Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   FH971_RS18975 Genome accession   NZ_CP041036
Coordinates   4360004..4361710 (+) Length   568 a.a.
NCBI ID   WP_140235341.1    Uniprot ID   A0A4Y5YJF0
Organism   Shewanella polaris strain SM1901     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4355004..4366710
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  FH971_RS18955 (FH971_18955) ampE 4355646..4356497 (-) 852 WP_140235337.1 beta-lactamase regulator AmpE -
  FH971_RS18960 (FH971_18960) ampD 4356656..4357210 (-) 555 WP_140235338.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  FH971_RS18965 (FH971_18965) nadC 4357419..4358297 (+) 879 WP_140235339.1 carboxylating nicotinate-nucleotide diphosphorylase -
  FH971_RS18970 (FH971_18970) - 4359078..4359443 (+) 366 WP_140235340.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  FH971_RS18975 (FH971_18975) pilB 4360004..4361710 (+) 1707 WP_140235341.1 type IV-A pilus assembly ATPase PilB Machinery gene
  FH971_RS18980 (FH971_18980) pilC 4361818..4363089 (+) 1272 WP_140235342.1 type II secretion system F family protein Machinery gene
  FH971_RS18985 (FH971_18985) pilD 4363132..4364058 (+) 927 WP_140235343.1 prepilin peptidase Machinery gene
  FH971_RS18990 (FH971_18990) coaE 4364055..4364684 (+) 630 WP_140235344.1 dephospho-CoA kinase -
  FH971_RS18995 (FH971_18995) zapD 4364677..4365411 (+) 735 WP_140235345.1 cell division protein ZapD -
  FH971_RS19000 (FH971_19000) yacG 4365454..4365666 (+) 213 WP_140235346.1 DNA gyrase inhibitor YacG -
  FH971_RS19005 (FH971_19005) mutT 4365677..4366075 (+) 399 WP_140235347.1 8-oxo-dGTP diphosphatase MutT -

Sequence

Protein


Download         Length: 568 a.a.        Molecular weight: 62852.27 Da        Isoelectric Point: 5.5820

>NTDB_id=369091 FH971_RS18975 WP_140235341.1 4360004..4361710(+) (pilB) [Shewanella polaris strain SM1901]
MSSTGLHLGLSTLFIRKGLLSEEQLSNAISESRKSRHSLVSTLVLSKVLSSREIAELCYEEYGTPLLDLNEFEISSIPED
LLNKKLIEKHKCLPLFKRGNRLYIATSDPTNIAALEDFQFSLGLHAEAILVEDDKLLKALEKIIEDDISGLDLAGVDEEA
LANMEVTDNERRDEPTGDSSDDAPIVIYINKILTDAIRKGASDLHFEPYEKRYRIRFRIDGILHEVSEPPVNLSNRISAR
LKVMSKLDIAERRVPQDGRIKMKLSRTKSIDFRVSSLPTIWGEKIVMRILDSSSAQLGIEKLGYEDDQRLLYEEMLAKPQ
GMILVTGPTGSGKTVSLYTGLNILNTEERNISTAEDPVEINLEGVNQVHINLKAGLTFASALRSFLRQDPDVVMVGEIRD
LETAEIAIKAAQTGHLVLSTLHTNSAAETLTRLINMGVPGYNIASSVNLIIAQRLARRLCPACKHEEIIPVAELQRLGFA
EADIAKGFTVFKPVGCELCSGGYKGRVGIYEVMKMSDEIARTIMEGGNSLQIATLAKQQGMRDLRQSGLLKVIHGVTSIA
EINRVTSF

Nucleotide


Download         Length: 1707 bp        

>NTDB_id=369091 FH971_RS18975 WP_140235341.1 4360004..4361710(+) (pilB) [Shewanella polaris strain SM1901]
ATGTCTTCTACTGGACTACATTTAGGATTATCGACACTGTTTATTCGCAAAGGACTGCTTAGCGAAGAGCAATTATCTAA
TGCTATTTCGGAATCGAGAAAGTCGAGACATTCTTTAGTAAGCACCTTAGTTCTATCTAAAGTTTTATCATCACGCGAAA
TTGCAGAATTGTGTTATGAAGAATATGGTACTCCTCTACTCGATTTAAATGAATTTGAAATATCGAGTATTCCTGAAGAC
TTACTTAACAAAAAGCTGATTGAAAAGCACAAATGTTTACCACTTTTTAAAAGGGGTAATCGTCTTTATATTGCAACCTC
AGATCCAACCAATATTGCCGCTCTTGAAGATTTTCAATTTAGTTTAGGTTTACATGCGGAAGCTATTCTCGTTGAGGATG
ATAAGCTCTTAAAAGCACTAGAAAAAATCATTGAAGATGACATTTCAGGGTTAGACTTAGCCGGTGTGGACGAAGAAGCG
CTCGCCAATATGGAAGTTACCGATAATGAAAGGCGGGATGAACCAACTGGTGACAGTAGTGATGATGCCCCCATTGTTAT
CTATATTAATAAAATCCTTACCGATGCCATTCGTAAAGGGGCCTCTGACTTACATTTCGAACCCTATGAAAAACGCTACC
GGATCCGTTTCCGTATTGACGGTATATTACACGAAGTTTCAGAGCCACCGGTGAACCTATCCAACCGAATTTCGGCACGT
TTAAAGGTAATGTCAAAACTCGATATTGCTGAGCGCAGAGTGCCACAAGATGGTCGAATTAAAATGAAACTGTCGCGCAC
CAAATCTATCGATTTTCGAGTCAGTAGCTTGCCCACTATTTGGGGCGAGAAAATCGTAATGCGTATTTTAGACTCATCAT
CCGCACAACTGGGTATTGAAAAGCTCGGGTATGAAGATGATCAACGTTTACTATATGAAGAAATGCTCGCCAAACCTCAA
GGCATGATATTAGTCACTGGCCCCACAGGCTCAGGAAAAACAGTTTCCTTGTACACTGGGCTGAATATTCTTAATACCGA
AGAGCGTAATATCTCTACTGCAGAAGATCCGGTTGAAATTAACCTTGAAGGGGTTAATCAGGTTCATATTAATTTAAAAG
CCGGTTTAACATTCGCATCTGCATTACGCTCATTTTTGCGTCAAGATCCTGATGTAGTAATGGTAGGTGAAATCCGTGAT
TTAGAAACCGCTGAAATCGCCATTAAAGCGGCGCAAACAGGTCATTTAGTGTTATCAACGCTGCACACCAACTCGGCAGC
AGAAACTCTCACGCGTTTAATCAACATGGGGGTTCCTGGTTATAACATTGCCAGTTCCGTTAACTTAATCATTGCTCAAC
GACTTGCCAGACGCTTATGCCCAGCATGTAAACATGAAGAAATAATCCCAGTTGCAGAACTACAACGTTTAGGCTTTGCT
GAAGCAGACATAGCCAAAGGCTTTACCGTATTCAAACCTGTAGGCTGTGAGCTTTGCTCTGGCGGTTATAAGGGCCGAGT
CGGCATTTACGAAGTAATGAAAATGAGTGATGAAATTGCACGCACTATTATGGAAGGTGGTAACTCGCTGCAAATAGCAA
CCCTCGCTAAGCAGCAAGGTATGCGAGATTTACGTCAATCTGGGTTGCTCAAAGTTATCCACGGCGTAACTAGCATCGCG
GAAATTAACCGTGTCACTAGCTTTTAA

Domains

Predicted by InterproScan.

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

(15-143)

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
  AlphaFold DB A0A4Y5YJF0

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 baylyi ADP1

58.036

98.592

0.572
  pilB Acinetobacter baumannii D1279779

57.857

98.592

0.57
  pilB Legionella pneumophila strain ERS1305867

56.584

98.944

0.56
  pilB Vibrio parahaemolyticus RIMD 2210633

52.373

100

0.525
  pilB Vibrio cholerae strain A1552

53.514

97.711

0.523
  pilB Vibrio campbellii strain DS40M4

51.59

99.648

0.514
  pilF Neisseria gonorrhoeae MS11

47.527

99.648

0.474
  pilB/pilB1 Synechocystis sp. PCC 6803

36.098

100

0.391
  pilF Thermus thermophilus HB27

38.859

98.768

0.384
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

37.59

97.887

0.368

Multiple sequence alignment