Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB/pilB1   Type   Machinery gene
Locus tag   VYI56_RS04040 Genome accession   NZ_CP142915
Coordinates   826164..827657 (+) Length   497 a.a.
NCBI ID   WP_053887090.1    Uniprot ID   -
Organism   Escherichia coli strain B19374     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 821164..832657
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VYI56_RS04020 (VYI56_04020) pilD 821812..822621 (+) 810 WP_001338812.1 prepilin peptidase PppA Machinery gene
  VYI56_RS04025 (VYI56_04025) gspS2 822687..823097 (+) 411 WP_001460060.1 type II secretion system pilot lipoprotein GspS-beta -
  VYI56_RS04030 (VYI56_04030) gspC 823115..824074 (+) 960 WP_001352155.1 type II secretion system protein GspC -
  VYI56_RS04035 (VYI56_04035) gspD 824104..826164 (+) 2061 WP_000498824.1 type II secretion system secretin GspD -
  VYI56_RS04040 (VYI56_04040) pilB/pilB1 826164..827657 (+) 1494 WP_053887090.1 type II secretion system ATPase GspE Machinery gene
  VYI56_RS04045 (VYI56_04045) gspF 827657..828880 (+) 1224 WP_053887089.1 type II secretion system inner membrane protein GspF -
  VYI56_RS04050 (VYI56_04050) gspG 828897..829352 (+) 456 WP_001087289.1 type II secretion system major pseudopilin GspG -
  VYI56_RS04055 (VYI56_04055) gspH 829356..829919 (+) 564 WP_001115154.1 type II secretion system minor pseudopilin GspH -
  VYI56_RS04060 (VYI56_04060) gspI 829916..830287 (+) 372 WP_000820113.1 type II secretion system minor pseudopilin GspI -
  VYI56_RS04065 (VYI56_04065) gspJ 830284..830889 (+) 606 WP_024168650.1 type II secretion system minor pseudopilin GspJ -
  VYI56_RS04070 (VYI56_04070) gspK 830886..831863 (+) 978 WP_053887088.1 type II secretion system minor pseudopilin GspK -

Sequence

Protein


Download         Length: 497 a.a.        Molecular weight: 55218.38 Da        Isoelectric Point: 6.0390

>NTDB_id=842450 VYI56_RS04040 WP_053887090.1 826164..827657(+) (pilB/pilB1) [Escherichia coli strain B19374]
MVPVAQETTANTVRLPYSFSRRFSLVAWCEASLEILHVHPLSLSVLQELQRGLNAPFTLRQIDEAEFEQRLNAVWQRDSS
EARQLMEDLGSAEDFFTLAEELPETEDLLESDDDAPIIKLINAMLAEAIKEGASDIHIETFEKSLVIRFRVDGTLHEMLR
PGRKLASLLVSRIKVMARLDIAEKRVPQDGRIALLLGGRAIDVRVSTMPSAWGERVVLRLLDKNQARLTLERLGLSQQLT
AQLRQLLHKPHGIFLVTGPTGSGKSTTLYAGLQELNNHSRNILTVEDPIEYMIEGIGQTQVNTRVGMTFARGLRAILRQD
PDVVMVGEIRDTETAEIAVQASLTGHLVLSTLHTNTAVGAITRLQDMGVEPFLLSSSLTGVMAQRLVRTLCPDCRQPAPA
TDEEKRLLGITDARTVTLYHPQGCPACNHKGFRGRTAIHELIVVDATLRDLIHRQAGELELERYVRQHSAGIRSNGIEKV
LAGETSLDEVLRITMEA

Nucleotide


Download         Length: 1494 bp        

>NTDB_id=842450 VYI56_RS04040 WP_053887090.1 826164..827657(+) (pilB/pilB1) [Escherichia coli strain B19374]
ATGGTGCCTGTAGCACAGGAAACCACCGCCAACACCGTGCGTCTGCCCTACAGTTTCAGCCGTCGGTTTAGCCTGGTGGC
ATGGTGCGAAGCGTCGCTGGAGATCCTCCACGTTCATCCGCTATCGCTCTCTGTTTTGCAGGAGCTGCAGCGGGGGCTGA
ACGCGCCCTTTACGCTGCGGCAAATCGACGAGGCCGAATTTGAACAGCGGCTGAATGCGGTCTGGCAGCGGGACTCTTCC
GAGGCTCGCCAGCTGATGGAAGATCTCGGTTCTGCCGAGGACTTTTTTACCCTCGCGGAAGAACTGCCGGAAACGGAAGA
TCTGCTGGAAAGCGACGACGATGCGCCGATCATCAAACTGATCAACGCCATGCTGGCAGAGGCAATCAAAGAAGGCGCTT
CGGATATCCACATTGAGACGTTTGAAAAGAGTCTGGTGATCCGTTTTCGTGTTGACGGCACATTACATGAAATGCTGCGT
CCGGGGCGCAAACTGGCCTCGCTGCTGGTGTCGCGTATCAAGGTGATGGCGCGGCTGGACATTGCCGAAAAGCGCGTGCC
GCAGGATGGACGTATTGCGCTGTTGCTGGGCGGCCGGGCGATTGACGTGCGTGTCTCCACCATGCCTTCTGCCTGGGGCG
AGCGCGTGGTGCTGCGACTGCTGGACAAAAACCAGGCCCGCCTGACGCTGGAGCGTCTGGGGCTTAGCCAGCAACTGACC
GCGCAGTTGCGCCAGCTGTTACACAAACCGCACGGCATCTTTCTGGTGACGGGGCCGACGGGTTCCGGCAAAAGCACCAC
GCTGTACGCCGGATTGCAGGAGCTGAACAACCATTCGCGCAACATTCTCACGGTTGAAGATCCCATCGAATACATGATTG
AAGGGATCGGTCAGACGCAGGTTAACACCCGCGTCGGCATGACCTTTGCCCGTGGGCTGCGCGCGATTTTGCGTCAGGAC
CCGGATGTGGTGATGGTCGGTGAAATCCGCGATACCGAAACCGCAGAAATCGCCGTCCAGGCTTCACTTACCGGACACCT
GGTCCTTTCCACGCTGCATACCAACACAGCGGTGGGGGCGATCACACGTTTGCAGGATATGGGCGTGGAGCCTTTCCTGC
TCTCTTCCAGTCTGACGGGCGTGATGGCGCAGCGACTGGTTCGCACGCTGTGTCCCGACTGCCGCCAGCCCGCACCAGCC
ACTGACGAAGAAAAACGCCTGCTGGGAATTACCGACGCCCGTACCGTCACTCTGTACCATCCACAGGGCTGTCCCGCCTG
TAATCACAAAGGTTTTCGCGGACGGACTGCCATCCATGAGCTGATCGTGGTGGATGCCACATTGCGTGATTTGATCCACC
GTCAGGCCGGGGAGCTGGAGCTGGAACGTTATGTCCGACAACACTCTGCGGGTATCCGCAGCAACGGCATTGAGAAAGTG
CTCGCCGGAGAAACCTCTCTCGATGAAGTTCTGCGGATAACCATGGAGGCGTAA

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

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

39.187

100

0.427
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

47.529

85.513

0.406
  pilB Vibrio parahaemolyticus RIMD 2210633

48.363

79.879

0.386
  pilB Vibrio campbellii strain DS40M4

47.222

79.678

0.376
  pilB Legionella pneumophila strain ERS1305867

43.387

86.72

0.376
  pilB Acinetobacter baumannii D1279779

46.366

80.282

0.372
  pilB Vibrio cholerae strain A1552

45.96

79.678

0.366
  pilF Thermus thermophilus HB27

45

80.483

0.362