Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   HO398_RS16230 Genome accession   NZ_CP053600
Coordinates   3320308..3321789 (+) Length   493 a.a.
NCBI ID   WP_001219889.1    Uniprot ID   -
Organism   Escherichia coli strain Nico21(DE3)     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3315308..3326789
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HO398_RS16205 (HO398_16210) rpsJ 3315864..3316175 (-) 312 WP_001181004.1 30S ribosomal protein S10 -
  HO398_RS16210 (HO398_16215) gspB 3316413..3316832 (-) 420 WP_000461449.1 putative general secretion pathway protein GspB -
  HO398_RS16215 (HO398_16220) gspA 3316834..3318303 (-) 1470 WP_000107574.1 type II secretion system protein GspA -
  HO398_RS16220 (HO398_16225) gspC 3318483..3319298 (+) 816 WP_001142708.1 type II secretion system protein GspC -
  HO398_RS16225 (HO398_16230) - 3319282..3320298 (+) 1017 WP_000677419.1 secretin N-terminal domain-containing protein -
  HO398_RS16230 (HO398_16235) pilB 3320308..3321789 (+) 1482 WP_001219889.1 type II secretion system ATPase GspE Machinery gene
  HO398_RS16235 (HO398_16240) gspF 3321786..3322982 (+) 1197 WP_001109573.1 type II secretion system inner membrane protein GspF -
  HO398_RS16240 (HO398_16245) gspG 3322992..3323429 (+) 438 WP_001202874.1 type II secretion system major pseudopilin GspG -
  HO398_RS16245 (HO398_16250) gspH 3323437..3323946 (+) 510 WP_001076029.1 type II secretion system minor pseudopilin GspH -
  HO398_RS16250 (HO398_16255) gspI 3323943..3324320 (+) 378 WP_001041743.1 type II secretion system minor pseudopilin GspI -
  HO398_RS16255 (HO398_16260) gspJ 3324313..3324900 (+) 588 WP_000610634.1 type II secretion system minor pseudopilin GspJ -
  HO398_RS16260 (HO398_16265) gspK 3324893..3325876 (+) 984 WP_001058521.1 type II secretion system minor pseudopilin GspK -

Sequence

Protein


Download         Length: 493 a.a.        Molecular weight: 54658.61 Da        Isoelectric Point: 6.2412

>NTDB_id=392404 HO398_RS16230 WP_001219889.1 3320308..3321789(+) (pilB) [Escherichia coli strain Nico21(DE3)]
MRIHSPYPASWALAQRIGYLYSEGEIIYLADTPFERLLDIQRQVGQCQTMTSLSQADFEARLEAVFHQNTGESQQIAQDI
DQSVDLLSLSEEMPANEDLLNEDSAAPVIRLINAILSEAIKETASDIHIETYEKTMSIRFRIDGVLRTILQPNKKLAALL
ISRIKVMARLDIAEKRIPQDGRISLRIGRRNIDVRVSTLPSIYGERAVLRLLDKNSLQLSLNNLGMTAADKQDLENLIQL
PHGIILVTGPTGSGKSTTLYAILSALNTPGRNILTVEDPVEYELEGIGQTQVNTRVDMSFARGLRAILRQDPDVVMVGEI
RDTETAQIAVQASLTGHLVLSTLHTNSASGAVTRLRDMGFESFLLSSSLAGIIAQRLVRRLCPQCRQFTPVSPQQAQMFK
YHQLAVTTIGTPVGCPHCHQSGYQGRMAIHEMMVVTPELRAAIHENVDEQALERLVRQQHKALIKNGLQKVISGDTSWDE
VMRVASATLESEA

Nucleotide


Download         Length: 1482 bp        

>NTDB_id=392404 HO398_RS16230 WP_001219889.1 3320308..3321789(+) (pilB) [Escherichia coli strain Nico21(DE3)]
ATGAGAATTCACTCACCGTACCCCGCCAGTTGGGCGCTGGCACAACGAATTGGTTATCTCTATTCAGAGGGCGAGATTAT
TTATCTCGCCGATACGCCATTCGAGCGGTTACTCGATATTCAACGTCAGGTTGGCCAGTGCCAGACCATGACCAGCTTGT
CACAGGCTGATTTTGAAGCTCGGCTGGAAGCGGTATTCCATCAGAATACCGGTGAGTCGCAACAGATTGCGCAGGATATC
GATCAATCCGTCGATCTTCTCTCGCTTTCGGAAGAGATGCCCGCAAATGAAGATCTCCTGAATGAAGATTCAGCGGCACC
GGTTATCCGCTTGATCAATGCGATTTTGAGTGAGGCCATCAAAGAAACCGCCTCTGATATCCACATTGAAACCTATGAAA
AAACAATGTCGATCCGTTTTCGCATCGACGGCGTTTTGCGGACAATTTTACAGCCAAACAAAAAACTGGCGGCACTGCTT
ATCTCCCGAATTAAGGTCATGGCTCGTCTTGATATCGCCGAAAAACGTATTCCACAGGATGGAAGAATTAGTTTGCGTAT
CGGGCGACGTAACATAGATGTCCGCGTATCCACACTGCCGTCCATCTATGGTGAACGCGCCGTACTCCGCCTGCTGGATA
AAAACAGCCTCCAGCTTTCATTGAACAACCTGGGGATGACGGCAGCGGATAAGCAGGATTTAGAAAATCTCATTCAGCTT
CCGCACGGTATTATCCTGGTGACAGGGCCGACAGGCTCCGGTAAAAGCACCACGCTCTACGCCATCCTTTCGGCGCTGAA
TACTCCCGGCCGCAATATTCTGACGGTAGAAGATCCCGTGGAATATGAGCTGGAAGGCATTGGGCAAACGCAGGTGAATA
CCCGTGTGGATATGTCTTTCGCTCGCGGCCTGCGCGCCATACTTCGCCAGGACCCGGATGTCGTCATGGTGGGGGAAATT
CGTGATACAGAAACCGCGCAGATTGCGGTTCAGGCCTCGCTCACCGGCCATCTGGTACTCTCAACACTCCACACTAACAG
TGCATCAGGCGCAGTGACCCGGCTCCGCGACATGGGCTTCGAATCATTCCTGCTTTCGTCTTCCCTGGCAGGGATTATCG
CGCAACGTCTGGTTCGTCGCCTGTGTCCGCAATGCCGACAATTCACGCCCGTATCACCCCAACAAGCGCAGATGTTTAAA
TATCATCAGCTCGCGGTGACAACAATTGGCACTCCCGTAGGCTGCCCTCATTGCCATCAATCCGGCTATCAGGGGCGCAT
GGCGATCCACGAAATGATGGTGGTGACGCCGGAATTACGGGCCGCTATTCATGAAAATGTGGATGAACAAGCACTGGAGC
GACTAGTCCGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGATAAGCGGTGACACCTCTTGGGATGAG
GTTATGCGCGTCGCCAGTGCCACGCTGGAGAGCGAAGCATGA

Domains

Predicted by InterProScan.

Type II/IV secretion system protein (T2SSE)

(114-380)


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 Vibrio campbellii strain DS40M4

46.453

88.641

0.412
  pilB Vibrio cholerae strain A1552

48.201

84.584

0.408
  pilB Legionella pneumophila strain ERS1305867

41.372

97.566

0.404
  pilB Acinetobacter baumannii D1279779

45.227

89.249

0.404
  pilB Vibrio parahaemolyticus RIMD 2210633

46.118

86.207

0.398
  pilB/pilB1 Synechocystis sp. PCC 6803

40.966

96.552

0.396
  pilB Acinetobacter baylyi ADP1

48.082

79.31

0.381
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

45.178

79.919

0.361
  pilF Thermus thermophilus HB27

45.063

80.122

0.361