Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   NMD13_RS04925 Genome accession   NZ_CP101034
Coordinates   1029676..1031379 (-) Length   567 a.a.
NCBI ID   WP_370600745.1    Uniprot ID   -
Organism   Pseudomonas nitroreducens strain OT171     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1024676..1036379
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NMD13_RS04885 (NMD13_04870) - 1024767..1025183 (+) 417 WP_370600739.1 GNAT family N-acetyltransferase -
  NMD13_RS04890 (NMD13_04875) - 1025186..1025653 (+) 468 WP_370600740.1 FAD/FMN-containing dehydrogenase -
  NMD13_RS04895 (NMD13_04880) - 1025650..1026339 (+) 690 WP_370600741.1 energy-coupling factor ABC transporter permease -
  NMD13_RS04900 (NMD13_04885) - 1026447..1026662 (+) 216 WP_331318187.1 hypothetical protein -
  NMD13_RS04905 (NMD13_04890) yacG 1026703..1026906 (-) 204 WP_015475735.1 DNA gyrase inhibitor YacG -
  NMD13_RS04910 (NMD13_04895) coaE 1026903..1027511 (-) 609 WP_370600742.1 dephospho-CoA kinase -
  NMD13_RS04915 (NMD13_04900) pilD 1027577..1028449 (-) 873 WP_370600743.1 A24 family peptidase Machinery gene
  NMD13_RS04920 (NMD13_04905) pilC 1028455..1029672 (-) 1218 WP_370600744.1 type II secretion system F family protein Machinery gene
  NMD13_RS04925 (NMD13_04910) pilB 1029676..1031379 (-) 1704 WP_370600745.1 type IV-A pilus assembly ATPase PilB Machinery gene
  NMD13_RS04930 (NMD13_04915) comP 1031603..1032013 (+) 411 WP_370600746.1 pilin Machinery gene
  NMD13_RS04935 (NMD13_04920) - 1032083..1033867 (+) 1785 WP_370600747.1 tetratricopeptide repeat protein -
  NMD13_RS04945 (NMD13_04930) galE 1034653..1035633 (-) 981 WP_370600748.1 UDP-glucose 4-epimerase GalE -

Sequence

Protein


Download         Length: 567 a.a.        Molecular weight: 62727.90 Da        Isoelectric Point: 5.4686

>NTDB_id=708275 NMD13_RS04925 WP_370600745.1 1029676..1031379(-) (pilB) [Pseudomonas nitroreducens strain OT171]
MNDQVVLSGLARQLVLSQLLDEDSARQAQQQAQRNKLSLVTYLVQNKLVKGRPLMELAADQFGVAFCDLASLDKESLPKE
LVSEKLIRQHRVLPLWRRGNKLFVGLSDPTNHQAITDIQFSTGLTTEAILVEDDRLGDAIEKFFESATGGLDDLGDVDLE
GLDIEDANAERKEEAIGGDADDAPVVRFVNKMLLDAIKGGSSDLHFEPYEKVYRVRFRTDGMLQEVAKPPVQLVSRISAR
LKVMAGLDISERRKPQDGRIKMRVSKTKSIDFRVNTLPTLWGEKIVMRILDSASAQMGIDALGYEEEQKQLYLAALKQPQ
GMILVTGPTGSGKTVSLYTGLNILNTPDINISTAEDPVEINLEGINQVNVNPKQGLDFAQALRAFLRQDPDVIMVGEIRD
LETAEIAIKAAQTGHMVMSTLHTNSAAETLTRLLNMGVASFNLATSTNLIIAQRLARKLCPTCKKEHDVPRETLLHEGFP
EDRIGSFKLYAPVGCENCKHGYKGRVGIYEVVKITPALQRIIMEEGNSIQIAEQARKEGFNDLRTSGLLKAMQGITSLEE
INRVTKD

Nucleotide


Download         Length: 1704 bp        

>NTDB_id=708275 NMD13_RS04925 WP_370600745.1 1029676..1031379(-) (pilB) [Pseudomonas nitroreducens strain OT171]
ATGAATGATCAAGTCGTCTTGTCCGGCCTTGCACGGCAACTAGTGCTGTCTCAACTCCTGGATGAAGACAGCGCACGGCA
GGCTCAGCAGCAAGCGCAACGCAACAAGCTGTCGCTAGTGACTTACCTTGTGCAGAACAAGCTGGTGAAAGGTCGCCCTC
TGATGGAGTTGGCCGCCGACCAGTTCGGCGTTGCCTTCTGCGACTTGGCGAGCCTCGACAAGGAGAGCCTCCCCAAGGAA
CTGGTCAGCGAGAAACTCATCCGCCAACACCGCGTTCTACCTTTGTGGCGTCGAGGCAACAAACTTTTCGTCGGCCTGTC
GGACCCGACCAACCACCAAGCAATCACCGATATACAGTTCAGTACAGGCCTGACCACCGAGGCCATCCTGGTTGAGGATG
ACAGGCTCGGCGACGCCATCGAAAAGTTCTTCGAGAGCGCGACGGGCGGCCTGGACGACTTGGGCGACGTCGACCTGGAA
GGCCTGGACATCGAGGACGCCAACGCCGAACGCAAGGAGGAAGCCATCGGCGGCGACGCCGACGACGCCCCGGTGGTGCG
TTTCGTGAACAAGATGCTGCTGGATGCCATCAAGGGCGGCTCGTCCGACCTGCACTTCGAGCCCTATGAAAAAGTCTACA
GGGTTCGCTTCCGCACCGATGGCATGCTTCAGGAAGTGGCCAAGCCGCCGGTCCAGCTAGTCAGCCGTATCTCGGCGCGC
CTCAAGGTGATGGCCGGCCTGGACATCTCCGAGCGCCGCAAACCCCAGGATGGCCGCATCAAGATGCGTGTCTCCAAGAC
CAAGTCCATCGACTTCCGCGTCAACACCCTGCCCACGCTGTGGGGCGAGAAGATCGTGATGCGTATCCTCGACTCGGCCA
GCGCGCAAATGGGCATCGACGCCCTGGGCTACGAGGAGGAGCAGAAACAGTTGTATCTCGCGGCACTGAAGCAGCCGCAA
GGGATGATCCTGGTGACCGGCCCCACCGGCTCGGGCAAGACGGTATCCCTCTATACCGGCCTGAATATCCTCAACACGCC
GGACATCAATATTTCCACCGCCGAAGACCCGGTGGAGATCAACCTGGAAGGCATCAACCAGGTCAACGTCAACCCGAAAC
AAGGCCTGGACTTCGCCCAGGCATTGCGCGCCTTCCTGCGTCAGGACCCTGACGTGATCATGGTCGGGGAGATCCGCGAC
CTTGAGACCGCGGAAATTGCCATCAAGGCCGCACAGACCGGGCACATGGTGATGTCCACCCTGCACACCAACAGCGCCGC
GGAAACCCTGACACGCCTGCTGAACATGGGGGTTGCCTCGTTCAACCTCGCCACCTCGACCAACCTGATCATTGCCCAGC
GCCTGGCACGCAAACTCTGCCCGACCTGCAAGAAGGAACACGACGTACCACGCGAAACGCTGCTCCATGAAGGTTTCCCG
GAAGACAGGATCGGCTCGTTCAAGCTCTACGCCCCGGTCGGCTGCGAAAACTGCAAGCACGGCTACAAGGGGCGTGTGGG
TATTTATGAAGTAGTTAAAATCACGCCGGCGCTGCAGCGGATTATCATGGAAGAAGGCAATTCCATTCAGATCGCCGAAC
AAGCCCGCAAAGAAGGCTTCAACGATCTGCGCACCTCGGGCCTGCTGAAAGCCATGCAGGGCATTACCAGCCTCGAGGAA
ATCAACCGCGTGACCAAGGATTAA

Domains

Predicted by InterproScan.

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

(43-147)

Type II/IV secretion system protein (T2SSE)

(191-458)


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

58.407

99.647

0.582
  pilB Acinetobacter baylyi ADP1

58.333

99.471

0.58
  pilB Legionella pneumophila strain ERS1305867

54.85

100

0.549
  pilB Vibrio parahaemolyticus RIMD 2210633

52.399

95.591

0.501
  pilF Neisseria gonorrhoeae MS11

49.912

100

0.499
  pilB Vibrio campbellii strain DS40M4

51.292

95.591

0.49
  pilB Vibrio cholerae strain A1552

52.182

92.945

0.485
  pilB/pilB1 Synechocystis sp. PCC 6803

36.511

100

0.399
  pilF Thermus thermophilus HB27

37.961

100

0.381
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.171

93.651

0.367