Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   HPY06_RS02340 Genome accession   NZ_CP053804
Coordinates   489791..491479 (-) Length   562 a.a.
NCBI ID   WP_175229856.1    Uniprot ID   -
Organism   Vibrio cholerae strain SL6Y     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 484791..496479
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HPY06_RS02315 (HPY06_02320) yacG 485857..486054 (-) 198 WP_000162865.1 DNA gyrase inhibitor YacG -
  HPY06_RS02320 (HPY06_02325) zapD 486212..486952 (-) 741 WP_000207193.1 cell division protein ZapD -
  HPY06_RS02325 (HPY06_02330) coaE 486984..487592 (-) 609 WP_000011553.1 dephospho-CoA kinase -
  HPY06_RS02330 (HPY06_02335) pilD 487589..488464 (-) 876 WP_000418751.1 A24 family peptidase Machinery gene
  HPY06_RS02335 (HPY06_02340) pilC 488522..489748 (-) 1227 WP_000648510.1 type II secretion system F family protein Machinery gene
  HPY06_RS02340 (HPY06_02345) pilB 489791..491479 (-) 1689 WP_175229856.1 type IV-A pilus assembly ATPase PilB Machinery gene
  HPY06_RS02345 (HPY06_02350) - 491486..491890 (-) 405 WP_057551631.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  HPY06_RS02350 (HPY06_02355) nadC 492135..493025 (-) 891 WP_175229858.1 carboxylating nicotinate-nucleotide diphosphorylase -
  HPY06_RS02355 (HPY06_02360) ampD 493321..493866 (+) 546 WP_001959072.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  HPY06_RS02360 (HPY06_02365) - 493992..495380 (-) 1389 WP_175229860.1 IS4-like element ISVa18 family transposase -
  HPY06_RS02365 (HPY06_02370) fldB 495519..496037 (-) 519 WP_000690112.1 flavodoxin FldB -

Sequence

Protein


Download         Length: 562 a.a.        Molecular weight: 62139.19 Da        Isoelectric Point: 6.0856

>NTDB_id=447550 HPY06_RS02340 WP_175229856.1 489791..491479(-) (pilB) [Vibrio cholerae strain SL6Y]
MLTNLVAILRQAELISATQEQAVVTQVSASGTSVPEALLGLGFFHPQELTEQMSHIFGLPETDLSRYDYANLCQQLGLRE
LITRYDALPIAKQGNLLLLAVSDPTLLQAEEEFRFATGLQVELALADHRALQAAIRRLYGRSIQGAANQGKEISQDELAN
LVKVSDDELQSIEDLSQDDSPVSRFINQVLLDAVRKGASDIHFEPYENQYRIRLRCDGILVETQQPASHLSRRLAARIKI
LSKLDIAERRLPQDGRIKLRLSRDTAIDMRVSTLPTLWGEKIVLRLLDSSAANLDIDKLGYNPQQKQLYLNALKRPQGMI
LMTGPTGSGKTVSLYTGLRILNTSQINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLET
AEIAVKAAQTGHLVLSTLHTNSAAETVIRLANMGVEPFNLASSLSLIIAQRLARRLCKHCKIAVRPSALLQSQFAFQPNE
ILYEANAAGCNECTGGYSGRVGIYEVMAFNNELAEAIMQRASIHQIERLAKANGMQTLQESGLEKLREGITSFAELQRVL
YF

Nucleotide


Download         Length: 1689 bp        

>NTDB_id=447550 HPY06_RS02340 WP_175229856.1 489791..491479(-) (pilB) [Vibrio cholerae strain SL6Y]
ATGCTCACCAACCTTGTTGCTATCTTGCGTCAGGCTGAGTTAATCAGCGCGACGCAAGAACAAGCGGTGGTTACACAGGT
TAGCGCTTCGGGGACCTCAGTGCCCGAGGCGCTGCTTGGTTTAGGTTTTTTTCACCCCCAAGAGCTGACCGAGCAAATGA
GCCATATTTTCGGCTTGCCGGAAACCGACCTTAGCCGCTACGACTACGCCAACTTGTGCCAACAGCTCGGGCTGCGTGAA
CTGATCACCCGCTACGATGCCTTGCCGATTGCCAAGCAAGGCAATTTATTGCTGCTCGCGGTCTCTGACCCCACCTTATT
GCAAGCCGAAGAAGAGTTTCGTTTTGCCACTGGACTGCAAGTCGAACTGGCACTGGCCGATCACCGCGCGCTGCAAGCCG
CGATTCGCCGTTTGTATGGCCGCTCAATTCAAGGCGCCGCCAATCAGGGTAAAGAGATCAGCCAAGATGAGCTCGCCAAT
CTGGTTAAAGTCAGTGATGACGAGCTGCAATCGATCGAAGATCTCAGCCAAGATGACTCTCCGGTTAGCCGCTTTATCAA
CCAAGTGCTGCTCGATGCGGTGCGCAAAGGCGCCTCCGATATTCATTTTGAGCCGTATGAAAACCAGTATCGGATCCGCC
TGCGCTGCGATGGGATCTTGGTCGAAACTCAGCAACCGGCTAGCCATTTAAGCCGCCGTTTAGCTGCGCGGATTAAAATT
CTCTCCAAATTAGATATTGCCGAGCGCCGCTTGCCGCAAGACGGCCGGATTAAACTGCGCCTAAGCCGCGATACCGCGAT
TGATATGCGCGTTTCCACGCTTCCCACTTTATGGGGCGAAAAAATCGTGCTGCGTCTGCTCGATAGCAGCGCCGCCAATC
TGGATATTGATAAGCTCGGCTATAACCCGCAGCAAAAGCAGCTCTACCTCAACGCCCTCAAAAGACCGCAAGGGATGATT
TTGATGACAGGCCCCACCGGCAGCGGCAAAACCGTTTCACTCTATACTGGGCTGCGCATTCTCAACACGTCACAGATCAA
TATCTCCACCGCGGAAGATCCGGTGGAAATTAACCTCTCTGGGATTAACCAAGTGCAAGTGCAGCCGAAAATCGGCTTTG
GCTTTGCCGAAGCGCTACGCTCGTTTCTGCGCCAAGACCCTGATGTAGTGATGGTCGGCGAAATACGCGATCTGGAAACC
GCCGAAATCGCGGTCAAAGCCGCGCAAACCGGTCACTTAGTGCTTTCCACTCTGCACACCAACTCGGCTGCCGAAACCGT
GATTCGTTTAGCCAATATGGGGGTGGAGCCGTTTAATCTTGCGTCATCACTCAGTTTAATCATCGCCCAACGCCTCGCGC
GCCGCTTGTGTAAACATTGCAAAATCGCGGTACGCCCTTCTGCCCTATTGCAAAGCCAATTTGCGTTTCAGCCCAATGAA
ATCTTGTATGAAGCCAATGCGGCGGGGTGTAACGAGTGTACGGGCGGCTATTCAGGGCGCGTTGGGATCTATGAAGTGAT
GGCGTTTAATAACGAGTTGGCGGAGGCCATTATGCAACGCGCCAGCATTCATCAAATTGAACGTTTAGCCAAAGCCAATG
GCATGCAAACGTTGCAAGAGTCCGGCCTTGAAAAGCTGCGCGAAGGCATCACCAGCTTTGCAGAGCTGCAGCGTGTGCTC
TATTTTTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(188-455)

Type II secretion system (T2SS), protein E, N-terminal domain (MshEN)

(39-141)


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 cholerae strain A1552

98.932

100

0.989
  pilB Vibrio parahaemolyticus RIMD 2210633

73.843

100

0.738
  pilB Vibrio campbellii strain DS40M4

73.665

100

0.737
  pilB Legionella pneumophila strain ERS1305867

52.838

90.925

0.48
  pilB Acinetobacter baylyi ADP1

50.385

92.527

0.466
  pilB Acinetobacter baumannii D1279779

50.192

92.527

0.464
  pilF Neisseria gonorrhoeae MS11

45.73

100

0.457
  pilB/pilB1 Synechocystis sp. PCC 6803

36.5

100

0.39
  pilF Thermus thermophilus HB27

39.668

96.441

0.383
  pilB Haemophilus influenzae 86-028NP

39.658

93.772

0.372
  pilB Haemophilus influenzae Rd KW20

39.006

93.06

0.363