATCCAGCAACTGGAACCCGCCGGCATCGGCGCCCGCA
ACCTGCGCGAGTGCCTGCTGCTGCAACTGCGCCAGTTGCCGTCCACCACGCCCTGGCTGAACGAAGCGCTGCGCCTGGTA
TCCGACTACCTCGACCTGCTCGGCGGCCGCGACTACAGCCAATTGATGCGGCGCATGAAGCTCAAGGAAGACGAACTGCG
CCAGGTCATCGAGCTGATCCAGTGCCTGCATCCCCGGCCCGGTTCGCAGATCGAATCGAGCGAAGCCGAATACATCGTCC
CCGACGTCATCGTGCGCAAGGACAACGAGCGCTGGCTGGTCGAGCTGAACCAGGAGGCGATGCCACGCCTGCGCGTCAAC
GCCACCTACGCCGGCATGGTCCGCCGCGCCGACAGCAGCGCCGACAATACCTTCATGCGCAACCAGTTGCAGGAAGCCCG
CTGGTTCATCAAGAGCCTGCAGAGCCGCAACGAAACGCTGATGAAGGTCGCCACCCAGATCGTCGAGCACCAGCGCGGTT
TCCTCGACTACGGCGAAGAAGCCATGAAGCCGCTGGTCCTGCACGACATCGCCGAAGCGGTGGGCATGCACGAATCGACC
ATTTCGCGGGTCACCACGCAGAAATACATGCCTACGCCGCGCGGCATTTTCGAGCTGAAATATTTCTTTTCAAGTCACGT
CAGTACCGCCGAAGGCGGGGAATGCTCGTCCACCGCGATCCGCGCGATCATCAAGAAACTGGTGGCCGCGGAAAATGCGA
AAAAGCCATTGAGCGACAGCAAGATCGCTGGTTTACTGGAGGCACAGGGCATTCAAGTGGCTCGCCGCACCGTCGCCAAA
TACCGCGAATCCCTGGGCATAGCCCCTTCGAGCGAGCGCAAGCGACTGGTGTGA

Domains

Predicted by InterProScan.

Sigma-54, DNA binding domain (Sigma54_DBD)

(337-495)

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

(5-48)

Sigma-54 factor, core binding domain (Sigma54_CBD)

(129-323)


Secondary structure

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



3D structure

Source ID Structure

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

46.654

100

0.477