Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   D0511_RS04525 Genome accession   NZ_CP031761
Coordinates   1004410..1006086 (-) Length   558 a.a.
NCBI ID   WP_117332834.1    Uniprot ID   A0AAD0RF77
Organism   Pseudoalteromonas piscicida strain DE2-A     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 999410..1011086
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  D0511_RS04515 (D0511_04515) nhaA 1000284..1001684 (+) 1401 WP_088531402.1 Na+/H+ antiporter NhaA -
  D0511_RS04520 (D0511_04520) katG 1001881..1004064 (+) 2184 WP_088531401.1 catalase/peroxidase HPI -
  D0511_RS04525 (D0511_04525) pilB 1004410..1006086 (-) 1677 WP_117332834.1 type IV-A pilus assembly ATPase PilB Machinery gene
  D0511_RS04530 (D0511_04530) coaE 1006196..1006825 (-) 630 WP_088531400.1 dephospho-CoA kinase -
  D0511_RS04535 (D0511_04535) pilD 1006835..1007713 (-) 879 WP_088531399.1 prepilin peptidase Machinery gene
  D0511_RS04540 (D0511_04540) pilC 1007848..1009074 (-) 1227 WP_088531398.1 type II secretion system F family protein Machinery gene
  D0511_RS23785 - 1009354..1010115 (-) 762 WP_151208242.1 hypothetical protein -
  D0511_RS04550 (D0511_04550) - 1010127..1010600 (-) 474 WP_088531396.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -

Sequence

Protein


Download         Length: 558 a.a.        Molecular weight: 62071.36 Da        Isoelectric Point: 5.8452

>NTDB_id=311039 D0511_RS04525 WP_117332834.1 1004410..1006086(-) (pilB) [Pseudoalteromonas piscicida strain DE2-A]
MEHHSPLLRKFITLGRVTAEQIKSRQSEANTTAELICLSSGMSSKELAEECLDLFKVPFFNLDHFNVSEIPSALVKEKLI
RKHHILPLVQKGRKLYVAASDPTDFGAFENFEFSTGLQCEVLVTDYKKLEAKIDQLFDATGGLSISEEEFKEFADLEVDD
EPKQQNTNEDKDDAPIIVYINKILMDAIKKGASDLHFEPYEKKYRVRFRIDGLLHEMASPPNTLATRLAARIKVMAHLDI
AEKRKPQDGRIKLKISERKSIDFRVSTLPTMWGEKIVMRILDSSSAMLGIDVLGYEPEQKKLYLDALEQPQGMILVTGPT
GSGKTVSLYTGLNILNQPERNISTAEDPVEINLEGINQVQINIKADMTFANALRAFLRQDPDVVMVGEIRDLETAEISIK
AAQTGHLVLSTLHTNSAPETLTRLLNMGVPAYNVASSVSLIIAQRLARRLCPKCKTAETLPEEALLGQGFTAEQIKEITL
FAPKGCEHCTDGYKGRVGIYEVVKITPELSHLIMEGGNSLEIAEKAEQLGFDNLRKSGLRKAAAGVTSLTEINRVTSY

Nucleotide


Download         Length: 1677 bp        

>NTDB_id=311039 D0511_RS04525 WP_117332834.1 1004410..1006086(-) (pilB) [Pseudoalteromonas piscicida strain DE2-A]
ATGGAACATCATTCCCCGCTACTGCGTAAATTTATTACCTTAGGGCGAGTCACTGCTGAGCAAATAAAGTCTCGCCAGTC
AGAAGCAAACACCACTGCCGAGTTGATTTGCCTAAGTTCAGGAATGAGCTCCAAAGAGCTAGCTGAAGAATGCCTAGACT
TATTTAAAGTGCCATTCTTTAATCTTGATCACTTTAATGTCAGTGAAATTCCATCAGCGCTAGTCAAAGAAAAACTGATC
CGTAAACACCATATTTTACCGCTAGTACAAAAAGGTAGAAAACTCTACGTTGCTGCCTCCGATCCCACTGATTTTGGCGC
ATTTGAAAACTTTGAGTTTAGTACTGGGTTACAGTGTGAAGTACTGGTAACCGACTACAAAAAACTCGAAGCAAAGATTG
ATCAGCTGTTTGATGCAACAGGCGGCCTCTCGATCTCTGAAGAAGAATTTAAAGAATTTGCAGACTTAGAAGTCGATGAC
GAGCCTAAACAGCAAAACACCAACGAAGACAAAGACGATGCGCCAATCATCGTTTATATCAATAAAATCTTAATGGACGC
GATAAAAAAAGGCGCGTCGGATCTGCACTTTGAGCCCTACGAGAAAAAATATCGCGTTCGCTTTCGTATCGATGGCCTGC
TGCATGAAATGGCAAGCCCACCTAACACACTAGCGACTCGGCTCGCTGCCCGTATCAAAGTAATGGCGCACTTAGACATA
GCGGAAAAACGTAAACCGCAAGATGGCCGCATTAAATTAAAGATTTCCGAGCGCAAAAGTATCGATTTTCGTGTGAGTAC
GCTGCCTACCATGTGGGGCGAGAAAATCGTAATGCGTATTCTAGACTCGTCCAGCGCCATGTTGGGGATTGACGTGCTAG
GTTATGAGCCAGAGCAGAAAAAACTCTACCTCGACGCACTAGAGCAGCCTCAGGGCATGATTTTGGTAACCGGCCCAACG
GGTTCTGGTAAAACTGTTTCACTTTACACGGGTTTAAATATTCTTAATCAGCCAGAGCGCAATATCAGCACAGCGGAAGA
CCCAGTCGAAATAAACCTCGAGGGCATTAACCAAGTACAAATCAATATCAAAGCGGATATGACCTTTGCCAATGCCTTGA
GGGCATTCCTGCGTCAGGATCCTGATGTGGTGATGGTAGGTGAGATCCGTGACCTTGAAACCGCAGAGATCTCAATAAAA
GCGGCTCAAACTGGTCACTTAGTATTGAGTACATTGCATACCAATTCCGCGCCTGAAACGCTCACTCGTCTATTAAACAT
GGGCGTGCCGGCGTACAACGTAGCAAGCTCGGTGAGTCTGATTATTGCCCAGCGTCTCGCAAGACGCCTCTGTCCTAAGT
GTAAAACAGCAGAAACGCTGCCAGAAGAAGCCTTGTTAGGGCAAGGCTTTACTGCCGAGCAGATTAAAGAGATTACCCTT
TTTGCGCCTAAAGGCTGTGAACACTGCACCGATGGTTACAAGGGCCGTGTGGGTATTTATGAAGTGGTAAAAATCACGCC
TGAGCTTTCGCACCTGATCATGGAAGGGGGCAATTCTCTTGAGATTGCCGAAAAAGCAGAGCAGTTAGGTTTTGATAACT
TACGTAAGTCTGGTTTGAGAAAAGCCGCGGCAGGCGTAACATCGCTTACAGAAATCAACCGAGTGACAAGTTATTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(182-449)

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

(42-140)


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 Acinetobacter baumannii D1279779

57.544

100

0.588
  pilB Acinetobacter baylyi ADP1

56.915

100

0.575
  pilB Vibrio cholerae strain A1552

53.273

98.566

0.525
  pilB Legionella pneumophila strain ERS1305867

54.894

93.369

0.513
  pilB Vibrio parahaemolyticus RIMD 2210633

53.409

94.624

0.505
  pilB Vibrio campbellii strain DS40M4

52.93

94.803

0.502
  pilF Neisseria gonorrhoeae MS11

47.312

100

0.473
  pilB/pilB1 Synechocystis sp. PCC 6803

35.91

100

0.4
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.048

94.086

0.367

Multiple sequence alignment