Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   AWM52_RS17855 Genome accession   NZ_LN854573
Coordinates   3935737..3937437 (-) Length   566 a.a.
NCBI ID   WP_059182145.1    Uniprot ID   -
Organism   Pseudomonas sp. URMO17WK12:I11 isolate Shine     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3930737..3942437
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AWM52_RS17820 (PSHI_36720) - 3931389..3931856 (+) 468 WP_027924173.1 hypothetical protein -
  AWM52_RS17825 (PSHI_36730) - 3931853..3932542 (+) 690 WP_027924172.1 energy-coupling factor ABC transporter permease -
  AWM52_RS17830 (PSHI_36740) - 3932606..3932821 (+) 216 WP_027924171.1 hypothetical protein -
  AWM52_RS17835 (PSHI_36750) yacG 3932826..3933026 (-) 201 WP_027924170.1 DNA gyrase inhibitor YacG -
  AWM52_RS17840 (PSHI_36760) coaE 3933023..3933646 (-) 624 WP_027924169.1 dephospho-CoA kinase -
  AWM52_RS17845 (PSHI_36770) pilD 3933643..3934515 (-) 873 WP_059182143.1 A24 family peptidase Machinery gene
  AWM52_RS17850 (PSHI_36780) pilC 3934517..3935734 (-) 1218 WP_059182144.1 type II secretion system F family protein Machinery gene
  AWM52_RS17855 (PSHI_36790) pilB 3935737..3937437 (-) 1701 WP_059182145.1 type IV-A pilus assembly ATPase PilB Machinery gene
  AWM52_RS17860 (PSHI_36800) - 3937663..3938085 (+) 423 WP_027924165.1 pilin -
  AWM52_RS17865 (PSHI_36820) - 3938396..3938749 (+) 354 WP_027924164.1 BON domain-containing protein -
  AWM52_RS17870 (PSHI_36830) - 3938931..3939227 (-) 297 WP_027924163.1 DUF2845 domain-containing protein -
  AWM52_RS17875 (PSHI_36840) - 3939227..3942178 (-) 2952 WP_032833554.1 DUF748 domain-containing protein -

Sequence

Protein


Download         Length: 566 a.a.        Molecular weight: 62599.63 Da        Isoelectric Point: 5.8552

>NTDB_id=1114721 AWM52_RS17855 WP_059182145.1 3935737..3937437(-) (pilB) [Pseudomonas sp. URMO17WK12:I11 isolate Shine]
MNDIALSGLAKQLVLAELLTDKSAQQAYQQAQRNKISLVSYLVQNKLVKSRQIAEIASEHFGMALLDLNGLDRETQPKGL
VSEKLIRQHHALPLWRRGNKLFVGVSDPTNHQAINDIQFSTGLNTEAILVEDDKLSEAIEKFFDSHASGLEDMADVDLDG
LDIESADDNKNDAIAGQDADDAPVVRFVHKMLLDAIKSGSSDLHFEPYEKTYRVRMRTDGMLREVAKPPIQLASRIAARL
KVMASLDISERRKPQDGRIKMRLSKSKSIDFRVNTLPTLWGEKVVIRILDPASAQMGIDALGYEPDQKDLYMAALKQPQG
MILVTGPTGSGKTVSLYTGLNILNTVDINISTAEDPVEINMEGINQVNVNPKQGLDFAQALRSFLRQDPDVIMVGEIRDL
ETAEIAIKAAQTGHMVLSTLHTNSAAETLTRLLNMGIQGFNIATSVTLIIAQRLARKLCSHCKTPIEIPRETLLKEGFPE
ERIGSFTIYDPVGCDQCNGGYKGRVGIYEVVKNTKDLQRLIMAEGNSLEIDSQMRKDGFNDLRTSGLIKAMHGVTSLEEI
NRVTKD

Nucleotide


Download         Length: 1701 bp        

>NTDB_id=1114721 AWM52_RS17855 WP_059182145.1 3935737..3937437(-) (pilB) [Pseudomonas sp. URMO17WK12:I11 isolate Shine]
ATGAATGACATCGCCCTTAGCGGTCTGGCCAAGCAATTGGTCCTGGCCGAGCTGCTCACTGACAAAAGCGCGCAACAGGC
GTATCAGCAAGCCCAACGCAATAAAATCTCCCTGGTCAGTTACCTGGTGCAAAACAAACTGGTGAAGAGCCGCCAGATCG
CCGAGATCGCCTCGGAGCATTTCGGCATGGCGCTGCTCGACCTCAATGGCCTGGACAGGGAAACCCAGCCCAAGGGACTG
GTCAGCGAAAAACTGATCCGCCAGCACCACGCCCTACCCCTCTGGCGGCGCGGCAACAAGTTGTTCGTGGGGGTTTCCGA
CCCGACCAATCATCAGGCGATCAATGACATCCAGTTCAGCACCGGGCTAAACACCGAAGCCATCCTGGTGGAGGACGACA
AACTCAGTGAGGCCATCGAAAAATTCTTCGACAGCCACGCCAGTGGCCTGGAAGACATGGCAGACGTTGACCTCGATGGG
TTGGACATCGAGTCGGCCGACGACAACAAAAATGACGCCATCGCCGGGCAGGATGCCGATGACGCCCCCGTGGTGCGGTT
CGTCCACAAAATGCTGCTCGACGCGATCAAGAGCGGCTCTTCCGACCTGCACTTCGAGCCCTACGAAAAAACCTACCGGG
TGCGGATGCGCACCGACGGCATGTTGCGCGAAGTGGCCAAGCCGCCCATCCAGTTGGCCAGCCGCATTGCGGCGCGGCTG
AAAGTCATGGCCAGCCTGGACATCTCCGAGCGGCGCAAACCTCAGGACGGGCGGATCAAAATGCGCCTGTCCAAAAGCAA
GTCCATCGACTTTCGGGTCAATACCCTGCCGACCTTGTGGGGCGAGAAAGTGGTGATCCGGATCCTCGACCCGGCCAGCG
CGCAAATGGGCATTGATGCCCTCGGCTACGAACCCGACCAGAAAGACCTGTACATGGCCGCCCTGAAGCAGCCACAGGGG
ATGATTCTGGTCACCGGCCCCACCGGCTCGGGCAAGACCGTGTCGCTCTACACCGGCCTGAATATTCTCAACACCGTCGA
CATCAACATTTCCACCGCCGAAGACCCGGTAGAGATCAACATGGAAGGCATCAATCAGGTCAACGTCAATCCCAAGCAAG
GGCTGGATTTCGCCCAGGCACTGCGTTCGTTCCTGCGCCAGGACCCGGACGTGATCATGGTCGGCGAAATCCGTGACCTC
GAAACCGCCGAGATCGCCATCAAGGCCGCGCAGACCGGGCACATGGTGCTGTCCACTTTGCACACCAACAGCGCGGCCGA
AACCCTGACCCGTTTGCTCAACATGGGCATTCAGGGCTTCAACATCGCCACCTCGGTCACCCTGATCATCGCCCAGCGAC
TGGCGCGCAAATTGTGCAGTCACTGCAAGACACCCATCGAGATTCCCCGCGAAACGCTGCTCAAGGAAGGCTTTCCCGAG
GAACGCATCGGCTCATTCACGATCTATGATCCGGTCGGTTGCGATCAGTGCAACGGCGGCTACAAAGGGCGAGTCGGGAT
TTATGAAGTGGTGAAGAACACCAAGGACCTGCAACGGCTGATCATGGCCGAAGGCAATTCACTGGAAATCGACAGCCAGA
TGCGCAAGGACGGTTTCAACGACTTGCGCACCTCGGGCCTGATCAAGGCCATGCACGGCGTCACCAGCCTTGAAGAAATC
AACCGGGTCACCAAGGACTGA

Domains

Predicted by InterproScan.

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

(42-147)

Type II/IV secretion system protein (T2SSE)

(190-457)


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

58.688

99.647

0.585
  pilB Acinetobacter baylyi ADP1

58.792

99.47

0.585
  pilB Legionella pneumophila strain ERS1305867

56.637

99.823

0.565
  pilB Vibrio cholerae strain A1552

50.179

98.94

0.496
  pilF Neisseria gonorrhoeae MS11

49.911

99.47

0.496
  pilB Vibrio parahaemolyticus RIMD 2210633

50.364

97.173

0.489
  pilB Vibrio campbellii strain DS40M4

49.201

99.47

0.489
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.057

93.64

0.366
  pilF Thermus thermophilus HB27

36.042

100

0.36

Multiple sequence alignment