Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB/pilB1   Type   Machinery gene
Locus tag   RM375_RS03900 Genome accession   NZ_CP134715
Coordinates   805417..806910 (+) Length   497 a.a.
NCBI ID   WP_000249340.1    Uniprot ID   A0A0H2Z2Q5
Organism   Escherichia coli strain RIVM_C040753     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 800417..811910
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RM375_RS03880 (RM375_03880) pilD 801065..801874 (+) 810 WP_000895858.1 prepilin peptidase PppA Machinery gene
  RM375_RS03885 (RM375_03885) gspS2 801940..802350 (+) 411 WP_202847154.1 type II secretion system pilot lipoprotein GspS-beta -
  RM375_RS03890 (RM375_03890) gspC 802368..803327 (+) 960 WP_000135098.1 type II secretion system protein GspC -
  RM375_RS03895 (RM375_03895) gspD 803357..805417 (+) 2061 WP_000498844.1 type II secretion system secretin GspD -
  RM375_RS03900 (RM375_03900) pilB/pilB1 805417..806910 (+) 1494 WP_000249340.1 type II secretion system ATPase GspE Machinery gene
  RM375_RS03905 (RM375_03905) gspF 806910..808133 (+) 1224 WP_001173403.1 type II secretion system inner membrane protein GspF -
  RM375_RS03910 (RM375_03910) gspG 808150..808605 (+) 456 WP_001087289.1 type II secretion system major pseudopilin GspG -
  RM375_RS03915 (RM375_03915) gspH 808609..809172 (+) 564 WP_001541736.1 type II secretion system minor pseudopilin GspH -
  RM375_RS03920 (RM375_03920) gspI 809169..809540 (+) 372 WP_000820085.1 type II secretion system minor pseudopilin GspI -
  RM375_RS03925 (RM375_03925) gspJ 809537..810142 (+) 606 WP_001335612.1 type II secretion system minor pseudopilin GspJ -
  RM375_RS03930 (RM375_03930) gspK 810139..811116 (+) 978 WP_202847155.1 type II secretion system minor pseudopilin GspK -

Sequence

Protein


Download         Length: 497 a.a.        Molecular weight: 55139.25 Da        Isoelectric Point: 5.8815

>NTDB_id=807511 RM375_RS03900 WP_000249340.1 805417..806910(+) (pilB/pilB1) [Escherichia coli strain RIVM_C040753]
MVPVAQETTANTVRLPYSFSRRFSLVAWCEASLEILHVHPLSLSVLQELQRGLNAPFTLRQIDEAEFEQRLNAVWQRDSS
EARQLMEDLGSAEDFFTLAEELPETEDLLESDDDAPIIKLINAMLAEAIKEGASDIHIETFEKSLVIRFRVDGTLHEMLR
PGRKLASLLVSRIKVMARLDIAEKRVPQDGRIALLLGGRAIDVRVSTMPSAWGERVVLRLLDKNQARLTLERLGLSLELT
AQLRQLLHKPHGIFLVTGPTGSGKSTTLYAGLQELNNHSRNILTVEDPIEYMIEGIGQTQVNTRVGMTFARGLRAILRQD
PDVVMVGEIRDTETAEIAVQASLTGHLVLSTLHTNTAVGAITRLQDMGVEPFLLSSSLTGVMAQRLVRTLCSDCRQAAPA
TDEEKRLMGISDTHAVTLYHPQGCPACNHKGFRGRTAIHELIVVDATLRDLIHRQAGELELERYVRQHSAGIRSNGIEKV
LAGETSLDEVLRVTMEA

Nucleotide


Download         Length: 1494 bp        

>NTDB_id=807511 RM375_RS03900 WP_000249340.1 805417..806910(+) (pilB/pilB1) [Escherichia coli strain RIVM_C040753]
ATGGTGCCTGTAGCACAGGAAACCACCGCTAACACCGTGCGTCTGCCCTACAGTTTCAGCCGTCGGTTTAGCCTGGTGGC
ATGGTGCGAAGCGTCGCTGGAGATCCTCCATGTTCATCCGTTGTCGCTCTCTGTTTTGCAGGAGCTACAACGGGGGCTGA
ACGCGCCCTTTACGCTGCGGCAAATCGACGAGGCCGAATTTGAACAGCGGCTGAATGCGGTCTGGCAGCGGGACTCTTCC
GAAGCTCGCCAGCTGATGGAAGATCTCGGTTCCGCCGAGGACTTTTTTACCCTCGCTGAAGAACTGCCGGAAACGGAAGA
TCTGCTGGAAAGTGACGACGATGCGCCGATCATCAAACTGATCAACGCCATGCTGGCAGAGGCAATCAAAGAAGGCGCTT
CGGATATCCACATTGAGACGTTTGAAAAGAGTCTGGTGATCCGTTTTCGTGTTGACGGCACATTACATGAAATGTTGCGC
CCCGGTCGTAAACTGGCCTCGCTGCTGGTCTCGCGTATCAAGGTGATGGCGCGACTGGATATCGCCGAAAAGCGCGTACC
GCAGGATGGCCGTATTGCGCTGCTGCTGGGCGGTCGGGCGATTGACGTCCGTGTATCTACCATGCCTTCCGCCTGGGGAG
AACGGGTGGTGCTGCGACTGCTGGACAAAAACCAGGCTCGCCTGACGCTGGAGCGTCTGGGTTTAAGTCTCGAACTGACT
GCGCAGTTGCGCCAGCTGTTACACAAACCGCACGGCATTTTTCTGGTGACGGGGCCGACCGGTTCCGGCAAAAGCACCAC
GCTGTACGCTGGATTGCAGGAGCTGAACAACCACTCGCGTAACATTCTCACGGTTGAAGACCCTATCGAATACATGATTG
AAGGGATCGGTCAGACGCAGGTTAACACCCGCGTCGGCATGACATTCGCCCGTGGCCTGCGCGCAATTTTGCGTCAGGAC
CCGGATGTGGTGATGGTCGGTGAAATCCGCGATACCGAAACCGCAGAAATCGCTGTTCAGGCTTCACTGACCGGACACCT
GGTACTTTCCACGCTGCATACCAACACAGCGGTGGGGGCGATCACACGTTTGCAGGATATGGGCGTGGAGCCTTTCCTGC
TCTCTTCCAGTCTGACGGGCGTGATGGCGCAGCGACTGGTCCGCACGCTGTGCTCCGACTGCCGTCAGGCCGCGCCTGCC
ACTGACGAAGAAAAACGTCTTATGGGGATCTCCGATACGCATGCCGTCACGCTGTACCATCCGCAGGGCTGCCCTGCCTG
TAATCACAAAGGTTTTCGCGGACGTACTGCCATCCATGAACTGATTGTGGTGGACGCCACATTGCGTGATTTGATCCACC
GTCAGGCCGGGGAACTGGAGCTGGAACGTTATGTCCGGCAACACTCTGCGGGTATCCGCAGTAACGGCATTGAGAAAGTG
CTCGCCGGAGAAACCTCTCTCGATGAAGTTCTGCGGGTAACCATGGAGGCGTAA

Domains

Predicted by InterProScan.

Type II/IV secretion system protein (T2SSE)

(123-389)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB A0A0H2Z2Q5

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/pilB1 Synechocystis sp. PCC 6803

39.926

100

0.435
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

47.529

85.513

0.406
  pilB Vibrio parahaemolyticus RIMD 2210633

48.111

79.879

0.384
  pilB Acinetobacter baumannii D1279779

46.867

80.282

0.376
  pilB Vibrio campbellii strain DS40M4

47.222

79.678

0.376
  pilB Legionella pneumophila strain ERS1305867

43.155

86.72

0.374
  pilB Vibrio cholerae strain A1552

46.212

79.678

0.368
  pilF Thermus thermophilus HB27

44.75

80.483

0.36