Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   ELR50_RS12660 Genome accession   NZ_CP034688
Coordinates   2866460..2868163 (+) Length   567 a.a.
NCBI ID   WP_269964080.1    Uniprot ID   -
Organism   Pseudomonas citronellolis strain WXP-4     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type MGE coordinates Gene coordinates Relative position Distance (bp)
Genomic island 2850394..2870259 2866460..2868163 within 0


Gene organization within MGE regions


Location: 2850394..2870259
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ELR50_RS12550 (ELR50_12475) - 2850394..2851590 (+) 1197 WP_269964071.1 type II toxin-antitoxin system HipA family toxin -
  ELR50_RS12555 (ELR50_12480) - 2851778..2851927 (-) 150 WP_237770692.1 DUF433 domain-containing protein -
  ELR50_RS12560 (ELR50_12485) - 2852075..2852416 (-) 342 WP_043318088.1 type II toxin-antitoxin system HicB family antitoxin -
  ELR50_RS12565 (ELR50_12490) - 2852413..2852664 (-) 252 WP_269964072.1 type II toxin-antitoxin system HicA family toxin -
  ELR50_RS12570 (ELR50_12500) - 2852911..2853984 (-) 1074 WP_269964073.1 diguanylate cyclase -
  ELR50_RS12575 (ELR50_12505) - 2854304..2855518 (+) 1215 WP_269964074.1 site-specific integrase -
  ELR50_RS12580 (ELR50_12510) - 2855515..2856210 (-) 696 WP_156060094.1 hypothetical protein -
  ELR50_RS12585 (ELR50_12515) - 2856209..2856409 (+) 201 WP_043272284.1 helix-turn-helix domain-containing protein -
  ELR50_RS12590 - 2856406..2856534 (+) 129 WP_256204891.1 hypothetical protein -
  ELR50_RS12595 (ELR50_12520) - 2856531..2856800 (+) 270 WP_269964075.1 hypothetical protein -
  ELR50_RS12600 (ELR50_12525) - 2856797..2857099 (+) 303 WP_269964076.1 hypothetical protein -
  ELR50_RS12605 (ELR50_12530) - 2857223..2857423 (+) 201 WP_043272281.1 helix-turn-helix domain-containing protein -
  ELR50_RS12610 (ELR50_12535) - 2857477..2857869 (+) 393 WP_218187152.1 hypothetical protein -
  ELR50_RS12615 (ELR50_12540) - 2858763..2859989 (+) 1227 WP_269964077.1 phage major capsid protein -
  ELR50_RS12620 (ELR50_12545) - 2860148..2860348 (+) 201 WP_043272279.1 hypothetical protein -
  ELR50_RS12625 (ELR50_12550) - 2860358..2860699 (+) 342 WP_269964078.1 HNH endonuclease -
  ELR50_RS12630 (ELR50_12555) - 2860770..2861252 (+) 483 WP_043272278.1 HK97-gp10 family putative phage morphogenesis protein -
  ELR50_RS12635 (ELR50_12560) - 2861262..2863616 (+) 2355 WP_269964079.1 phage tail tape measure protein -
  ELR50_RS12645 (ELR50_12570) - 2863997..2864650 (-) 654 WP_082656963.1 methyltransferase family protein -
  ELR50_RS12650 (ELR50_12575) - 2864659..2865630 (-) 972 WP_152989201.1 hypothetical protein -
  ELR50_RS12655 (ELR50_12580) comP 2865784..2866230 (-) 447 WP_082656964.1 pilin Machinery gene
  ELR50_RS12660 (ELR50_12585) pilB 2866460..2868163 (+) 1704 WP_269964080.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ELR50_RS12665 (ELR50_12590) pilC 2868167..2869384 (+) 1218 WP_269964081.1 type II secretion system F family protein Machinery gene
  ELR50_RS12670 (ELR50_12595) pilD 2869387..2870259 (+) 873 WP_269964082.1 prepilin peptidase Machinery gene

Sequence

Protein


Download         Length: 567 a.a.        Molecular weight: 62591.58 Da        Isoelectric Point: 5.4556

>NTDB_id=332537 ELR50_RS12660 WP_269964080.1 2866460..2868163(+) (pilB) [Pseudomonas citronellolis strain WXP-4]
MNDQVVLSGLARQLVIAELLDERSAQQAQQQAQRNKLSLVTYLVQNKLVKSRPLTELAADQFGVAFCDLGAIDKDNIPKE
LISEKLVRQHRVIPLWRRGNKLFVGISDPTNHQAITDVQFSTGLTTEAILVEDDKLGDAIEKLFESVTGGLDDLGDVDLE
GLDIESGDAERKEEAIGGDADDAPVVRFVNKMLLDAIKGGSSDLHFEPYEKTYRVRFRTDGMLHEAAKPPIQLASRISAR
LKVMAGLDISERRKPQDGRIKMRVSKSKSIDFRVNTLPTLWGEKIVMRILDSASAQMGIDALGYEDAQKQLYLEALKQPQ
GMILVTGPTGSGKTVSLYTGLNILNTPDINISTAEDPVEINLEGINQVNVNPRQGMDFAQALRAFLRQDPDVIMVGEIRD
LETAEIAIKAAQTGHMVMSTLHTNSAAETLTRLLNMGVASFNLATSTNLIIAQRLARKLCPHCKKEHDVPNETLLHEGFP
EDRIGSFKLYAPVGCENCKNGYKGRVGIYEVVKITPALQRIIMEEGNSIQIAEQARREGFNDLRTSGLLKAMQGITSLEE
VNRVTKD

Nucleotide


Download         Length: 1704 bp        

>NTDB_id=332537 ELR50_RS12660 WP_269964080.1 2866460..2868163(+) (pilB) [Pseudomonas citronellolis strain WXP-4]
ATGAACGATCAAGTCGTGCTCTCCGGCCTCGCCCGCCAGTTGGTCATAGCCGAACTGCTGGATGAAAGAAGCGCCCAGCA
GGCCCAGCAGCAGGCCCAGCGCAACAAGCTCTCGCTGGTGACCTACCTAGTCCAGAACAAGCTAGTGAAGAGCCGGCCAC
TCACCGAACTGGCTGCAGATCAGTTCGGTGTCGCCTTCTGCGATTTAGGTGCTATCGACAAAGACAATATCCCCAAGGAA
CTGATCAGCGAAAAACTGGTGCGCCAGCACCGCGTCATCCCCCTCTGGCGACGCGGTAACAAGCTGTTCGTGGGTATTTC
AGACCCTACCAACCATCAAGCCATTACGGATGTACAGTTCAGTACCGGCCTGACCACCGAAGCCATCTTGGTTGAAGACG
ATAAACTCGGTGATGCGATCGAGAAGCTCTTCGAGAGCGTCACCGGTGGGCTAGACGACCTAGGTGACGTCGATCTAGAA
GGCCTGGATATCGAAAGTGGGGATGCCGAGCGAAAGGAGGAAGCCATCGGCGGTGACGCAGATGACGCGCCGGTAGTGCG
CTTCGTCAACAAGATGCTGCTGGATGCCATCAAGGGTGGCTCGTCCGACCTCCACTTTGAGCCCTACGAGAAAACTTACC
GGGTGCGCTTCCGTACCGACGGCATGCTACATGAGGCGGCCAAGCCACCAATCCAACTGGCTAGTCGCATTTCCGCGCGC
CTGAAGGTGATGGCCGGCCTGGACATTTCTGAACGGCGCAAGCCCCAGGATGGGCGCATCAAGATGCGCGTGTCCAAGAG
CAAGTCCATCGACTTCCGCGTTAATACCTTGCCCACACTTTGGGGTGAGAAGATCGTGATGCGGATCCTCGACTCAGCCA
GCGCACAGATGGGCATCGATGCCCTGGGCTACGAGGATGCTCAGAAGCAGCTCTATCTTGAAGCCTTGAAGCAACCGCAA
GGCATGATCCTGGTGACCGGCCCGACAGGCTCCGGCAAGACCGTATCCCTGTATACCGGCCTGAACATTCTCAACACCCC
GGATATCAACATATCCACAGCCGAAGACCCGGTGGAGATCAACCTGGAAGGCATCAACCAGGTCAACGTCAACCCTCGCC
AGGGCATGGACTTCGCCCAGGCCTTACGCGCCTTCCTGCGCCAGGACCCGGACGTGATCATGGTCGGTGAGATCCGTGAC
CTGGAAACCGCCGAGATCGCCATCAAGGCCGCGCAGACCGGCCACATGGTGATGTCCACCCTACACACCAACAGCGCCGC
GGAAACCCTGACGCGTCTGTTGAACATGGGGGTGGCCTCCTTCAACCTGGCCACCTCCACCAACCTGATCATCGCCCAGC
GCCTGGCGCGCAAGCTCTGCCCGCACTGCAAGAAGGAACACGACGTTCCCAACGAAACCCTGCTCCACGAAGGTTTCCCC
GAGGACAGGATCGGCAGCTTCAAGCTGTACGCCCCCGTAGGGTGTGAAAATTGCAAGAACGGGTACAAGGGCCGCGTGGG
TATTTATGAAGTGGTTAAAATCACGCCGGCGCTGCAGCGGATTATCATGGAGGAAGGCAACTCCATTCAGATCGCGGAGC
AAGCCCGTAGAGAAGGCTTCAATGACCTGCGCACCTCGGGCCTGCTCAAGGCCATGCAAGGCATTACCAGCCTCGAGGAA
GTCAACCGCGTGACCAAGGATTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(191-458)

Type II secretion system (T2SS), protein E, N-terminal domain (MshEN)

(43-146)


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
  pilB Acinetobacter baylyi ADP1

58.333

99.471

0.58
  pilB Acinetobacter baumannii D1279779

57.522

99.647

0.573
  pilB Legionella pneumophila strain ERS1305867

54.85

100

0.549
  pilB Vibrio cholerae strain A1552

50.799

99.295

0.504
  pilB Vibrio campbellii strain DS40M4

49.823

99.824

0.497
  pilF Neisseria gonorrhoeae MS11

49.559

100

0.496
  pilB Vibrio parahaemolyticus RIMD 2210633

51.565

95.767

0.494
  pilF Thermus thermophilus HB27

39.298

100

0.395
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.887

93.298

0.372

Multiple sequence alignment