Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB/pilB1   Type   Machinery gene
Locus tag   JNN56_RS04065 Genome accession   NZ_CP068814
Coordinates   858667..860160 (+) Length   497 a.a.
NCBI ID   WP_001564077.1    Uniprot ID   -
Organism   Escherichia coli strain RIVM_C028613     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 853667..865160
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JNN56_RS04045 (JNN56_04045) pilD 854315..855124 (+) 810 WP_000895872.1 prepilin peptidase PppA Machinery gene
  JNN56_RS04050 (JNN56_04050) gspS2 855190..855600 (+) 411 WP_089564246.1 type II secretion system pilot lipoprotein GspS-beta -
  JNN56_RS04055 (JNN56_04055) gspC 855618..856577 (+) 960 WP_000135086.1 type II secretion system protein GspC -
  JNN56_RS04060 (JNN56_04060) gspD 856607..858667 (+) 2061 WP_001564078.1 type II secretion system secretin GspD -
  JNN56_RS04065 (JNN56_04065) pilB/pilB1 858667..860160 (+) 1494 WP_001564077.1 type II secretion system ATPase GspE Machinery gene
  JNN56_RS04070 (JNN56_04070) gspF 860160..861383 (+) 1224 WP_001564076.1 type II secretion system inner membrane protein GspF -
  JNN56_RS04075 (JNN56_04075) gspG 861400..861855 (+) 456 WP_001087296.1 type II secretion system major pseudopilin GspG -
  JNN56_RS04080 (JNN56_04080) gspH 861859..862422 (+) 564 WP_001115117.1 type II secretion system minor pseudopilin GspH -
  JNN56_RS04085 (JNN56_04085) gspI 862419..862790 (+) 372 WP_000820092.1 type II secretion system minor pseudopilin GspI -
  JNN56_RS04090 (JNN56_04090) gspJ 862787..863392 (+) 606 WP_001564075.1 type II secretion system minor pseudopilin GspJ -
  JNN56_RS04095 (JNN56_04095) gspK 863389..864366 (+) 978 WP_001564074.1 type II secretion system minor pseudopilin GspK -

Sequence

Protein


Download         Length: 497 a.a.        Molecular weight: 55074.13 Da        Isoelectric Point: 5.7278

>NTDB_id=462507 JNN56_RS04065 WP_001564077.1 858667..860160(+) (pilB/pilB1) [Escherichia coli strain RIVM_C028613]
MVPVAQETTANTVRLPYSFSRRFSLVAWCEASLEILHVHPLSLSVLQELQRGLNAPFTLRQIDEAEFEQQLNAVWQRDSS
EARQLMEDLGSAEDFFTLAEELPETEDLLESDDDAPIIKLINAMLAEAIKEGASDIHIETFEKSLVIRFRVDGTLHEMLR
PGRKLASLLVSRIKVMARLDIAEKRVPQDGRIALLLGGRAIDVRVSTMPSAWGERVVLRLLDKNQARLTLERLGLSHELT
AQLRQLLHKPHGIFLVTGPTGSGKSTTLYAGLQELNNHSRNILTVEDPIEYMIEGIGQTQVNTRVGMTFARGLRAILRQD
PDVVMVGEIRDTETAEIAVQASLTGHLVLSTLHTNTAVGAITRLQDMGVEPFLLSSSLTGVMAQRLVRTLCPDCCQSAPA
TDEEKRLLGITDAHAVTLYHPQGCPACNHKGFRGRTAIHELIVVDATLRDLIHRQAGELELERYVRQHSAGIRSNGIEKV
LAGETSLDEVLRVTMEA

Nucleotide


Download         Length: 1494 bp        

>NTDB_id=462507 JNN56_RS04065 WP_001564077.1 858667..860160(+) (pilB/pilB1) [Escherichia coli strain RIVM_C028613]
ATGGTGCCTGTAGCACAGGAAACCACCGCTAACACCGTGCGTCTGCCCTACAGTTTCAGCCGTCGGTTTAGCCTGGTGGC
ATGGTGCGAAGCGTCGCTGGAGATCCTCCACGTTCATCCGTTGTCGCTCTCTGTTTTGCAGGAGCTGCAGCGGGGGCTGA
ACGCGCCCTTTACGCTGCGGCAAATCGACGAGGCCGAATTTGAACAGCAGCTGAATGCGGTCTGGCAGCGGGACTCTTCC
GAGGCCCGCCAGCTGATGGAAGATCTCGGTTCTGCTGAGGACTTTTTTACTCTCGCTGAAGAACTGCCGGAAACGGAAGA
TCTGCTGGAAAGCGACGACGACGCGCCAATCATCAAACTGATCAACGCCATGCTGGCAGAGGCGATTAAAGAAGGCGCTT
CGGATATTCACATCGAGACATTTGAAAAGAGTCTGGTGATCCGTTTTCGTGTTGACGGTACATTACATGAAATGCTGCGC
CCGGGGCGCAAACTGGCCTCGCTGCTGGTATCGCGTATTAAGGTGATGGCGCGGCTGGATATTGCCGAAAAGCGCGTACC
GCAGGATGGGCGTATTGCGCTGCTGCTGGGCGGTCGGGCGATTGACGTGCGTGTCTCCACCATGCCTTCTGCCTGGGGCG
AGCGCGTGGTGCTGCGACTGCTGGACAAAAACCAGGCCCGCCTGACGCTGGAGCGTCTGGGGCTGAGTCATGAACTGACC
GCGCAGTTGCGCCAGCTACTGCACAAACCGCACGGTATCTTTCTGGTGACGGGGCCGACCGGTTCCGGCAAAAGCACCAC
GCTGTACGCTGGATTGCAGGAGCTGAACAACCACTCGCGTAACATTCTCACGGTTGAAGACCCTATCGAATACATGATTG
AAGGGATCGGTCAGACGCAGGTTAACACCCGCGTCGGCATGACCTTCGCCCGTGGCCTGCGCGCGATTTTGCGTCAGGAC
CCGGATGTGGTGATGGTCGGTGAAATCCGCGATACCGAAACCGCAGAAATCGCTGTTCAGGCTTCACTGACCGGACACCT
GGTACTTTCCACCCTGCATACCAACACAGCGGTGGGGGCGATCACGCGTTTGCAGGATATGGGCGTGGAGCCTTTCCTGC
TCTCTTCCAGTCTGACGGGCGTGATGGCGCAGCGACTGGTTCGCACGCTGTGTCCCGACTGCTGCCAGTCCGCGCCTGCC
ACTGACGAAGAAAAACGCCTGCTGGGGATTACCGATGCGCATGCTGTCACGCTGTACCATCCGCAGGGCTGCCCCGCCTG
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

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

39.372

100

0.429
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

47.294

85.513

0.404
  pilB Vibrio parahaemolyticus RIMD 2210633

48.111

79.879

0.384
  pilB Acinetobacter baumannii D1279779

47.382

80.684

0.382
  pilB Legionella pneumophila strain ERS1305867

43.619

86.72

0.378
  pilB Vibrio campbellii strain DS40M4

46.97

79.678

0.374
  pilB Vibrio cholerae strain A1552

45.96

79.678

0.366
  pilB Acinetobacter baylyi ADP1

46.41

78.471

0.364
  pilF Thermus thermophilus HB27

45

80.483

0.362