Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   A6040_RS07760 Genome accession   NZ_CP015428
Coordinates   1567556..1568950 (+) Length   464 a.a.
NCBI ID   WP_010945036.1    Uniprot ID   Q7VM73
Organism   [Haemophilus] ducreyi strain VAN5     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1562556..1573950
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  A6040_RS07730 (A6040_07750) nth 1563099..1563734 (-) 636 WP_010945029.1 endonuclease III -
  A6040_RS07735 (A6040_07755) - 1563764..1564513 (-) 750 WP_041603673.1 TSUP family transporter -
  A6040_RS07740 (A6040_07760) - 1564633..1565118 (+) 486 WP_010945031.1 dihydrofolate reductase -
  A6040_RS07745 (A6040_07765) - 1565240..1565455 (+) 216 WP_010945033.1 YgjV family protein -
  A6040_RS07750 (A6040_07770) radA 1565522..1566901 (-) 1380 WP_064085182.1 DNA repair protein RadA -
  A6040_RS07755 (A6040_07775) pilA 1567095..1567544 (+) 450 WP_010945035.1 prepilin peptidase-dependent pilin Machinery gene
  A6040_RS07760 (A6040_07780) pilB 1567556..1568950 (+) 1395 WP_010945036.1 GspE/PulE family protein Machinery gene
  A6040_RS07765 (A6040_07785) pilC 1568934..1570127 (+) 1194 WP_010945037.1 type II secretion system F family protein Machinery gene
  A6040_RS07770 (A6040_07790) - 1570127..1570819 (+) 693 WP_041603480.1 prepilin peptidase -
  A6040_RS07775 (A6040_07795) coaE 1570837..1571454 (+) 618 WP_010945039.1 dephospho-CoA kinase -
  A6040_RS07780 (A6040_07800) yacG 1571457..1571645 (+) 189 WP_010945040.1 DNA gyrase inhibitor YacG -
  A6040_RS07785 (A6040_07805) holA 1571679..1572704 (-) 1026 WP_010945041.1 DNA polymerase III subunit delta -
  A6040_RS07790 (A6040_07810) lptE 1572710..1573207 (-) 498 WP_010945042.1 LPS assembly lipoprotein LptE -

Sequence

Protein


Download         Length: 464 a.a.        Molecular weight: 52913.08 Da        Isoelectric Point: 6.6454

>NTDB_id=179521 A6040_RS07760 WP_010945036.1 1567556..1568950(+) (pilB) [[Haemophilus] ducreyi strain VAN5]
MQYAVFDLHRQQNFIISAERWQKNCQEKDLLLRYLALPVQENEDRLWLAIDDMKNLNACEIFAFMAHKTIEPVLVSAEEL
KYLLNQLAPEQQAVYEESELTYQVQTESETLNLNDPIIQLLDNLFKFCLRQNASDIHFEPQKAQLQIRLRIDGVLHIYKT
LAIHLAARIISRIKLLARLDISETRLPQDGQFHFKTIVSETLDFRVSSLPTQWGGKIVLRLQKNKPTHFDFVELGLLPAQ
KTTLLHLLHQPQGLILVTGPTGSGKSITLYSALSHLNQPDKHILTAEDPIEIEIEGIIQTQVNRAIQLDFSHLLRTFLRQ
DPDIIMLGEIRDPESAEIALRAAQTGHLVLSTLHTNDAPSAIERLLQLGIKEYELKNALLLVIAQRLVRKLCTQCFGKGC
QACYQGYRGRIGIYQLLSRTGKIFEKETAYLDFASLHHSAKHKLEADITSLAEINRVLGDAENI

Nucleotide


Download         Length: 1395 bp        

>NTDB_id=179521 A6040_RS07760 WP_010945036.1 1567556..1568950(+) (pilB) [[Haemophilus] ducreyi strain VAN5]
ATGCAGTATGCGGTATTTGATCTTCATCGCCAACAGAATTTTATTATTTCAGCGGAGAGATGGCAAAAGAACTGTCAAGA
AAAAGATCTTTTATTACGTTATCTTGCATTACCGGTTCAAGAAAATGAGGACAGGTTATGGCTAGCCATTGATGATATGA
AAAATTTAAATGCGTGTGAAATTTTTGCATTTATGGCTCATAAAACGATAGAACCGGTGTTGGTTTCTGCGGAAGAATTG
AAATATTTATTGAATCAACTGGCGCCAGAGCAACAAGCGGTATATGAAGAAAGTGAGCTAACTTATCAAGTACAAACAGA
AAGTGAAACATTGAATTTAAATGATCCTATTATTCAATTACTTGATAATTTATTTAAATTTTGTTTAAGGCAAAATGCTT
CCGATATTCATTTTGAGCCACAAAAAGCACAGTTACAGATTCGGTTGCGGATTGATGGTGTGTTACATATCTACAAAACA
TTGGCAATTCATTTGGCTGCTCGCATTATTTCACGTATCAAATTGTTGGCTAGACTTGATATTAGCGAAACACGGCTACC
GCAAGATGGGCAATTCCATTTTAAAACAATCGTATCTGAAACCCTTGATTTCCGTGTATCGAGTTTGCCTACTCAATGGG
GCGGAAAAATTGTATTACGCTTACAAAAAAATAAACCGACCCATTTTGATTTTGTTGAATTGGGGTTATTGCCTGCGCAA
AAAACTACGTTATTACACTTATTGCATCAACCACAAGGTCTAATTTTAGTTACTGGCCCCACCGGCAGTGGCAAAAGTAT
CACATTGTATAGTGCATTAAGTCATCTGAATCAACCGGATAAGCATATTTTAACGGCAGAAGATCCAATAGAAATTGAGA
TCGAAGGAATCATTCAAACACAAGTTAATCGAGCGATTCAGCTAGATTTTAGCCATCTATTACGAACATTTTTGCGCCAA
GATCCTGATATTATTATGTTAGGTGAGATTCGTGATCCGGAGAGTGCCGAAATTGCATTACGCGCTGCACAAACAGGGCA
TCTTGTGCTTTCTACATTACATACTAATGATGCGCCCTCTGCAATTGAACGGCTATTACAATTAGGTATTAAAGAATATG
AGCTTAAAAACGCCTTATTATTAGTCATTGCACAACGGCTTGTCCGCAAGCTATGCACGCAATGTTTTGGTAAAGGCTGT
CAGGCTTGCTATCAGGGCTATAGAGGACGCATTGGCATTTATCAATTATTAAGCCGTACGGGAAAAATCTTTGAAAAAGA
GACCGCTTACCTTGATTTTGCTAGTTTACATCATAGTGCGAAGCATAAGTTAGAGGCTGATATTACGTCCTTAGCAGAAA
TTAACAGAGTATTAGGCGATGCTGAAAATATATGA

Domains

Predicted by InterproScan.

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

(28-92)

Type II/IV secretion system protein (T2SSE)

(129-390)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB Q7VM73

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 Glaesserella parasuis strain SC1401

74.017

98.707

0.731
  pilB Haemophilus influenzae Rd KW20

58.482

96.552

0.565
  pilB Haemophilus influenzae 86-028NP

57.906

96.767

0.56
  pilB Vibrio campbellii strain DS40M4

40.408

100

0.427
  pilB Vibrio cholerae strain A1552

39.919

100

0.422
  pilB Vibrio parahaemolyticus RIMD 2210633

38.386

100

0.42
  pilB Legionella pneumophila strain ERS1305867

38.618

100

0.409
  pilB Acinetobacter baylyi ADP1

38.493

100

0.407
  pilB Acinetobacter baumannii D1279779

37.654

100

0.394
  pilF Neisseria gonorrhoeae MS11

36.076

100

0.369

Multiple sequence alignment