Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   LT85_RS22120 Genome accession   NZ_CP009962
Coordinates   5014340..5016061 (+) Length   573 a.a.
NCBI ID   WP_038493256.1    Uniprot ID   -
Organism   Collimonas arenae strain Cal35     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 5009340..5021061
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LT85_RS22105 (LT85_4468) ispB 5011765..5012715 (+) 951 WP_156117685.1 octaprenyl diphosphate synthase -
  LT85_RS22115 (LT85_4469) - 5012928..5014217 (+) 1290 WP_038493254.1 HlyC/CorC family transporter -
  LT85_RS22120 (LT85_4470) pilB 5014340..5016061 (+) 1722 WP_038493256.1 type IV-A pilus assembly ATPase PilB Machinery gene
  LT85_RS22125 (LT85_4471) pilC 5016077..5017309 (+) 1233 WP_038493258.1 type II secretion system F family protein Machinery gene
  LT85_RS22130 (LT85_4472) pilD 5017309..5018175 (+) 867 WP_038493260.1 A24 family peptidase Machinery gene
  LT85_RS22135 (LT85_4473) coaE 5018182..5018832 (+) 651 WP_038493262.1 dephospho-CoA kinase -
  LT85_RS22140 (LT85_4474) zapD 5018963..5019718 (+) 756 WP_038493264.1 cell division protein ZapD -
  LT85_RS22145 (LT85_4475) - 5019741..5019929 (+) 189 WP_038493266.1 DNA gyrase inhibitor YacG -
  LT85_RS22150 (LT85_4476) - 5020004..5020417 (-) 414 WP_038493267.1 NUDIX domain-containing protein -

Sequence

Protein


Download         Length: 573 a.a.        Molecular weight: 62687.42 Da        Isoelectric Point: 5.2943

>NTDB_id=133201 LT85_RS22120 WP_038493256.1 5014340..5016061(+) (pilB) [Collimonas arenae strain Cal35]
MAAVFPNVSTTGPISGLARALLQAGRLSTAQVETLHKKAGDTQTPFIAALLESGHLDARALALFCAETFGYPQLDLNVLN
LGSLPEKAIDAKLMETHSVLALAKRGNKIYVALSDPTNIQALDQIKFQTELTVEPIIVEHPVLLKQIQKLVKSTEQSLNE
MVGDDQEINFVEEDAVAVADATADIDDAPVVRFLQKILTDAINQGASDLHFEPFEKFYRIRFRVDGVLRDMAQPPLSIKE
KLASRIKVISKLDISEKRVPQDGRMRLVVSKTRAIDFRVSTLPTLFGEKIVMRILDPSQAQMGIDALGYDPDQKAILMDA
IQRPYGMVLVTGPTGSGKTVSLYTCLNILNQPGINISTAEDPAEINLPGVNQVNINDRAGLTFPVALKAFLRQDPDIIMV
GEIRDLETADISIKAAQTGHMVFSTLHTNDAPSTLTRLMNMGVPAFNIASSVILITAQRLARRLCSCKQPITIQEETLVE
AGYTEDDLDGSWMPYKAVGCERCNGTGYKGRVGIYQIMPITEEIERIILAHGTALEIEAQAKREGVKTLRQSGLMKVKQG
MTSLEEVLGCTNI

Nucleotide


Download         Length: 1722 bp        

>NTDB_id=133201 LT85_RS22120 WP_038493256.1 5014340..5016061(+) (pilB) [Collimonas arenae strain Cal35]
ATGGCAGCAGTATTTCCCAACGTTAGTACCACCGGTCCGATCTCGGGGCTTGCCCGCGCATTGCTACAGGCGGGACGCCT
ATCCACCGCGCAAGTCGAAACCTTGCACAAGAAAGCCGGTGATACGCAAACCCCGTTTATCGCTGCCTTGCTGGAAAGCG
GCCACCTCGATGCCCGCGCGCTGGCCTTGTTTTGTGCAGAAACTTTTGGCTATCCTCAACTGGATCTGAATGTACTGAAT
CTGGGTTCGCTGCCGGAAAAGGCAATCGACGCCAAACTGATGGAAACTCACTCCGTCCTTGCACTGGCGAAACGCGGCAA
CAAGATTTATGTGGCGCTGTCCGACCCGACCAATATCCAGGCGCTGGACCAAATCAAGTTTCAAACCGAACTGACGGTTG
AGCCAATCATCGTCGAGCATCCGGTGCTGCTGAAGCAGATCCAGAAGCTGGTGAAATCGACTGAACAAAGCTTGAATGAG
ATGGTCGGCGACGACCAGGAAATCAATTTCGTCGAAGAAGATGCGGTCGCGGTTGCCGACGCCACTGCTGATATTGACGA
CGCGCCCGTGGTCCGTTTCCTGCAAAAAATCTTGACCGACGCTATCAACCAAGGCGCTTCCGATTTGCATTTCGAACCAT
TCGAAAAGTTCTACCGGATCCGTTTCCGGGTCGATGGCGTGTTGCGTGACATGGCACAACCGCCGTTGTCGATCAAGGAA
AAACTGGCATCCCGCATCAAGGTTATTTCCAAACTTGATATTTCGGAAAAGCGCGTGCCGCAAGATGGACGCATGCGGCT
GGTGGTATCGAAAACACGGGCGATCGATTTCCGCGTAAGCACCTTGCCGACCCTGTTTGGCGAAAAGATCGTAATGCGTA
TCCTGGATCCTAGCCAGGCGCAGATGGGGATTGACGCACTGGGTTACGATCCGGATCAAAAAGCCATCCTGATGGACGCC
ATCCAGCGCCCTTATGGCATGGTACTGGTGACCGGGCCTACCGGTTCCGGTAAAACCGTGTCGCTGTATACCTGCTTGAA
TATCCTGAATCAGCCCGGCATCAATATCTCCACCGCCGAAGATCCCGCCGAAATCAACTTGCCTGGCGTCAACCAGGTCA
ATATCAACGACCGCGCCGGACTGACTTTCCCTGTGGCGTTGAAAGCCTTCCTGCGGCAGGATCCTGACATCATCATGGTC
GGTGAAATCCGCGACCTGGAAACAGCCGACATCTCGATCAAGGCTGCACAAACCGGGCATATGGTGTTCTCCACGCTGCA
TACCAACGACGCACCGTCGACACTGACACGGCTGATGAACATGGGTGTCCCGGCATTCAATATCGCCTCCTCGGTAATCT
TGATCACTGCGCAGCGGCTGGCACGCCGCCTGTGCAGCTGCAAGCAGCCGATTACGATCCAGGAAGAAACCCTGGTCGAA
GCCGGCTACACCGAAGACGACCTAGATGGCAGCTGGATGCCCTACAAGGCGGTAGGTTGCGAACGCTGCAATGGCACCGG
CTACAAGGGGCGGGTCGGCATCTATCAGATCATGCCGATCACCGAAGAAATAGAACGCATTATTCTGGCGCATGGCACCG
CACTGGAAATCGAAGCACAAGCCAAGCGCGAGGGTGTCAAAACATTGCGCCAGTCGGGACTGATGAAGGTTAAACAAGGG
ATGACCAGCCTCGAAGAAGTGCTTGGTTGCACCAATATCTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(196-463)

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

(50-152)


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

55.24

98.255

0.543
  pilB Acinetobacter baylyi ADP1

53.299

100

0.536
  pilF Neisseria gonorrhoeae MS11

52.817

99.127

0.524
  pilB Legionella pneumophila strain ERS1305867

50.98

97.906

0.499
  pilB Vibrio parahaemolyticus RIMD 2210633

46.726

98.604

0.461
  pilB Vibrio cholerae strain A1552

46.359

98.255

0.455
  pilB Vibrio campbellii strain DS40M4

45.552

98.08

0.447
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.624

98.953

0.382
  pilF Thermus thermophilus HB27

40.525

93.019

0.377

Multiple sequence alignment