Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   GPY55_RS24165 Genome accession   NZ_CP046831
Coordinates   2961814..2963475 (-) Length   553 a.a.
NCBI ID   WP_178982930.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain 2012AW-0224     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2956814..2968475
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GPY55_RS24135 - 2957043..2958179 (-) 1137 WP_031846937.1 PilN domain-containing protein -
  GPY55_RS24140 - 2958169..2959071 (-) 903 WP_031846936.1 type II secretion system protein GspK -
  GPY55_RS24145 - 2959071..2959799 (-) 729 WP_029852223.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  GPY55_RS24150 - 2959787..2960209 (-) 423 WP_025609661.1 type II secretion system protein -
  GPY55_RS24155 - 2960190..2960609 (-) 420 WP_031810507.1 type II secretion system protein -
  GPY55_RS24160 - 2960611..2961813 (-) 1203 WP_083135633.1 type II secretion system F family protein -
  GPY55_RS24165 pilB 2961814..2963475 (-) 1662 WP_178982930.1 GspE/PulE family protein Machinery gene
  GPY55_RS24170 gspG 2963494..2963904 (-) 411 WP_025441192.1 type II secretion system major pseudopilin GspG -
  GPY55_RS24175 - 2964523..2966190 (+) 1668 WP_025609665.1 hypothetical protein -
  GPY55_RS24180 cysD 2966511..2967419 (+) 909 WP_086484466.1 sulfate adenylyltransferase subunit CysD -
  GPY55_RS24185 cysC 2967518..2968174 (+) 657 WP_025609668.1 adenylyl-sulfate kinase -

Sequence

Protein


Download         Length: 553 a.a.        Molecular weight: 62060.01 Da        Isoelectric Point: 4.7757

>NTDB_id=356099 GPY55_RS24165 WP_178982930.1 2961814..2963475(-) (pilB) [Vibrio parahaemolyticus strain 2012AW-0224]
MYLENRIVDCFVDLGVTQEQLDKAVTYQKELPERLEKIMVNMGVLEQEQLVEFYTKYLELPAYDSLVNEYELSADSLLQF
DVEKLFLIGCLPFSLSNGVLGVACIDPMNIDAIQYWQTQTYQVSLFVATQRTLEDLKARIDAELEANQDSHTGGDELSRL
RELAFGAPTVNLVNNLIVKGIKLGASDLHIEPVGSRQRARYRVDGVLHEVESIPPHLQQAVLSRIKILSGMDIAEKRRPQ
DGKIETRVAGKELDIRCSSLPLGEGESMVMRFLLKSSTKFELEQLGYEPDLTEAIERDLKRTAGVILMTGPTGSGKTTSL
YSFLNQLNQPDVKIITLEDPVEYQLEGINQVQVRSDIGFDFSAGLRSIVRQDPDIIMIGEIRDQETARIAMQSSLTGHLV
FSTVHTNDAPSSYTRLLDLGIEDYLLNASLVSIMAQRLVRTICPHCKTSDIHSGALERDDVKQVKDKWLRTEPNIMFGEG
CEACGHTGYSGRMAILEYLPCDEGMQNIPKNAEFLTNARKYMFEKGFRTLKQDGLLKVLKGHTTLEEVLRVAG

Nucleotide


Download         Length: 1662 bp        

>NTDB_id=356099 GPY55_RS24165 WP_178982930.1 2961814..2963475(-) (pilB) [Vibrio parahaemolyticus strain 2012AW-0224]
ATGTATTTGGAGAACAGAATCGTTGATTGCTTTGTTGATTTGGGTGTCACACAAGAGCAGTTAGATAAAGCTGTTACATA
TCAAAAAGAACTTCCAGAACGCCTAGAGAAAATTATGGTGAACATGGGAGTTTTAGAACAAGAACAACTCGTTGAATTCT
ATACAAAGTATTTGGAACTTCCAGCTTACGACTCGTTAGTGAATGAATACGAATTGTCAGCAGATTCTTTACTGCAGTTC
GATGTTGAAAAGTTGTTCTTAATCGGATGTTTACCGTTTAGTTTAAGTAACGGTGTTCTTGGCGTTGCTTGCATTGATCC
AATGAATATCGATGCGATCCAGTATTGGCAAACGCAGACTTATCAAGTGTCGCTGTTTGTCGCAACGCAAAGAACATTAG
AAGATTTAAAAGCGCGCATCGATGCAGAATTAGAAGCGAATCAAGACTCTCATACTGGGGGAGATGAGCTGTCCCGTCTT
CGAGAACTCGCGTTTGGAGCTCCTACAGTAAACTTAGTTAACAATCTAATTGTTAAAGGCATTAAGCTTGGGGCATCTGA
CCTGCACATCGAGCCCGTTGGAAGTAGGCAGCGTGCTAGGTACCGTGTTGACGGTGTTTTGCATGAGGTCGAATCTATTC
CTCCTCACCTTCAACAAGCCGTGCTATCTAGAATTAAGATATTGTCAGGTATGGATATTGCGGAAAAGCGACGTCCTCAG
GATGGTAAAATCGAAACACGTGTAGCGGGTAAAGAGCTTGATATTCGATGTTCTTCTCTCCCCTTGGGAGAGGGGGAAAG
CATGGTTATGCGTTTCCTGCTTAAGAGCTCAACAAAGTTTGAGTTAGAACAACTAGGATATGAGCCAGATCTAACTGAAG
CCATAGAGCGAGATCTCAAACGTACCGCTGGTGTAATTCTAATGACAGGGCCGACAGGCTCCGGTAAGACGACGAGCTTG
TACTCGTTCTTAAATCAGCTTAACCAACCTGACGTAAAAATCATTACTTTAGAAGACCCGGTTGAGTACCAGTTAGAGGG
AATAAACCAAGTACAAGTTCGAAGTGATATTGGTTTTGATTTTAGTGCAGGCTTGCGCAGTATTGTCCGCCAAGACCCTG
ATATCATTATGATTGGTGAGATTCGTGACCAGGAGACGGCCCGAATCGCTATGCAATCATCATTAACTGGCCACTTAGTG
TTTAGTACGGTCCACACCAATGACGCTCCGAGCAGTTATACCCGTCTTTTAGACTTAGGGATAGAAGACTATCTATTAAA
TGCTTCTCTGGTTTCTATTATGGCTCAAAGACTTGTTAGAACCATTTGCCCTCATTGCAAAACAAGCGATATCCACTCGG
GAGCGCTAGAAAGAGATGATGTTAAACAAGTCAAAGATAAATGGCTAAGAACCGAGCCTAACATAATGTTCGGTGAGGGG
TGTGAGGCATGTGGACACACCGGCTACTCTGGTCGTATGGCTATATTGGAATACTTACCGTGTGATGAAGGGATGCAGAA
TATTCCTAAAAATGCTGAGTTTTTGACAAATGCTCGTAAGTATATGTTTGAAAAAGGCTTTAGGACGTTGAAGCAGGACG
GCCTTTTAAAAGTTCTAAAAGGACATACAACCCTAGAAGAAGTATTGAGGGTGGCTGGCTAA

Domains

Predicted by InterProScan.

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

(39-140)

Type II/IV secretion system protein (T2SSE)

(176-441)


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

36.907

100

0.38
  pilF Thermus thermophilus HB27

37.184

100

0.373
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.542

100

0.371
  pilB Vibrio cholerae strain A1552

35.893

100

0.363
  pilB Acinetobacter baylyi ADP1

35.026

100

0.362