Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   A6037_RS00855 Genome accession   NZ_CP015425
Coordinates   199832..201226 (-) Length   464 a.a.
NCBI ID   WP_064081942.1    Uniprot ID   -
Organism   [Haemophilus] ducreyi strain VAN2     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 194832..206226
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  A6037_RS00825 (A6037_00840) lptE 195622..196119 (+) 498 WP_064081937.1 LPS assembly lipoprotein LptE -
  A6037_RS00830 (A6037_00845) holA 196125..197150 (+) 1026 WP_064081938.1 DNA polymerase III subunit delta -
  A6037_RS00835 (A6037_00850) yacG 197184..197372 (-) 189 WP_064081939.1 DNA gyrase inhibitor YacG -
  A6037_RS00840 (A6037_00855) coaE 197375..197992 (-) 618 WP_064081940.1 dephospho-CoA kinase -
  A6037_RS07710 (A6037_00860) - 198010..198324 (-) 315 WP_158077649.1 prepilin peptidase -
  A6037_RS07715 (A6037_00865) - 198386..198655 (-) 270 WP_078179334.1 hypothetical protein -
  A6037_RS00850 (A6037_00870) pilC 198655..199848 (-) 1194 WP_064081941.1 type II secretion system F family protein Machinery gene
  A6037_RS00855 (A6037_00875) pilB 199832..201226 (-) 1395 WP_064081942.1 GspE/PulE family protein Machinery gene
  A6037_RS00860 (A6037_00880) pilA 201238..201684 (-) 447 WP_064081943.1 pilin Machinery gene
  A6037_RS00865 (A6037_00885) radA 201878..203257 (+) 1380 WP_064081944.1 DNA repair protein RadA -
  A6037_RS00870 (A6037_00890) - 203324..203539 (-) 216 WP_010945033.1 YgjV family protein -
  A6037_RS00875 (A6037_00895) - 203661..204146 (-) 486 WP_064081945.1 dihydrofolate reductase -
  A6037_RS00880 (A6037_00900) - 204267..205037 (+) 771 WP_064082999.1 TSUP family transporter -
  A6037_RS00885 (A6037_00905) nth 205046..205681 (+) 636 WP_010945029.1 endonuclease III -

Sequence

Protein


Download         Length: 464 a.a.        Molecular weight: 52918.10 Da        Isoelectric Point: 6.7442

>NTDB_id=179436 A6037_RS00855 WP_064081942.1 199832..201226(-) (pilB) [[Haemophilus] ducreyi strain VAN2]
MQYAVFDLHRQQNFIISAERWQKNCQEKDLLLRYLALPVQENEDRLWLAIDDMKNLNACEIFAFMAHKTIEPVLVSAEEL
KYLLNQLAPEQQAVYEESELTYQVQTESETLNLNDPIIQLLDNLFKFCLRQNASDIHFGPQKAQLQIRLRIDGVLHIYKT
LAIHLAARIISRIKLLAKLDISETRLPQDGQFHFKTIVSETLDFRVSSLPTQWGEKIVLRLQKNKPTHFDFVELGLLPAQ
KTTLLHLLHQPQGLILVTGPTGSGKSITLYSALSHLNQPDKHILTAENPIEIEIEGIIQTQVNRAIQLDFSHLLRTFLRQ
DPDIIMLGEIRDPESAEIALRAAQTGHLVLSTLHTNDAPSAIERLLQLGIKEYELKNALLLVIAQRFVRKLCTQCFGKGC
QACYQGYRGRIGIYQLLSRTGKIFEKETAYLDFASLHHSAKHKLEADITSLAEINRVLGDAENI

Nucleotide


Download         Length: 1395 bp        

>NTDB_id=179436 A6037_RS00855 WP_064081942.1 199832..201226(-) (pilB) [[Haemophilus] ducreyi strain VAN2]
ATGCAGTATGCGGTATTTGATCTTCATCGCCAACAGAATTTTATTATTTCAGCGGAGAGATGGCAAAAGAACTGTCAAGA
AAAAGATCTTTTATTACGTTATCTTGCATTACCGGTTCAAGAAAATGAGGACAGGTTATGGTTAGCCATCGATGATATGA
AAAATTTAAATGCGTGTGAAATTTTTGCATTTATGGCTCATAAAACGATAGAACCGGTGTTGGTTTCTGCGGAAGAATTG
AAATATTTATTGAATCAACTGGCGCCAGAGCAACAAGCGGTGTATGAAGAAAGTGAGCTAACTTATCAAGTACAAACAGA
AAGTGAAACATTGAATTTAAATGATCCTATTATTCAATTACTTGATAATTTATTTAAATTTTGTTTAAGGCAAAATGCTT
CCGATATTCATTTTGGGCCACAAAAAGCACAGTTACAGATTCGGTTGCGGATTGATGGTGTGTTACATATCTACAAAACA
TTGGCAATTCATTTGGCTGCTCGCATTATTTCACGTATCAAATTGTTGGCTAAACTTGATATTAGCGAAACACGGCTACC
GCAAGATGGGCAATTCCATTTTAAAACAATCGTATCTGAAACCCTTGATTTCCGTGTATCGAGTTTGCCTACTCAATGGG
GCGAAAAAATTGTATTACGCTTACAAAAAAATAAACCAACCCATTTTGATTTTGTTGAATTGGGGTTATTGCCTGCGCAA
AAAACTACGTTATTACACTTATTGCATCAACCGCAAGGTCTAATTTTAGTTACTGGCCCCACCGGCAGTGGCAAAAGTAT
CACATTGTATAGTGCGTTAAGTCATCTGAATCAACCGGATAAGCATATTTTAACGGCAGAAAATCCAATAGAAATTGAGA
TCGAAGGAATCATTCAAACACAAGTTAATCGAGCGATTCAGCTAGATTTTAGCCATCTATTACGAACATTTTTGCGCCAA
GATCCTGATATTATTATGTTAGGTGAGATTCGTGATCCGGAGAGTGCCGAAATTGCATTACGCGCTGCACAAACAGGGCA
TCTTGTGCTTTCTACATTACATACTAATGATGCGCCCTCTGCAATTGAACGGCTATTACAATTAGGTATTAAAGAATATG
AGCTTAAAAATGCCTTATTATTAGTCATTGCACAACGGTTTGTCCGCAAGCTATGCACGCAATGTTTTGGTAAAGGCTGT
CAGGCTTGCTATCAGGGCTATAGAGGACGCATTGGCATTTATCAATTATTAAGCCGTACGGGAAAAATCTTTGAAAAAGA
GACCGCTTATCTTGATTTTGCTAGTTTACATCATAGTGCGAAGCATAAGTTAGAGGCCGATATTACGTCCTTAGCAGAAA
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

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

73.799

98.707

0.728
  pilB Haemophilus influenzae Rd KW20

58.259

96.552

0.563
  pilB Haemophilus influenzae 86-028NP

57.684

96.767

0.558
  pilB Vibrio campbellii strain DS40M4

40.204

100

0.425
  pilB Vibrio cholerae strain A1552

40.122

100

0.425
  pilB Vibrio parahaemolyticus RIMD 2210633

38.189

100

0.418
  pilB Acinetobacter baylyi ADP1

38.32

100

0.403
  pilB Legionella pneumophila strain ERS1305867

38.008

100

0.403
  pilB Acinetobacter baumannii D1279779

37.243

100

0.39
  pilF Neisseria gonorrhoeae MS11

35.443

100

0.362

Multiple sequence alignment