Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   DM292_RS14000 Genome accession   NZ_CP029772
Coordinates   3000928..3002631 (-) Length   567 a.a.
NCBI ID   WP_110777982.1    Uniprot ID   -
Organism   Stutzerimonas frequens strain R2A2     
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 2998094..3006558 3000928..3002631 within 0


Gene organization within MGE regions


Location: 2998094..3006558
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  DM292_RS13985 (DM292_13985) coaE 2998094..2998702 (-) 609 WP_110777979.1 dephospho-CoA kinase -
  DM292_RS13990 (DM292_13990) pilD 2998835..2999701 (-) 867 WP_110777981.1 A24 family peptidase Machinery gene
  DM292_RS13995 (DM292_13995) pilC 2999705..3000925 (-) 1221 WP_063544459.1 type II secretion system F family protein Machinery gene
  DM292_RS14000 (DM292_14000) pilB 3000928..3002631 (-) 1704 WP_110777982.1 type IV-A pilus assembly ATPase PilB Machinery gene
  DM292_RS21835 (DM292_14005) pilA 3002997..3003182 (+) 186 WP_110777984.1 prepilin-type N-terminal cleavage/methylation domain-containing protein Machinery gene
  DM292_RS21470 - 3003197..3003643 (+) 447 WP_162621589.1 hypothetical protein -
  DM292_RS14010 (DM292_14010) - 3003715..3003894 (+) 180 WP_110777985.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  DM292_RS14015 (DM292_14015) - 3004015..3004824 (+) 810 WP_110777986.1 ABC transporter permease -
  DM292_RS14020 (DM292_14020) - 3004826..3005665 (+) 840 WP_230725236.1 hypothetical protein -
  DM292_RS14025 (DM292_14025) - 3005662..3006558 (+) 897 WP_110777987.1 ABC transporter ATP-binding protein -

Sequence

Protein


Download         Length: 567 a.a.        Molecular weight: 62226.22 Da        Isoelectric Point: 5.4633

>NTDB_id=295989 DM292_RS14000 WP_110777982.1 3000928..3002631(-) (pilB) [Stutzerimonas frequens strain R2A2]
MNENAPLGGLARQLVLVGQLDEKIAQQAQQQALRNQVPLVTWLVQNKLVKSRVLVGIAGEQFGVPFFDLGALDKETQPKE
LVSEKLVRQHRALPLQRRGNKLYVAVSDPTNHQAISDIQFNTGLSVEAVLVEDDKLGEAIEKFFESATSSLEGLNDSELD
GLDIEVAGDAKEDDAAHNEADDAPVVRFVNKMLLDAIKGGSSDLHFEPYEKSYRVRFRTDGMLHEVARPPVQLVSRISAR
LKVMASLDIAERRKPQDGRIKMKVSSTKSIDFRVNTLPTLWGEKIVMRILDSSSAKMGIDALGYEDDQKELYLSALKQPQ
GMILVTGPTGSGKTVSLYTGLNILNTVDVNISTAEDPVEINLEGINQVNVNPKQGMDFAQALRAFLRQDPDIIMVGEIRD
LETAEIAIKAAQTGHMVMSTLHTNSAAETLTRLRNMGVPAFNIATSVNLIIAQRLARKLCPSCKQEVDVPRDVLLSEGFP
EARIGSFKLYGPVGCDSCKGGYKGRVGIYEVVKITPALQRLIMEEGNSIDIALQARRDGFNDLRTSGLVKAMNGVTSLEE
VNRVTKD

Nucleotide


Download         Length: 1704 bp        

>NTDB_id=295989 DM292_RS14000 WP_110777982.1 3000928..3002631(-) (pilB) [Stutzerimonas frequens strain R2A2]
ATGAACGAAAACGCGCCCCTTGGCGGCTTGGCCCGGCAGCTGGTTCTCGTAGGCCAGCTCGACGAAAAAATCGCACAGCA
GGCCCAGCAGCAAGCCTTGCGTAACCAAGTGCCTTTGGTGACTTGGTTGGTGCAGAACAAGCTGGTCAAAAGTCGGGTGC
TTGTCGGTATCGCCGGTGAGCAGTTTGGCGTTCCGTTCTTTGATTTGGGGGCGCTGGACAAAGAAACCCAGCCGAAGGAA
CTGGTCAGCGAGAAGCTGGTGCGCCAGCACCGCGCTCTGCCGTTGCAGCGACGAGGCAACAAGCTTTATGTGGCGGTGTC
CGATCCAACCAACCATCAGGCGATCAGTGATATTCAGTTCAATACGGGGCTTTCCGTTGAGGCTGTGCTGGTTGAGGACG
ACAAGCTCGGTGAGGCCATCGAAAAGTTCTTCGAGTCGGCGACCTCGTCCCTCGAAGGATTGAACGATTCCGAGTTGGAT
GGCTTGGATATCGAAGTGGCCGGTGACGCCAAGGAGGACGATGCGGCGCATAACGAAGCCGATGATGCGCCAGTGGTGCG
CTTTGTTAACAAGATGCTGCTCGATGCGATCAAGGGTGGTTCGTCCGATTTGCACTTCGAGCCTTATGAAAAGAGCTATC
GGGTGCGCTTTCGTACGGACGGCATGTTGCACGAGGTTGCTCGCCCGCCGGTCCAGTTGGTCAGCCGTATCTCAGCGCGT
TTGAAAGTAATGGCCAGTCTGGATATCGCCGAGCGGCGCAAACCGCAGGACGGGCGGATCAAGATGAAGGTCTCGAGCAC
CAAGTCGATCGATTTTCGCGTGAATACGCTACCCACTCTGTGGGGCGAGAAGATCGTTATGCGAATTTTGGATTCTTCCA
GTGCCAAGATGGGTATTGATGCGCTGGGGTATGAGGATGACCAGAAGGAGCTCTATCTAAGCGCGCTGAAGCAGCCGCAA
GGGATGATTCTGGTTACCGGCCCGACAGGCTCGGGCAAGACTGTCTCGCTTTATACCGGCCTGAATATTCTCAACACGGT
CGATGTAAATATCTCCACTGCCGAGGATCCGGTAGAGATCAATTTGGAAGGTATCAATCAGGTCAACGTAAATCCGAAGC
AGGGCATGGACTTCGCCCAGGCGCTTCGAGCGTTCCTGCGCCAGGATCCGGACATCATCATGGTCGGTGAGATTCGAGAT
CTCGAAACCGCCGAGATTGCCATCAAGGCAGCGCAGACCGGGCACATGGTGATGTCGACTCTGCATACCAATAGTGCTGC
GGAAACGCTTACGCGCTTGCGCAACATGGGGGTGCCGGCATTCAACATTGCGACATCGGTCAACCTGATCATTGCTCAAC
GGCTGGCTCGTAAGCTGTGCCCCAGCTGCAAGCAAGAAGTCGATGTGCCGCGAGATGTTCTGCTCAGCGAAGGTTTTCCT
GAAGCGCGAATCGGTTCCTTCAAGCTTTACGGGCCGGTGGGGTGCGATAGCTGCAAGGGAGGCTACAAGGGGCGTGTCGG
TATTTATGAAGTGGTTAAAATCACGCCGGCCCTGCAGCGGCTTATCATGGAAGAAGGCAATTCCATCGATATCGCCTTGC
AGGCGCGTAGAGATGGGTTCAATGACCTGCGCACTTCGGGTCTGGTCAAGGCCATGAACGGCGTCACCAGCCTGGAAGAA
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)

(43-148)


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 baumannii D1279779

59.964

99.118

0.594
  pilB Acinetobacter baylyi ADP1

58.511

99.471

0.582
  pilB Legionella pneumophila strain ERS1305867

54.895

100

0.554
  pilB Vibrio cholerae strain A1552

54.102

90.3

0.489
  pilB Vibrio campbellii strain DS40M4

50.733

96.296

0.489
  pilF Neisseria gonorrhoeae MS11

50.645

95.767

0.485
  pilB Vibrio parahaemolyticus RIMD 2210633

53.649

89.418

0.48
  pilF Thermus thermophilus HB27

38.028

100

0.381
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

40.566

93.474

0.379

Multiple sequence alignment