Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   OM33_RS13890 Genome accession   NZ_CP009888
Coordinates   3007463..3009151 (+) Length   562 a.a.
NCBI ID   WP_038642563.1    Uniprot ID   A0A0A7EHR5
Organism   Pseudoalteromonas piratica strain OCN003     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3002463..3014151
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  OM33_RS13860 (OM33_13860) pdhR 3002803..3003549 (-) 747 WP_038642555.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  OM33_RS13865 (OM33_13865) - 3003825..3004085 (+) 261 WP_199922456.1 hypothetical protein -
  OM33_RS13870 (OM33_13870) ampE 3004116..3004964 (-) 849 WP_038642559.1 beta-lactamase regulator AmpE -
  OM33_RS13875 (OM33_13875) ampD 3004973..3005518 (-) 546 WP_052141016.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  OM33_RS13880 (OM33_13880) nadC 3005714..3006568 (+) 855 WP_038642561.1 carboxylating nicotinate-nucleotide diphosphorylase -
  OM33_RS23055 - 3006957..3007082 (+) 126 Protein_2681 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  OM33_RS13890 (OM33_13890) pilB 3007463..3009151 (+) 1689 WP_038642563.1 type IV-A pilus assembly ATPase PilB Machinery gene
  OM33_RS13895 (OM33_13895) pilC 3009244..3010479 (+) 1236 WP_038642565.1 type II secretion system F family protein Machinery gene
  OM33_RS13900 (OM33_13900) pilD 3010486..3011370 (+) 885 WP_038642567.1 A24 family peptidase Machinery gene
  OM33_RS13905 (OM33_13905) coaE 3011372..3011962 (+) 591 WP_038642569.1 dephospho-CoA kinase -
  OM33_RS13910 (OM33_13910) pilB 3012094..3013776 (+) 1683 WP_038642571.1 type IV-A pilus assembly ATPase PilB Machinery gene
  OM33_RS13915 (OM33_13915) yacG 3013860..3014093 (+) 234 WP_038642573.1 DNA gyrase inhibitor YacG -

Sequence

Protein


Download         Length: 562 a.a.        Molecular weight: 62067.93 Da        Isoelectric Point: 4.9526

>NTDB_id=132724 OM33_RS13890 WP_038642563.1 3007463..3009151(+) (pilB) [Pseudoalteromonas piratica strain OCN003]
MQLSSPLVRKLVNFGYLDQNKLVSFQNQDTSLAEAICSASGMTANELSNKVANLFQSPHLSIKNIDLAFLPDGRERNEKL
IKKHRVLPISCKGKTLYLASADPTNFDAFEDYEFNTGLQTEVIVAAYDEIDAAIDSLFEKSDGIELSDDQLSELSGISAD
VDNKDEEDDDISNKEDDAPIIVYINKILMDAIKRGASDLHFEPYEHVYRIRFRVDGVLHEVANPPIGLESRISARIKVMS
QLDLAEKRKPQDGRIKLKITAKKSIDFRVSTLPTLWGEKIVMRILDSSSAMLGIDVLGYEPEQKELYLNALSQPQGMILV
TGPTGSGKTVSLYTGLNILNKPERNISTAEDPVEINLVGINQVQINPKAEMTFANALRAFLRQDPDIVMVGEIRDLETAE
ISIKAAQTGHLVLSTLHTNSAPETLTRLMNMGVPSYNIASSVSLIIAQRLARRLCPACKKPEHLPEQELLKLGFTEEQIN
SIQLYKAEGCDKCTEGYKGRVGVYEVMPITPKIAEVIMQGGNSLEIATIAEQEGINNLRKSGLKKAASGVTSITEINRVT
SY

Nucleotide


Download         Length: 1689 bp        

>NTDB_id=132724 OM33_RS13890 WP_038642563.1 3007463..3009151(+) (pilB) [Pseudoalteromonas piratica strain OCN003]
ATGCAATTAAGTTCACCACTTGTTAGAAAACTCGTTAATTTTGGTTATTTGGATCAAAACAAACTTGTATCATTTCAAAA
CCAAGACACCTCTCTTGCTGAAGCTATTTGCAGTGCAAGCGGTATGACCGCAAATGAATTATCAAATAAAGTAGCAAATC
TTTTCCAGTCGCCACACCTGTCAATAAAAAATATTGACCTTGCTTTTCTGCCTGATGGAAGAGAACGCAATGAAAAACTA
ATCAAAAAACATCGTGTTTTACCAATCTCCTGTAAAGGAAAGACCCTTTATTTAGCGAGCGCAGACCCTACTAACTTTGA
CGCATTTGAAGACTACGAATTCAATACCGGTCTTCAAACTGAAGTTATTGTCGCGGCCTACGATGAAATCGATGCTGCGA
TTGATTCATTATTTGAAAAAAGTGATGGTATTGAGCTAAGTGACGATCAGCTTAGTGAACTCAGTGGCATTAGTGCCGAT
GTCGATAATAAAGATGAAGAAGATGACGATATAAGCAATAAAGAAGATGATGCACCCATTATTGTTTATATTAATAAAAT
TTTAATGGATGCCATTAAACGTGGTGCATCAGACTTACATTTTGAGCCTTATGAACATGTATACCGTATTCGTTTTCGTG
TAGATGGTGTATTACATGAAGTTGCAAATCCACCAATAGGCTTAGAAAGCCGGATTTCCGCACGTATTAAGGTAATGTCA
CAGCTAGATCTTGCAGAAAAGCGAAAACCTCAAGATGGTCGAATTAAACTAAAGATCACAGCTAAAAAAAGCATCGATTT
CCGTGTTTCCACCCTTCCAACGCTGTGGGGTGAGAAAATAGTAATGCGTATTTTAGACTCATCGAGTGCCATGCTTGGTA
TCGATGTTTTAGGGTATGAACCTGAACAGAAAGAGCTTTATTTAAACGCGCTTTCACAGCCTCAAGGAATGATTTTAGTA
ACAGGCCCGACTGGTTCAGGTAAAACTGTATCTCTCTACACAGGCCTAAATATCCTTAACAAACCCGAGAGAAATATTTC
AACCGCGGAAGATCCTGTAGAAATCAACTTAGTTGGCATTAACCAAGTACAAATCAACCCAAAAGCAGAAATGACCTTCG
CTAATGCACTGCGTGCTTTCTTACGTCAAGATCCTGATATCGTTATGGTGGGGGAGATTCGAGACCTAGAAACCGCAGAA
ATCTCCATAAAAGCGGCACAAACAGGTCACTTGGTATTAAGCACACTTCATACAAACTCTGCACCAGAGACACTTACCCG
TTTAATGAATATGGGTGTACCATCGTATAATATAGCAAGCTCAGTTAGTTTAATTATAGCTCAGCGCCTTGCCCGTCGCC
TATGCCCTGCATGTAAAAAGCCAGAACATTTACCGGAGCAAGAATTACTAAAATTAGGGTTTACAGAAGAGCAAATTAAC
TCGATTCAGTTATACAAAGCTGAAGGCTGTGATAAATGCACCGAAGGTTATAAAGGGCGAGTCGGTGTTTATGAAGTGAT
GCCAATTACACCCAAAATTGCCGAAGTGATTATGCAAGGTGGTAACTCTTTAGAAATTGCAACAATCGCAGAACAAGAAG
GTATTAATAATTTGAGAAAATCCGGTCTAAAGAAAGCAGCATCAGGTGTAACGAGTATAACAGAAATCAACCGTGTAACT
AGTTATTAA

Domains

Predicted by InterproScan.

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

(44-141)

Type II/IV secretion system protein (T2SSE)

(186-453)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A0A0A7EHR5

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 Acinetobacter baylyi ADP1

55.634

100

0.562
  pilB Legionella pneumophila strain ERS1305867

54.628

98.043

0.536
  pilB Acinetobacter baumannii D1279779

57.5

92.527

0.532
  pilB Vibrio parahaemolyticus RIMD 2210633

52.12

100

0.525
  pilB Vibrio cholerae strain A1552

53.676

96.797

0.52
  pilB Vibrio campbellii strain DS40M4

53.346

95.73

0.511
  pilF Neisseria gonorrhoeae MS11

46.924

100

0.475
  pilB/pilB1 Synechocystis sp. PCC 6803

36.953

100

0.406
  pilB Haemophilus influenzae 86-028NP

41.046

88.434

0.363

Multiple sequence alignment