Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB/pilB1   Type   Machinery gene
Locus tag   VFH86_RS00840 Genome accession   NZ_CP142014
Coordinates   177273..178784 (+) Length   503 a.a.
NCBI ID   WP_000138174.1    Uniprot ID   P37093
Organism   Vibrio cholerae strain LK-18     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 172273..183784
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VFH86_RS00820 (VFH86_00820) hslO 172773..173648 (-) 876 WP_032481712.1 Hsp33 family molecular chaperone HslO -
  VFH86_RS00825 (VFH86_00825) hslR 173682..174059 (-) 378 WP_000098851.1 ribosome-associated heat shock protein Hsp15 -
  VFH86_RS00830 (VFH86_00830) gspC 174289..175206 (+) 918 WP_000394675.1 type II secretion system protein GspC -
  VFH86_RS00835 (VFH86_00835) gspD 175252..177276 (+) 2025 WP_000878557.1 type II secretion system secretin GspD -
  VFH86_RS00840 (VFH86_00840) pilB/pilB1 177273..178784 (+) 1512 WP_000138174.1 type II secretion system ATPase GspE Machinery gene
  VFH86_RS00845 (VFH86_00845) gspF 178784..180004 (+) 1221 WP_345658009.1 type II secretion system inner membrane protein GspF -
  VFH86_RS00850 (VFH86_00850) gspG 180045..180485 (+) 441 WP_000738789.1 type II secretion system major pseudopilin GspG -
  VFH86_RS00855 (VFH86_00855) gspH 180519..181103 (+) 585 WP_000127545.1 type II secretion system minor pseudopilin GspH -
  VFH86_RS00860 (VFH86_00860) gspI 181093..181446 (+) 354 WP_000837699.1 type II secretion system minor pseudopilin GspI -
  VFH86_RS00865 (VFH86_00865) gspJ 181433..182101 (+) 669 WP_114762630.1 type II secretion system minor pseudopilin GspJ -
  VFH86_RS00870 (VFH86_00870) gspK 182091..183101 (+) 1011 WP_001201881.1 type II secretion system minor pseudopilin GspK -

Sequence

Protein


Download         Length: 503 a.a.        Molecular weight: 56358.58 Da        Isoelectric Point: 6.2107

>NTDB_id=839009 VFH86_RS00840 WP_000138174.1 177273..178784(+) (pilB/pilB1) [Vibrio cholerae strain LK-18]
MTEMVISPAERQSIRRLPFSFANRFKLVLDWNEDFSQASIYYLAPLSMEALVETKRVVKHAFQLIELSQAEFESKLTQVY
QRDSSEARQLMEDIGADSDDFFSLAEELPQNEDLLESEDDAPIIKLINAMLGEAIKEGASDIHIETFEKTLSIRFRVDGV
LREVLAPSRKLSSLLVSRVKVMAKLDIAEKRVPQDGRISLRIGGRAVDVRVSTMPSSHGERVVMRLLDKNATRLDLHSLG
MTAHNHDNFRRLIKRPHGIILVTGPTGSGKSTTLYAGLQELNSSERNILTVEDPIEFDIDGIGQTQVNPRVDMTFARGLR
AILRQDPDVVMVGEIRDLETAQIAVQASLTGHLVMSTLHTNTAVGAVTRLRDMGIEPFLISSSLLGVLAQRLVRTLCPDC
KEPYEADKEQRKLFDSKKKEPLILYRATGCPKCNHKGYRGRTGIHELLLVDDALQELIHSEAGEQAMEKHIRATTPSIRD
DGLDKVRQGITSLEEVMRVTKES

Nucleotide


Download         Length: 1512 bp        

>NTDB_id=839009 VFH86_RS00840 WP_000138174.1 177273..178784(+) (pilB/pilB1) [Vibrio cholerae strain LK-18]
ATGACCGAAATGGTGATCTCTCCAGCTGAGCGACAGTCGATTCGTCGTCTGCCCTTTAGCTTCGCCAATCGCTTTAAGTT
GGTGCTGGATTGGAATGAGGATTTCTCCCAAGCCAGCATTTATTACTTAGCGCCCTTGTCGATGGAGGCGCTCGTCGAAA
CCAAGCGGGTGGTCAAGCACGCTTTCCAACTGATTGAGCTCTCTCAAGCGGAGTTTGAAAGCAAGCTAACCCAAGTCTAT
CAGCGTGATTCTTCAGAAGCGCGTCAATTGATGGAAGACATTGGTGCCGACAGTGATGACTTCTTCTCACTGGCGGAAGA
GCTGCCTCAAAACGAAGATTTGCTAGAAAGTGAAGATGATGCGCCGATCATCAAACTGATCAACGCCATGTTGGGCGAAG
CGATCAAAGAAGGCGCGTCAGATATTCACATTGAAACTTTTGAAAAAACACTGTCGATCCGTTTTCGAGTCGATGGCGTG
CTGCGCGAAGTACTGGCACCCAGCCGCAAACTCTCATCGCTGCTCGTTTCACGGGTCAAAGTGATGGCCAAGCTCGACAT
TGCCGAAAAACGAGTGCCACAAGATGGCCGTATTTCGCTGCGTATCGGTGGCCGTGCGGTCGATGTGCGGGTTTCAACCA
TGCCTTCATCACATGGTGAGCGAGTGGTAATGCGTTTGCTGGATAAAAACGCGACGCGCCTTGATCTGCACAGTTTGGGT
ATGACGGCGCATAACCATGATAACTTCCGCCGTTTGATTAAGCGGCCGCATGGGATCATTCTGGTGACTGGCCCAACCGG
CTCGGGTAAATCGACCACCTTGTACGCGGGTTTGCAAGAGCTCAACAGTAGCGAGCGCAACATTTTAACCGTAGAAGATC
CGATCGAATTTGATATTGATGGTATCGGTCAGACCCAAGTCAACCCAAGGGTAGACATGACCTTCGCGCGGGGGCTACGC
GCTATTTTGCGTCAAGACCCGGATGTGGTGATGGTGGGGGAAATTCGTGACTTGGAAACGGCGCAAATTGCAGTGCAAGC
CTCGCTGACCGGTCACTTAGTGATGTCGACTCTGCACACCAACACGGCCGTTGGGGCGGTGACTCGGCTGCGCGATATGG
GCATCGAGCCTTTTTTGATCTCCTCTTCACTGCTCGGTGTTCTGGCTCAGCGCTTGGTGCGCACCTTATGCCCAGATTGC
AAAGAGCCTTACGAGGCGGACAAAGAGCAGCGCAAACTGTTTGATAGCAAGAAAAAAGAGCCGCTGATCCTTTATCGCGC
CACGGGCTGCCCTAAATGTAACCACAAAGGTTACCGTGGCCGAACTGGTATCCACGAGCTGCTGCTGGTGGATGACGCGT
TGCAGGAGCTGATCCATAGCGAGGCGGGCGAACAGGCGATGGAGAAACACATTCGCGCGACCACGCCGAGCATTCGTGAT
GATGGTCTAGATAAGGTGCGCCAAGGCATTACTTCGCTAGAAGAAGTGATGCGGGTGACTAAGGAGTCCTAA

Domains

Predicted by InterProScan.

Type II/IV secretion system protein (T2SSE)

(129-395)


Secondary structure

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



3D structure

Source ID Structure
  PDB 1P9R
  PDB 1P9W
  PDB 2BH1
  PDB 4KSR
  PDB 4KSS

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

41.412

100

0.431
  pilB Legionella pneumophila strain ERS1305867

47.126

86.481

0.408
  pilB Vibrio parahaemolyticus RIMD 2210633

44.619

88.668

0.396
  pilB Vibrio campbellii strain DS40M4

44.118

87.873

0.388
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

49.745

77.932

0.388
  pilB Vibrio cholerae strain A1552

48.485

78.728

0.382
  pilF Thermus thermophilus HB27

47.761

79.92

0.382
  pilB Acinetobacter baumannii D1279779

46.21

81.312

0.376