Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   PM1_RS25510 Genome accession   NZ_CP094343
Coordinates   5771909..5773612 (+) Length   567 a.a.
NCBI ID   WP_009617629.1    Uniprot ID   -
Organism   Pseudomonas sp. M1     
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 5763639..5777553 5771909..5773612 within 0


Gene organization within MGE regions


Location: 5763639..5777553
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PM1_RS25455 (MRY70_25455) - 5763639..5763890 (+) 252 WP_009617650.1 helix-turn-helix domain-containing protein -
  PM1_RS25460 (MRY70_25460) - 5763890..5765086 (+) 1197 WP_009617648.1 type II toxin-antitoxin system HipA family toxin -
  PM1_RS25465 (MRY70_25465) - 5765274..5765501 (-) 228 WP_009617646.1 DUF433 domain-containing protein -
  PM1_RS25470 (MRY70_25470) - 5765567..5765908 (-) 342 WP_009617644.1 type II toxin-antitoxin system HicB family antitoxin -
  PM1_RS25475 (MRY70_25475) - 5765905..5766156 (-) 252 WP_009617642.1 type II toxin-antitoxin system HicA family toxin -
  PM1_RS25480 (MRY70_25480) - 5766260..5766406 (+) 147 WP_024128154.1 hypothetical protein -
  PM1_RS25485 (MRY70_25485) - 5766403..5767476 (-) 1074 WP_009617639.1 diguanylate cyclase -
  PM1_RS25495 (MRY70_25495) - 5767752..5769305 (-) 1554 WP_009617637.1 O-antigen ligase family protein -
  PM1_RS25500 (MRY70_25500) - 5769319..5771154 (-) 1836 WP_161788510.1 sulfatase-like hydrolase/transferase -
  PM1_RS25505 (MRY70_25505) comP 5771276..5771680 (-) 405 WP_009617631.1 pilin Machinery gene
  PM1_RS25510 (MRY70_25510) pilB 5771909..5773612 (+) 1704 WP_009617629.1 type IV-A pilus assembly ATPase PilB Machinery gene
  PM1_RS25515 (MRY70_25515) pilC 5773616..5774833 (+) 1218 WP_009617627.1 type II secretion system F family protein Machinery gene
  PM1_RS25520 (MRY70_25520) pilD 5774836..5775708 (+) 873 WP_009617626.1 A24 family peptidase Machinery gene
  PM1_RS25525 (MRY70_25525) coaE 5775782..5776390 (+) 609 WP_009617624.1 dephospho-CoA kinase -
  PM1_RS25530 (MRY70_25530) yacG 5776387..5776596 (+) 210 WP_009617622.1 DNA gyrase inhibitor YacG -
  PM1_RS25535 (MRY70_25535) - 5776862..5777056 (+) 195 WP_009617620.1 hypothetical protein -
  PM1_RS25540 (MRY70_25540) - 5777056..5777331 (+) 276 WP_024128153.1 type II toxin-antitoxin system mRNA interferase toxin, RelE/StbE family -
  PM1_RS25545 (MRY70_25545) - 5777338..5777553 (-) 216 WP_009617618.1 hypothetical protein -

Sequence

Protein


Download         Length: 567 a.a.        Molecular weight: 62508.53 Da        Isoelectric Point: 5.4556

>NTDB_id=669100 PM1_RS25510 WP_009617629.1 5771909..5773612(+) (pilB) [Pseudomonas sp. M1]
MNDQVVLSGLARQLVIAELLDEKSAQQAQQQAQRNKLSLVTYLVQNKLVKSRPLTELAADQFGVAFCDLSSIDKEGIPKE
LISEKLVRQHRVIPLWRRGNKLFVGLSDPTNHQAVTDVQFSTGLTTEAILVEDDKLGDAIEKLFESATGGLDDLGDVDLD
GLDIESGDAERKEEAIGGDADDAPVVRFVNKMLLDAIKGGSSDLHFEPYEKIYRVRFRTDGMLHEVAKPPIQLASRISAR
LKVMAGLDISERRKPQDGRIKMRVSKSKSIDFRVNTLPTLWGEKIVMRILDSASAQMGIDALGYEDAQKQLYLEALKQPQ
GMILVTGPTGSGKTVSLYTGLNILNTPDINISTAEDPVEINLEGINQVNVNPRQGMDFAQALRAFLRQDPDVIMVGEIRD
LETAEIAIKAAQTGHMVMSTLHTNSAAETLTRLLNMGVASFNLATSTNLIIAQRLARKLCPHCKKEHDVPNETLLHEGFP
EDRIGSFKLYAPVGCENCKNGYKGRVGIYEVVKITPALQRIIMEEGNSIQIAEQARKEGFNDLRTSGLVKAMQGITSLEE
VNRVTKD

Nucleotide


Download         Length: 1704 bp        

>NTDB_id=669100 PM1_RS25510 WP_009617629.1 5771909..5773612(+) (pilB) [Pseudomonas sp. M1]
ATGAACGATCAAGTCGTGCTTTCCGGCCTCGCCCGCCAGTTAGTGATTGCCGAACTTCTTGACGAGAAAAGCGCCCAGCA
GGCGCAACAGCAGGCCCAGCGCAACAAGCTTTCGCTGGTGACCTACCTGGTACAGAACAAGCTGGTGAAAAGCCGGCCCC
TGACCGAACTGGCGGCGGACCAGTTCGGCGTGGCGTTCTGCGACCTCAGCTCGATAGACAAGGAAGGCATCCCGAAAGAG
TTGATCAGCGAGAAACTGGTCCGCCAACACCGGGTCATTCCCCTCTGGCGCCGCGGCAACAAATTGTTCGTCGGCCTTTC
CGACCCGACCAACCACCAAGCCGTTACCGATGTCCAGTTCAGTACCGGCCTGACCACCGAAGCCATCCTGGTCGAGGACG
ATAAGCTCGGCGATGCCATCGAAAAACTCTTCGAGAGCGCTACTGGCGGGCTGGACGATCTGGGCGATGTAGACCTGGAT
GGTCTGGACATAGAAAGCGGCGATGCTGAGCGTAAGGAAGAAGCCATTGGCGGTGATGCCGACGATGCCCCAGTGGTGCG
CTTCGTCAACAAGATGCTGCTGGATGCCATCAAGGGTGGTTCATCAGACTTGCACTTCGAGCCCTACGAGAAGATCTATC
GAGTGCGCTTCCGTACCGACGGCATGTTGCACGAAGTCGCCAAGCCACCGATCCAATTAGCCAGTCGTATTTCCGCACGC
CTGAAGGTGATGGCTGGTCTGGATATTTCCGAGCGGCGCAAACCCCAGGACGGCCGCATCAAGATGCGTGTGTCCAAGAG
CAAGTCCATCGATTTCCGCGTCAACACCCTACCCACACTGTGGGGTGAGAAGATCGTAATGCGGATCCTCGATTCGGCAA
GCGCACAGATGGGCATTGACGCCCTTGGCTATGAAGATGCGCAGAAACAGCTCTATCTGGAGGCCCTGAAGCAACCGCAG
GGAATGATTCTAGTGACCGGTCCAACCGGCTCCGGCAAGACCGTATCTCTGTATACCGGCTTGAATATCCTTAATACCCC
CGACATCAATATCTCCACCGCCGAAGACCCGGTGGAGATCAACCTGGAGGGCATCAACCAGGTCAATGTCAACCCTCGCC
AGGGCATGGACTTCGCTCAGGCGCTGCGCGCCTTTCTGCGCCAGGACCCGGATGTGATCATGGTGGGCGAGATCCGCGAC
CTGGAAACCGCCGAGATCGCCATCAAGGCCGCCCAGACCGGCCATATGGTGATGTCCACCTTGCACACCAACAGTGCTGC
GGAAACCCTGACGCGCCTGCTGAACATGGGGGTGGCCTCCTTCAACCTGGCCACCTCAACCAACCTGATCATTGCCCAAC
GCCTGGCGCGCAAACTCTGCCCGCACTGCAAGAAGGAACACGACGTCCCCAACGAAACCCTGCTCCATGAAGGTTTTCCC
GAGGACAGGATCGGCAGCTTCAAGCTGTACGCCCCCGTGGGGTGTGAAAATTGCAAGAACGGCTACAAGGGCCGCGTGGG
TATTTATGAAGTGGTTAAAATCACGCCGGCGCTGCAGCGGATTATCATGGAGGAAGGCAACTCCATTCAGATCGCGGAGC
AAGCCCGCAAAGAAGGCTTCAATGACCTGCGTACCTCGGGCCTGGTCAAGGCCATGCAAGGCATTACCAGCCTCGAGGAA
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)

(43-147)


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

58.259

99.295

0.578
  pilB Acinetobacter baumannii D1279779

57.848

100

0.578
  pilB Legionella pneumophila strain ERS1305867

55.203

100

0.552
  pilB Vibrio cholerae strain A1552

50.799

99.295

0.504
  pilB Vibrio campbellii strain DS40M4

49.823

99.824

0.497
  pilB Vibrio parahaemolyticus RIMD 2210633

51.75

95.767

0.496
  pilF Neisseria gonorrhoeae MS11

49.559

100

0.496
  pilF Thermus thermophilus HB27

38.947

100

0.392
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.925

93.651

0.374

Multiple sequence alignment