Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   M5M_RS17575 Genome accession   NC_018868
Coordinates   3941391..3943121 (-) Length   576 a.a.
NCBI ID   WP_015048858.1    Uniprot ID   -
Organism   Simiduia agarivorans SA1 = DSM 21679     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3936391..3948121
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  M5M_RS17550 (M5M_17860) - 3937439..3938392 (+) 954 WP_024330114.1 Nudix family hydrolase -
  M5M_RS17555 (M5M_17865) yacG 3938414..3938614 (-) 201 WP_015048854.1 DNA gyrase inhibitor YacG -
  M5M_RS17560 (M5M_17870) coaE 3938662..3939255 (-) 594 WP_015048855.1 dephospho-CoA kinase -
  M5M_RS17565 (M5M_17875) pilD 3939252..3940076 (-) 825 WP_338057834.1 A24 family peptidase Machinery gene
  M5M_RS17570 (M5M_17880) pilC 3940149..3941384 (-) 1236 WP_015048857.1 type II secretion system F family protein Machinery gene
  M5M_RS17575 (M5M_17885) pilB 3941391..3943121 (-) 1731 WP_015048858.1 type IV-A pilus assembly ATPase PilB Machinery gene
  M5M_RS17580 (M5M_17890) - 3943458..3943898 (+) 441 WP_015048859.1 pilin -
  M5M_RS17585 (M5M_17895) - 3943993..3944706 (+) 714 WP_016389906.1 hypothetical protein -
  M5M_RS17590 (M5M_17900) - 3944869..3945609 (-) 741 WP_015048861.1 SDR family NAD(P)-dependent oxidoreductase -
  M5M_RS17595 (M5M_17905) - 3945606..3946922 (-) 1317 WP_015048862.1 FAD-binding oxidoreductase -
  M5M_RS17600 (M5M_17910) - 3946919..3947314 (-) 396 WP_015048863.1 GtrA family protein -

Sequence

Protein


Download         Length: 576 a.a.        Molecular weight: 62792.82 Da        Isoelectric Point: 4.9084

>NTDB_id=54097 M5M_RS17575 WP_015048858.1 3941391..3943121(-) (pilB) [Simiduia agarivorans SA1 = DSM 21679]
MNPPTVQLNGLARRLVKDGLLDEELAKNAINSAQKEKKPLVQYLVSTSALSGQAIAMAAADEFGTPLLDLDSLNTDAIPK
DLVDTKLITKHQALPLFRRGNRLFLAVADPTNLHALDEIKFQTGCSVEAILAEGDKLYKAIEKFLSAQDEALGDSLGGLD
DEGLEDLDIEAVDEEGNKDDSGPSEADEAPIVKFINKVLLDAIKSGASDIHFEPYEKAYRVRFRTDGILHEVARPPVNLA
TRLAARLKVMSQMDISERRVPQDGRIKMKISKSRAIDFRVNTLPTLFGEKIVLRILDPSSAKLGIDALGYEDTQKKMYMD
ALAQPQGMILVTGPTGSGKTVSLYTGLNILNTPEINISTAEDPVEINLEGINQVQMNTKVGLTFAEALRSFLRQDPDVVM
VGEIRDLETAEIAIKAAQTGHMVMSTLHTNSAPETLTRLLNMGVPAFNVATTVSLIIAQRLARRLCGNCKQPANDIPDEI
LSQEGFDDIGIARSDFELYHPKGCDQCNNGYKGRVGVYEVVRITPKISSIIMEGGNSLQIAKAAKEEGFNNLRVSALRKA
AMGLTSLEEANRVTKD

Nucleotide


Download         Length: 1731 bp        

>NTDB_id=54097 M5M_RS17575 WP_015048858.1 3941391..3943121(-) (pilB) [Simiduia agarivorans SA1 = DSM 21679]
ATGAATCCACCTACCGTACAACTTAACGGCCTTGCGCGGCGATTAGTGAAAGATGGCCTTCTTGATGAAGAGCTGGCCAA
AAACGCCATAAACAGCGCGCAAAAAGAAAAGAAGCCGTTGGTTCAATATTTGGTCAGTACCAGCGCCCTCAGCGGCCAGG
CTATCGCAATGGCCGCCGCCGATGAATTTGGCACGCCCCTGCTGGATTTAGACAGTCTGAACACTGACGCGATACCAAAA
GACCTGGTCGACACCAAGTTAATTACCAAACATCAGGCACTGCCGCTATTCAGAAGGGGGAATCGCCTGTTTCTGGCAGT
AGCGGACCCAACCAACCTGCACGCACTGGATGAGATTAAGTTTCAGACGGGATGCTCAGTCGAAGCCATTCTGGCAGAGG
GCGATAAACTCTATAAAGCCATTGAAAAATTCCTGTCAGCACAGGATGAGGCACTGGGAGATTCTTTAGGAGGCCTGGAT
GATGAAGGCCTTGAAGATCTGGATATCGAAGCTGTCGATGAGGAAGGCAACAAGGACGATTCAGGCCCATCGGAGGCCGA
CGAAGCGCCAATTGTAAAGTTTATTAACAAGGTATTGCTCGATGCCATCAAAAGCGGGGCATCGGATATTCACTTTGAAC
CTTACGAAAAGGCCTATCGCGTCCGCTTCCGAACTGACGGGATATTGCATGAGGTAGCCAGACCGCCCGTAAATCTGGCA
ACCCGCTTAGCGGCCCGCCTCAAGGTCATGTCACAAATGGATATCTCGGAACGGCGCGTGCCACAGGACGGCCGGATCAA
GATGAAGATTTCCAAAAGCCGGGCAATAGACTTCCGTGTAAACACGCTACCGACCCTGTTTGGCGAAAAGATAGTACTGC
GGATCCTCGATCCATCTTCTGCCAAGCTGGGTATCGACGCTCTGGGCTATGAAGATACCCAGAAAAAGATGTACATGGAT
GCGTTGGCGCAACCTCAAGGCATGATTCTGGTCACGGGTCCCACTGGATCTGGTAAAACAGTTTCGCTGTACACCGGTTT
AAATATCCTCAATACCCCGGAAATTAATATCAGCACCGCCGAAGACCCGGTAGAAATCAACCTGGAAGGCATCAATCAGG
TACAGATGAACACCAAGGTCGGCCTGACGTTTGCTGAAGCGCTGCGCTCTTTCTTGCGTCAGGACCCGGATGTGGTCATG
GTGGGTGAGATTCGCGACCTGGAGACCGCCGAGATTGCGATCAAGGCGGCACAGACCGGTCACATGGTAATGTCAACACT
GCACACCAACTCTGCACCGGAAACACTGACCCGCCTGTTGAATATGGGCGTCCCGGCTTTTAACGTGGCCACGACAGTCA
GCCTGATTATCGCACAACGCCTGGCGCGACGACTTTGCGGCAACTGTAAGCAACCCGCAAACGATATTCCGGATGAAATC
CTATCGCAAGAAGGTTTTGATGACATTGGCATAGCCCGATCAGATTTTGAACTCTACCATCCCAAGGGCTGTGATCAGTG
CAACAATGGCTACAAGGGCCGCGTGGGGGTTTATGAAGTGGTTCGCATTACACCCAAGATCTCCAGCATTATAATGGAGG
GAGGTAACTCCCTACAGATTGCAAAGGCCGCGAAAGAAGAGGGCTTTAACAATCTTCGTGTCTCGGCATTGAGAAAAGCC
GCCATGGGACTCACCAGCCTAGAAGAAGCAAATCGCGTCACCAAGGACTAA

Domains

Predicted by InterproScan.

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

(44-150)

Type II/IV secretion system protein (T2SSE)

(197-464)


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

60.877

98.958

0.602
  pilB Acinetobacter baylyi ADP1

60.105

99.653

0.599
  pilB Legionella pneumophila strain ERS1305867

56.491

98.958

0.559
  pilB Vibrio campbellii strain DS40M4

50.694

100

0.507
  pilB Vibrio parahaemolyticus RIMD 2210633

51.237

98.264

0.503
  pilB Vibrio cholerae strain A1552

53.445

93.229

0.498
  pilF Neisseria gonorrhoeae MS11

48.682

98.785

0.481
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.366

93.056

0.366

Multiple sequence alignment