Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   L1F30_RS04885 Genome accession   NZ_CP090959
Coordinates   1104140..1105870 (-) Length   576 a.a.
NCBI ID   WP_253360126.1    Uniprot ID   -
Organism   Simiduia sp. 21SJ11W-1     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1099140..1110870
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  L1F30_RS04860 (L1F30_04860) - 1100136..1101104 (+) 969 WP_253360109.1 Nudix family hydrolase -
  L1F30_RS04865 (L1F30_04865) - 1101157..1101366 (-) 210 WP_253360111.1 DNA gyrase inhibitor YacG -
  L1F30_RS04870 (L1F30_04870) coaE 1101405..1102019 (-) 615 WP_253360120.1 dephospho-CoA kinase -
  L1F30_RS04875 (L1F30_04875) pilD 1102009..1102854 (-) 846 WP_305879920.1 A24 family peptidase Machinery gene
  L1F30_RS04880 (L1F30_04880) pilC 1102902..1104134 (-) 1233 WP_253360124.1 type II secretion system F family protein Machinery gene
  L1F30_RS04885 (L1F30_04885) pilB 1104140..1105870 (-) 1731 WP_253360126.1 type IV-A pilus assembly ATPase PilB Machinery gene
  L1F30_RS04895 (L1F30_04895) - 1106204..1106719 (+) 516 WP_305879921.1 pilin -
  L1F30_RS04900 (L1F30_04900) - 1106943..1107968 (+) 1026 WP_253360128.1 hypothetical protein -
  L1F30_RS04905 (L1F30_04905) - 1107961..1109076 (+) 1116 WP_253360130.1 acyltransferase -
  L1F30_RS04910 (L1F30_04910) - 1109066..1109821 (+) 756 WP_253360132.1 hypothetical protein -
  L1F30_RS04915 (L1F30_04915) nadC 1109837..1110697 (-) 861 WP_253360134.1 carboxylating nicotinate-nucleotide diphosphorylase -

Sequence

Protein


Download         Length: 576 a.a.        Molecular weight: 62591.54 Da        Isoelectric Point: 5.0172

>NTDB_id=646677 L1F30_RS04885 WP_253360126.1 1104140..1105870(-) (pilB) [Simiduia sp. 21SJ11W-1]
MNAPSPQISGLARRLVKDGLLTEDLAKNSLGQAAKEKKPLVQYLVSSGTLDAESIANAASEEFGTPLFDLASLNVESIPK
DSIDRKLINKHQALPLYRRGNRLFVAMADPTNLHALDEIKFQSGCSTEAILVHGDKLSIAIEKFLNAQEESIGDALGGLD
DDALEDLDIQAVDEDGGKDEAAGNEADEAPIVKFINKVLLDAIKSGASDIHFEPYEKAYRVRFRTDGILQEVARPPVNLA
TRLSARLKVMSQMDISERRVPQDGRIKMKISKTRAIDFRVNTLPTLFGEKIVLRILDPSSAKLGIDALGYEDAQKKIFMD
ALAQPQGMILVTGPTGSGKTVSLYTGLNILNTPEINISTAEDPVEINLEGINQVQMNTKVGLTFAEALRSFLRQDPDVVM
VGEIRDLETAEIGIKAAQTGHLVLSTLHTNSAPETLTRLLNMGVPAFNVATTVSVIIAQRLARRLCSNCKKPATDIPDEI
LTEEGFDDIGIPRAEFELYHPVGCPQCNNGYKGRVGVYEVVRITPKISSIIMEGGNSLDIAKAAKEEGFNNLRISALRKA
AWGVTSLAEANRVTKD

Nucleotide


Download         Length: 1731 bp        

>NTDB_id=646677 L1F30_RS04885 WP_253360126.1 1104140..1105870(-) (pilB) [Simiduia sp. 21SJ11W-1]
ATGAATGCACCCTCTCCTCAGATTAGCGGCCTTGCACGAAGATTGGTGAAAGATGGTCTCCTCACGGAGGATCTTGCTAA
GAACTCGCTCGGGCAGGCAGCAAAAGAGAAAAAACCGCTTGTCCAATATTTGGTCAGCAGTGGCACACTGGATGCTGAAT
CCATTGCTAACGCCGCATCTGAAGAGTTTGGTACGCCCCTGTTTGATTTGGCGAGCTTAAATGTAGAGTCCATCCCCAAA
GACTCCATTGATAGAAAGCTAATCAATAAACATCAAGCCCTGCCCCTATACCGCAGAGGTAACAGGCTATTTGTGGCAAT
GGCAGACCCTACAAACCTGCACGCCCTGGATGAAATCAAGTTTCAGTCTGGCTGTAGCACCGAAGCAATACTGGTTCACG
GCGACAAACTCAGTATTGCCATTGAAAAGTTCCTGAATGCTCAAGAAGAATCCATTGGTGACGCCCTGGGCGGCCTAGAC
GATGACGCGCTTGAAGACCTGGATATACAAGCGGTAGATGAAGACGGCGGCAAGGACGAAGCTGCCGGCAATGAGGCAGA
CGAGGCGCCCATTGTTAAGTTCATCAATAAGGTGCTTTTGGATGCCATTAAATCTGGCGCTTCAGATATCCACTTTGAAC
CCTATGAAAAAGCCTACCGGGTGAGGTTCCGTACAGACGGGATTTTGCAAGAAGTAGCCAGGCCACCCGTGAACCTTGCC
ACGCGGCTGTCAGCACGTCTTAAGGTAATGTCTCAAATGGACATCTCTGAGCGGCGCGTGCCACAAGATGGCCGCATCAA
GATGAAGATATCCAAAACCCGCGCCATCGACTTCCGGGTTAACACACTGCCTACGCTCTTTGGTGAAAAAATTGTACTGC
GTATTCTTGACCCCTCCTCGGCCAAGCTGGGTATTGATGCACTGGGCTATGAAGACGCCCAGAAAAAGATCTTTATGGAC
GCACTGGCCCAACCACAGGGGATGATACTGGTAACAGGCCCTACCGGTTCCGGTAAAACCGTATCGCTCTACACAGGCCT
GAATATTCTGAACACGCCTGAAATAAACATCAGCACCGCCGAAGATCCGGTAGAGATTAACCTTGAAGGCATTAACCAGG
TTCAGATGAACACCAAGGTGGGCCTTACCTTTGCCGAGGCGCTGCGCTCTTTCCTGCGTCAGGATCCGGATGTGGTGATG
GTGGGTGAGATTCGAGACCTGGAAACCGCCGAAATCGGCATTAAGGCCGCCCAAACCGGGCACCTGGTGCTTTCTACACT
GCACACCAATAGCGCGCCTGAAACCCTTACCCGCTTGCTTAACATGGGTGTTCCTGCCTTTAACGTGGCCACAACGGTGA
GCGTGATTATTGCCCAGCGCCTGGCCAGGCGCCTGTGCAGCAACTGCAAGAAGCCTGCAACCGACATTCCCGATGAAATT
CTTACCGAAGAAGGCTTTGATGATATCGGTATTCCCAGGGCAGAATTTGAGCTTTACCACCCGGTAGGTTGCCCACAGTG
TAATAATGGGTACAAAGGCCGGGTTGGCGTATATGAAGTGGTTCGCATCACACCTAAGATCTCCAGCATTATAATGGAGG
GCGGCAATTCACTTGATATTGCAAAAGCCGCCAAAGAAGAAGGTTTCAACAACCTAAGAATTTCCGCGCTTCGCAAAGCA
GCCTGGGGTGTAACCAGCCTCGCAGAAGCTAACCGTGTGACCAAGGATTAA

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

60.801

99.653

0.606
  pilB Acinetobacter baylyi ADP1

60.245

99.132

0.597
  pilB Legionella pneumophila strain ERS1305867

56.14

98.958

0.556
  pilB Vibrio parahaemolyticus RIMD 2210633

51.845

98.785

0.512
  pilB Vibrio campbellii strain DS40M4

50.963

99.132

0.505
  pilB Vibrio cholerae strain A1552

49.288

97.569

0.481
  pilF Neisseria gonorrhoeae MS11

46.585

99.132

0.462
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.409

100

0.384
  pilF Thermus thermophilus HB27

36.159

100

0.363