Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   ACN08M_RS04905 Genome accession   NZ_CP183250
Coordinates   997654..999339 (+) Length   561 a.a.
NCBI ID   WP_419239398.1    Uniprot ID   -
Organism   Photobacterium leiognathi subsp. mandapamensis strain Sc16.3     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 992654..1004339
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACN08M_RS04885 (ACN08M_04885) pdhR 994135..994908 (-) 774 WP_008987925.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  ACN08M_RS04890 (ACN08M_04890) ampD 995230..995775 (-) 546 WP_419239397.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  ACN08M_RS04895 (ACN08M_04895) nadC 996026..996913 (+) 888 WP_419240159.1 carboxylating nicotinate-nucleotide diphosphorylase -
  ACN08M_RS04900 (ACN08M_04900) pilA 997261..997650 (+) 390 WP_045068531.1 pilin Machinery gene
  ACN08M_RS04905 (ACN08M_04905) pilB 997654..999339 (+) 1686 WP_419239398.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ACN08M_RS04910 (ACN08M_04910) pilC 999384..1000607 (+) 1224 WP_419239399.1 type II secretion system F family protein Machinery gene
  ACN08M_RS04915 (ACN08M_04915) pilD 1000696..1001565 (+) 870 WP_419239400.1 prepilin peptidase Machinery gene
  ACN08M_RS04920 (ACN08M_04920) coaE 1001569..1002174 (+) 606 WP_318444194.1 dephospho-CoA kinase -
  ACN08M_RS04925 (ACN08M_04925) zapD 1002239..1002985 (+) 747 WP_042117295.1 cell division protein ZapD -
  ACN08M_RS04930 (ACN08M_04930) yacG 1002993..1003214 (+) 222 WP_008987916.1 DNA gyrase inhibitor YacG -
  ACN08M_RS04935 (ACN08M_04935) mutT 1003219..1003623 (+) 405 WP_318487661.1 8-oxo-dGTP diphosphatase MutT -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62168.76 Da        Isoelectric Point: 5.3780

>NTDB_id=1104847 ACN08M_RS04905 WP_419239398.1 997654..999339(+) (pilB) [Photobacterium leiognathi subsp. mandapamensis strain Sc16.3]
MQTNLASILAQANLISPEQEQQVVEFVTAEGINVPTALTRLGVLNDLDLADNLANLFGLQKVDVHHYDYDGCCQSVYQRE
LVLRHRALPLTQDANSLFLGVSDPTNMDAQDEFRFAVGKTVEFLILENKQLESAIRRVYGSDIGETSHSKQVSDADLGKL
VDISDAELDEATDLTQDSAPVTRYINQVLLDAVRRKASDIHFEPYEHNYRIRFRCDGILHQHLTPPASLSRRLSTRLKVM
SKLNIAERRQPQDGRIKLKLSDTLAIDLRVSTLPTLWGEKVVLRILDSSSANLDINILGYNDKQKSDYLTALKRPQGMIL
ITGPTGSGKTVSLYTGLNILNTDERNISTAEDPVEINLPGINQVQINQQVGLSFADALRSFLRQDPDIVMVGEIRDLETA
SIAVKAAQTGHLVLSTLHTNSAAETITRLTNMGVEDFNLASSLSLIIAQRLARRLCKSCKHPHPLDEITCQRLNVPMNTT
VYQANNAGCDDCNKGYAGRVGIYEVMVFSREIAEVLMANATALQLEDIAVKQGMQRLKDSGIEKLLEGVTSLSELQRVLQ
L

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=1104847 ACN08M_RS04905 WP_419239398.1 997654..999339(+) (pilB) [Photobacterium leiognathi subsp. mandapamensis strain Sc16.3]
ATGCAAACCAATCTCGCTTCTATCTTAGCTCAAGCTAATTTAATTAGCCCAGAGCAAGAACAACAAGTAGTCGAGTTTGT
GACGGCGGAAGGGATTAACGTCCCGACCGCCTTAACCCGTTTAGGGGTATTAAACGATTTAGATTTAGCTGATAACTTGG
CGAATTTATTTGGTCTCCAAAAAGTCGATGTTCACCATTACGACTATGATGGCTGTTGCCAAAGCGTTTACCAACGTGAA
TTAGTACTGCGCCACCGCGCACTGCCATTAACCCAAGATGCCAATAGCCTATTTTTAGGTGTCAGCGATCCAACTAATAT
GGATGCGCAAGACGAATTTCGTTTTGCTGTAGGTAAAACCGTTGAATTTCTAATTTTAGAAAACAAACAGTTAGAATCCG
CCATTCGCCGTGTTTACGGTAGCGATATTGGTGAAACCAGCCATAGCAAACAAGTCAGTGACGCCGATTTAGGTAAGCTG
GTTGATATTAGCGATGCTGAACTTGATGAAGCGACAGATTTAACCCAAGACAGCGCTCCCGTTACCCGCTACATCAACCA
AGTGTTATTAGATGCTGTGCGTCGAAAAGCCTCTGATATTCACTTTGAACCCTACGAGCATAACTATCGAATTCGTTTTC
GTTGCGACGGTATACTACATCAGCACTTAACTCCACCTGCTAGTTTGTCACGCCGTTTATCAACCCGTCTAAAGGTGATG
TCAAAGCTCAACATTGCCGAGCGTCGCCAACCGCAAGATGGACGTATTAAGTTAAAATTATCAGATACCTTAGCAATAGA
TTTGCGCGTTTCTACCCTACCTACACTGTGGGGAGAAAAAGTAGTACTGCGGATATTAGATAGCTCTTCGGCGAATCTTG
ATATCAATATTTTGGGTTATAACGATAAGCAAAAATCTGATTATTTAACTGCCCTTAAACGCCCACAGGGGATGATATTA
ATTACTGGCCCAACAGGTAGTGGTAAAACTGTATCGCTTTATACCGGGCTCAATATTTTAAATACCGATGAGCGAAATAT
TTCTACTGCTGAAGATCCGGTAGAAATTAACTTACCCGGTATTAACCAAGTACAAATTAATCAGCAAGTAGGTTTAAGTT
TTGCCGATGCGCTGCGTTCATTTCTGCGCCAAGACCCTGACATCGTGATGGTTGGTGAGATCCGTGATTTAGAAACAGCC
TCTATTGCGGTAAAAGCCGCCCAAACTGGTCACTTGGTATTATCAACCCTGCATACTAACTCTGCAGCTGAAACCATTAC
CCGTTTAACCAATATGGGGGTGGAAGATTTTAACCTCGCATCATCGCTGAGCTTAATCATCGCCCAGCGCCTTGCCCGTC
GCTTATGTAAAAGCTGTAAACACCCTCATCCACTGGATGAAATCACTTGCCAGCGTTTAAACGTGCCAATGAATACCACG
GTCTATCAAGCCAACAATGCAGGTTGTGATGATTGTAATAAAGGTTATGCCGGACGTGTCGGTATTTATGAAGTGATGGT
ATTTAGCCGCGAAATAGCCGAAGTCTTAATGGCAAATGCCACTGCATTACAACTAGAAGATATTGCTGTTAAACAAGGCA
TGCAGCGCTTAAAAGATTCAGGCATCGAGAAGCTACTTGAAGGCGTAACTAGCCTGTCTGAACTGCAACGTGTATTACAG
CTTTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(187-454)

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

(38-142)


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

62.679

99.822

0.626
  pilB Vibrio parahaemolyticus RIMD 2210633

59.821

99.822

0.597
  pilB Vibrio campbellii strain DS40M4

59.464

99.822

0.594
  pilB Acinetobacter baumannii D1279779

53.191

92.157

0.49
  pilB Legionella pneumophila strain ERS1305867

48.319

100

0.487
  pilB Acinetobacter baylyi ADP1

51.533

93.048

0.48
  pilF Neisseria gonorrhoeae MS11

46.359

100

0.465
  pilB/pilB1 Synechocystis sp. PCC 6803

40.698

91.979

0.374
  pilF Thermus thermophilus HB27

37.522

99.287

0.373

Multiple sequence alignment