Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   PVK79_RS04005 Genome accession   NZ_CP118496
Coordinates   905244..906923 (-) Length   559 a.a.
NCBI ID   WP_145235193.1    Uniprot ID   -
Organism   Pseudoalteromonas rhizosphaerae strain hCg-42     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 900244..911923
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PVK79_RS03980 tkt 900383..902374 (+) 1992 WP_257325348.1 transketolase -
  PVK79_RS03985 - 902568..902879 (+) 312 WP_145235187.1 pyrimidine/purine nucleoside phosphorylase -
  PVK79_RS03990 raiA 903061..903417 (+) 357 WP_145235189.1 ribosome-associated translation inhibitor RaiA -
  PVK79_RS03995 - 903623..904795 (+) 1173 WP_145235524.1 divalent metal cation transporter -
  PVK79_RS04000 yacG 904946..905176 (-) 231 WP_182735849.1 DNA gyrase inhibitor YacG -
  PVK79_RS04005 pilB 905244..906923 (-) 1680 WP_145235193.1 type IV-A pilus assembly ATPase PilB Machinery gene
  PVK79_RS04010 coaE 907063..907695 (-) 633 WP_257325349.1 dephospho-CoA kinase -
  PVK79_RS04015 pilD 907697..908596 (-) 900 WP_274804052.1 A24 family peptidase Machinery gene
  PVK79_RS04020 pilC 909851..911077 (-) 1227 WP_257325350.1 type II secretion system F family protein Machinery gene

Sequence

Protein


Download         Length: 559 a.a.        Molecular weight: 62337.68 Da        Isoelectric Point: 5.3619

>NTDB_id=792829 PVK79_RS04005 WP_145235193.1 905244..906923(-) (pilB) [Pseudoalteromonas rhizosphaerae strain hCg-42]
MNINSPLLRKFITLGRIDAETVKLKQREYGSTAELIAKCSGIDGHELAEQCIDLFRVPYFDIREFDVELIPKELVKEKLI
KDHHILPLVKKGRKLYIAASDPTDYGAFENFEFSTGLACEVVVVDYRQLEAKIDQLLDASGSLNLSDEEFKEFSDLDTEG
PREIQNNGEDEKDDAPIIVYINKILMDAIKKGASDLHFEPYEHKYRVRFRIDGILHEMASPPNSLATRLSARIKVMARLD
IAEKRKPQDGRIKLKITERKSIDFRVSTLPTLWGEKIVMRILDSSSAMLGIDVLGYEPEQKKLYMDALQQPQGMILVTGP
TGSGKTVSLYTGLNILNQPERNISTAEDPVEINLEGINQVQINPRAEMTFANALKAFLRQDPDVVMVGEIRDLETAEISI
KAAQTGHLVLSTLHTNSAPETLTRLLNMGVPAYNVASSISLIIAQRLARRLCPKCKAPESLPDEELQRQGFSPEQITELT
LFAPKGCDSCTDGYKGRVGIYEVMQITPEIAQIIMRGGNSLEIAEVSLKSGFNNLRLSGLRKAAAGMTSLAEINRVTSF

Nucleotide


Download         Length: 1680 bp        

>NTDB_id=792829 PVK79_RS04005 WP_145235193.1 905244..906923(-) (pilB) [Pseudoalteromonas rhizosphaerae strain hCg-42]
ATGAATATTAATTCACCATTACTTAGAAAGTTTATTACGCTTGGCCGTATTGACGCAGAAACAGTCAAACTCAAACAGCG
TGAGTATGGCTCAACAGCAGAGTTGATCGCAAAATGCAGCGGTATTGATGGTCATGAACTTGCCGAGCAATGTATCGACT
TATTCCGAGTGCCTTATTTTGATATACGTGAGTTTGACGTCGAGCTGATCCCAAAAGAGCTTGTTAAAGAAAAACTGATC
AAAGATCATCATATTCTACCTTTAGTTAAAAAAGGCCGTAAACTCTACATTGCCGCGTCGGATCCTACTGATTATGGTGC
TTTTGAAAACTTTGAATTCAGTACAGGGCTTGCTTGTGAGGTGGTCGTTGTTGATTATCGCCAGCTTGAAGCCAAAATAG
ATCAACTGCTTGATGCGTCGGGCAGTTTAAATTTAAGTGATGAAGAATTTAAAGAATTTAGTGATTTAGATACCGAAGGT
CCTCGCGAAATACAAAACAATGGCGAAGACGAAAAAGACGATGCCCCGATTATCGTCTACATCAATAAAATTTTGATGGA
TGCAATTAAAAAAGGCGCCTCGGATTTACACTTTGAACCTTACGAACATAAATACCGCGTGCGTTTTCGTATCGATGGCA
TTTTACATGAAATGGCCAGCCCGCCGAACAGCTTAGCCACGCGTTTATCAGCGCGGATAAAAGTAATGGCACGCTTAGAT
ATTGCCGAAAAACGCAAACCACAAGATGGCCGTATCAAACTTAAAATCACCGAACGTAAAAGTATCGATTTCCGGGTAAG
TACGCTGCCGACTTTGTGGGGCGAAAAAATCGTAATGCGTATCCTTGATTCATCCAGTGCCATGCTTGGCATTGATGTAC
TGGGTTATGAACCTGAGCAGAAAAAACTCTATATGGATGCGCTGCAACAACCGCAAGGCATGATTTTAGTTACCGGCCCT
ACCGGCTCGGGTAAAACAGTATCACTTTACACTGGTTTGAATATTCTTAACCAACCAGAGCGTAATATTAGCACTGCAGA
AGATCCGGTTGAAATTAACCTTGAAGGTATCAACCAAGTGCAAATTAACCCGCGCGCAGAGATGACCTTTGCTAATGCGC
TAAAAGCGTTTTTACGTCAAGATCCTGATGTGGTGATGGTAGGTGAGATCCGTGATCTTGAAACCGCTGAAATTTCTATT
AAAGCGGCGCAAACTGGTCACTTGGTATTATCGACCTTACATACTAACTCTGCACCTGAAACCCTAACCCGTTTACTTAA
TATGGGTGTACCTGCTTATAACGTTGCCAGCTCGATTAGCTTAATTATCGCACAGCGCTTAGCTCGACGTTTATGCCCTA
AATGTAAAGCACCTGAAAGCTTGCCGGACGAAGAGTTACAACGCCAAGGTTTTAGCCCTGAACAAATAACTGAACTCACT
TTATTTGCACCCAAAGGCTGCGATAGCTGCACTGATGGCTACAAAGGTCGTGTGGGTATTTATGAAGTAATGCAGATTAC
TCCAGAAATAGCGCAAATCATTATGCGTGGCGGTAATTCACTAGAAATTGCTGAAGTATCGTTAAAGTCTGGCTTTAATA
ACTTGCGTTTATCAGGCCTCAGAAAAGCTGCCGCCGGTATGACTTCATTAGCCGAGATAAACCGAGTAACTAGTTTTTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(183-450)

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

(45-141)


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 baylyi ADP1

56.028

100

0.565
  pilB Acinetobacter baumannii D1279779

60.583

92.129

0.558
  pilB Legionella pneumophila strain ERS1305867

54.596

97.317

0.531
  pilB Vibrio cholerae strain A1552

54.221

95.349

0.517
  pilB Vibrio campbellii strain DS40M4

52.612

95.886

0.504
  pilB Vibrio parahaemolyticus RIMD 2210633

53.654

93.023

0.499
  pilF Neisseria gonorrhoeae MS11

49.52

93.202

0.462
  pilF Thermus thermophilus HB27

37.937

97.138

0.369