Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB/pilB1   Type   Machinery gene
Locus tag   VYI63_RS20290 Genome accession   NZ_CP142930
Coordinates   4114233..4115726 (+) Length   497 a.a.
NCBI ID   WP_000249340.1    Uniprot ID   A0A0H2Z2Q5
Organism   Escherichia coli strain B20123     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4109233..4120726
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VYI63_RS20270 (VYI63_20270) pilD 4109881..4110690 (+) 810 WP_000895874.1 prepilin peptidase PppA Machinery gene
  VYI63_RS20275 (VYI63_20275) gspS2 4110756..4111166 (+) 411 WP_001298257.1 type II secretion system pilot lipoprotein GspS-beta -
  VYI63_RS20280 (VYI63_20280) gspC 4111184..4112143 (+) 960 WP_001350730.1 type II secretion system protein GspC -
  VYI63_RS20285 (VYI63_20285) gspD 4112173..4114233 (+) 2061 WP_001350731.1 type II secretion system secretin GspD -
  VYI63_RS20290 (VYI63_20290) pilB/pilB1 4114233..4115726 (+) 1494 WP_000249340.1 type II secretion system ATPase GspE Machinery gene
  VYI63_RS20295 (VYI63_20295) gspF 4115726..4116949 (+) 1224 WP_016239327.1 type II secretion system inner membrane protein GspF -
  VYI63_RS20300 (VYI63_20300) gspG 4116966..4117421 (+) 456 WP_001087289.1 type II secretion system major pseudopilin GspG -
  VYI63_RS20305 (VYI63_20305) gspH 4117425..4117988 (+) 564 WP_001115118.1 type II secretion system minor pseudopilin GspH -
  VYI63_RS20310 (VYI63_20310) gspI 4117985..4118356 (+) 372 WP_000820096.1 type II secretion system minor pseudopilin GspI -
  VYI63_RS20315 (VYI63_20315) gspJ 4118353..4118958 (+) 606 WP_001331694.1 type II secretion system minor pseudopilin GspJ -
  VYI63_RS20320 (VYI63_20320) gspK 4118955..4119932 (+) 978 WP_000633202.1 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=842759 VYI63_RS20290 WP_000249340.1 4114233..4115726(+) (pilB/pilB1) [Escherichia coli strain B20123]
MVPVAQETTANTVRLPYSFSRRFSLVAWCEASLEILHVHPLSLSVLQELQRGLNAPFTLRQIDEAEFEQRLNAVWQRDSS
EARQLMEDLGSAEDFFTLAEELPETEDLLESDDDAPIIKLINAMLAEAIKEGASDIHIETFEKSLVIRFRVDGTLHEMLR
PGRKLASLLVSRIKVMARLDIAEKRVPQDGRIALLLGGRAIDVRVSTMPSAWGERVVLRLLDKNQARLTLERLGLSLELT
AQLRQLLHKPHGIFLVTGPTGSGKSTTLYAGLQELNNHSRNILTVEDPIEYMIEGIGQTQVNTRVGMTFARGLRAILRQD
PDVVMVGEIRDTETAEIAVQASLTGHLVLSTLHTNTAVGAITRLQDMGVEPFLLSSSLTGVMAQRLVRTLCSDCRQAAPA
TDEEKRLMGISDTHAVTLYHPQGCPACNHKGFRGRTAIHELIVVDATLRDLIHRQAGELELERYVRQHSAGIRSNGIEKV
LAGETSLDEVLRVTMEA

Nucleotide


Download         Length: 1494 bp        

>NTDB_id=842759 VYI63_RS20290 WP_000249340.1 4114233..4115726(+) (pilB/pilB1) [Escherichia coli strain B20123]
ATGGTGCCTGTAGCACAGGAAACCACCGCTAACACCGTGCGTCTGCCCTACAGTTTCAGCCGTCGGTTTAGCCTGGTGGC
ATGGTGCGAAGCGTCGCTGGAGATCCTCCATGTTCATCCGTTGTCGCTCTCTGTTTTGCAGGAGCTACAACGGGGGCTGA
ACGCGCCCTTTACGCTGCGGCAAATCGACGAGGCCGAATTTGAACAGCGGCTGAATGCGGTCTGGCAGCGGGACTCTTCC
GAAGCTCGCCAGCTGATGGAAGATCTCGGTTCCGCCGAGGACTTTTTTACCCTCGCTGAAGAACTGCCGGAAACGGAAGA
TCTGCTGGAAAGTGACGACGATGCGCCGATCATCAAACTGATCAACGCCATGCTGGCAGAGGCAATCAAAGAAGGCGCTT
CGGATATCCACATTGAGACGTTTGAAAAGAGTCTGGTGATCCGTTTTCGTGTTGACGGCACATTACATGAAATGTTGCGC
CCCGGTCGTAAACTGGCCTCGCTGCTGGTCTCGCGTATCAAGGTGATGGCGCGACTGGATATTGCCGAAAAGCGCGTACC
GCAGGATGGCCGTATTGCGTTGCTGCTGGGCGGTCGGGCGATTGACGTCCGTGTATCTACCATGCCTTCCGCCTGGGGAG
AACGGGTGGTGCTGCGACTGCTGGACAAAAACCAGGCTCGCCTGACGCTGGAGCGTCTGGGTTTAAGTCTCGAACTGACT
GCGCAGTTGCGCCAGCTGTTACACAAACCGCACGGCATTTTTCTGGTGACGGGGCCGACCGGTTCCGGCAAAAGCACCAC
GCTGTACGCTGGATTGCAGGAGCTGAACAACCACTCGCGTAACATTCTCACGGTTGAAGACCCTATCGAATACATGATTG
AAGGGATCGGTCAGACGCAGGTTAACACCCGCGTCGGCATGACATTCGCCCGTGGCCTGCGCGCAATTTTGCGTCAGGAC
CCGGATGTGGTGATGGTCGGTGAAATCCGCGATACCGAAACCGCAGAAATCGCTGTTCAGGCTTCACTGACCGGACACCT
GGTACTTTCCACGCTGCATACCAACACAGCGGTGGGGGCGATCACACGTTTGCAGGATATGGGCGTGGAGCCTTTCCTGC
TCTCTTCCAGTCTGACGGGCGTGATGGCGCAGCGACTGGTCCGCACGCTGTGCTCCGACTGCCGTCAGGCCGCGCCTGCC
ACCGACGAAGAAAAACGTCTTATGGGGATCTCCGATACGCATGCCGTCACGCTGTACCATCCGCAGGGCTGCCCCGCCTG
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