Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   IGB07_RS20535 Genome accession   NZ_CP062058
Coordinates   4802212..4803921 (-) Length   569 a.a.
NCBI ID   WP_119967824.1    Uniprot ID   -
Organism   Shewanella sp. WPAGA9     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4797212..4808921
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  IGB07_RS20505 mutT 4797911..4798348 (-) 438 WP_225442156.1 8-oxo-dGTP diphosphatase MutT -
  IGB07_RS20510 yacG 4798323..4798532 (-) 210 WP_192021958.1 DNA gyrase inhibitor YacG -
  IGB07_RS20515 zapD 4798573..4799310 (-) 738 WP_192021959.1 cell division protein ZapD -
  IGB07_RS20520 coaE 4799320..4799925 (-) 606 WP_192021961.1 dephospho-CoA kinase -
  IGB07_RS20525 pilD 4799938..4800867 (-) 930 WP_192023124.1 prepilin peptidase Machinery gene
  IGB07_RS20530 pilC 4800893..4802158 (-) 1266 WP_119967825.1 type II secretion system F family protein Machinery gene
  IGB07_RS20535 pilB 4802212..4803921 (-) 1710 WP_119967824.1 type IV-A pilus assembly ATPase PilB Machinery gene
  IGB07_RS20540 - 4804300..4805655 (+) 1356 WP_192021962.1 O-antigen ligase family protein -
  IGB07_RS20545 - 4805624..4805803 (-) 180 WP_192021963.1 hypothetical protein -
  IGB07_RS21260 - 4805829..4806197 (-) 369 WP_318644288.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  IGB07_RS20555 nadC 4807369..4808247 (-) 879 WP_065109608.1 carboxylating nicotinate-nucleotide diphosphorylase -

Sequence

Protein


Download         Length: 569 a.a.        Molecular weight: 62875.21 Da        Isoelectric Point: 5.2558

>NTDB_id=485942 IGB07_RS20535 WP_119967824.1 4802212..4803921(-) (pilB) [Shewanella sp. WPAGA9]
MPSTSLHLGLSGLFLKKALLTEELLSNAISKSRKDRASLVTTLIAEKLITAREIAELCYEEYGTPLLDLAGFDVQSIPDE
ILNKKLINKHRCLPLFKRGNRLYIATSDPTNIAALEDFQFSLGLHAEAILVEDDKLQIVLEKIAEDDISGLDLAGADEEA
LANMEIADTERNESSENEASDDAPIVIYINKILTDAIRKGASDLHFEPYEKRYRIRFRIDGILHEVSEPPVNLSSRISAR
LKVMSKLDIAERRVPQDGRIKMKLSRTKSIDFRVSTLPTIWGEKIVMRILDSSSAQLGIEKLGYEDDQRLLYEEMLAKPQ
GMILVTGPTGSGKTVSLYTGLNILNTEERNISTAEDPVEINLEGVNQVHINLKAGLTFASALRSFLRQDPDVVMVGEIRD
LETAEIAIKAAQTGHLVLSTLHTNSAAETLTRLINMGVPGYNIASSVNLIIAQRLARRLCPECKAPEDIPTEELQRLGFS
QDIIDTGFTIYKPVGCEHCSGGYKGRVGIYEVMKMTDEISKTIMEGGNSLQIAKQAKVSGMRDLRLSGLLKVTHGITSIA
EVNRVTSFN

Nucleotide


Download         Length: 1710 bp        

>NTDB_id=485942 IGB07_RS20535 WP_119967824.1 4802212..4803921(-) (pilB) [Shewanella sp. WPAGA9]
ATGCCTTCAACTTCTCTACACTTAGGGTTATCAGGTCTTTTTCTAAAAAAAGCCTTACTAACCGAAGAGTTGTTGTCAAA
TGCGATATCAAAATCACGTAAAGACAGGGCTTCGTTAGTTACAACGCTTATTGCTGAGAAATTAATAACTGCTCGTGAAA
TTGCTGAGTTATGTTATGAAGAGTATGGTACTCCATTACTAGATTTAGCAGGATTTGACGTCCAAAGCATTCCTGATGAA
ATTTTAAATAAAAAACTCATAAATAAGCACAGATGTTTACCACTGTTCAAACGAGGCAACAGACTCTATATTGCAACATC
AGATCCAACCAATATTGCTGCACTAGAAGACTTCCAGTTCAGTCTAGGACTTCATGCTGAAGCAATCTTAGTCGAAGATG
ATAAACTTCAAATAGTATTAGAAAAAATTGCTGAAGATGATATATCAGGTTTAGACCTTGCTGGTGCAGACGAAGAAGCA
TTAGCGAATATGGAAATAGCTGATACGGAACGTAATGAAAGTTCTGAAAATGAAGCAAGTGACGACGCGCCTATTGTCAT
CTATATAAATAAAATTCTTACTGATGCAATTCGCAAAGGTGCTTCAGATTTACATTTCGAGCCTTATGAAAAACGTTACC
GTATTCGTTTTAGAATCGATGGTATCTTACATGAAGTTTCTGAGCCCCCAGTCAATCTTTCAAGCCGAATTTCTGCTCGC
TTAAAAGTCATGTCGAAACTGGATATTGCAGAGCGCCGCGTACCGCAAGATGGCCGAATTAAAATGAAGCTATCACGTAC
TAAATCTATAGATTTTCGGGTCAGTACACTCCCAACTATTTGGGGTGAAAAAATTGTAATGCGTATTTTAGACTCTTCTT
CTGCGCAATTAGGTATTGAAAAACTCGGTTATGAAGATGATCAGCGCCTTCTATACGAAGAAATGCTCGCTAAACCACAA
GGAATGATATTAGTAACAGGCCCTACAGGTTCTGGTAAAACAGTCTCATTATATACTGGCTTAAATATTCTTAATACGGA
AGAGCGAAATATATCAACAGCTGAAGATCCTGTTGAAATTAACCTTGAAGGCGTTAATCAGGTTCATATCAATTTAAAAG
CTGGGTTAACATTTGCTTCAGCACTTAGATCATTTTTACGTCAAGATCCTGATGTTGTGATGGTCGGTGAGATCCGTGAT
TTAGAAACGGCAGAAATTGCTATTAAAGCCGCACAAACAGGTCACTTAGTATTATCTACCCTGCATACGAACTCTGCAGC
AGAAACCTTAACGCGATTAATCAATATGGGTGTACCTGGTTATAATATTGCTAGCTCTGTGAATTTAATTATCGCCCAGC
GTCTTGCGAGACGACTATGCCCTGAGTGTAAAGCTCCAGAGGATATTCCTACTGAAGAATTACAAAGGCTAGGTTTTAGC
CAAGATATAATTGATACTGGATTTACAATTTATAAACCAGTCGGGTGTGAGCATTGCTCTGGCGGGTACAAAGGCCGTGT
GGGTATTTATGAAGTAATGAAAATGACAGATGAGATATCTAAGACGATTATGGAAGGTGGTAATTCTTTACAAATTGCAA
AGCAGGCCAAAGTAAGTGGAATGAGAGATTTACGTTTATCAGGTCTCCTGAAAGTCACCCATGGTATTACCAGCATTGCC
GAAGTTAACCGGGTTACTAGTTTTAACTAA

Domains

Predicted by InterproScan.

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

(43-143)

Type II/IV secretion system protein (T2SSE)

(191-458)


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

57.268

100

0.575
  pilB Acinetobacter baylyi ADP1

59.524

95.958

0.571
  pilB Legionella pneumophila strain ERS1305867

58.473

94.376

0.552
  pilB Vibrio parahaemolyticus RIMD 2210633

51.852

99.649

0.517
  pilB Vibrio cholerae strain A1552

54.393

94.025

0.511
  pilB Vibrio campbellii strain DS40M4

50.442

99.297

0.501
  pilF Neisseria gonorrhoeae MS11

46.549

99.297

0.462
  pilF Thermus thermophilus HB27

37.434

100

0.374
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.517

97.188

0.374