Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   VXM60_RS02195 Genome accession   NZ_CP143082
Coordinates   478736..480442 (-) Length   568 a.a.
NCBI ID   WP_338591341.1    Uniprot ID   -
Organism   Shewanella khirikhana strain JW44     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 473736..485442
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VXM60_RS02165 (VXM60_02165) mutT 474442..474837 (-) 396 WP_338591334.1 8-oxo-dGTP diphosphatase MutT -
  VXM60_RS02170 (VXM60_02170) yacG 474879..475094 (-) 216 WP_126169201.1 DNA gyrase inhibitor YacG -
  VXM60_RS02175 (VXM60_02175) zapD 475157..475891 (-) 735 WP_338591335.1 cell division protein ZapD -
  VXM60_RS02180 (VXM60_02180) coaE 475884..476501 (-) 618 WP_338591337.1 dephospho-CoA kinase -
  VXM60_RS02185 (VXM60_02185) pilD 476501..477415 (-) 915 WP_338591339.1 A24 family peptidase Machinery gene
  VXM60_RS02190 (VXM60_02190) pilC 477442..478701 (-) 1260 WP_126169205.1 type II secretion system F family protein Machinery gene
  VXM60_RS02195 (VXM60_02195) pilB 478736..480442 (-) 1707 WP_338591341.1 type IV-A pilus assembly ATPase PilB Machinery gene
  VXM60_RS02200 (VXM60_02200) - 480499..481014 (-) 516 WP_338593437.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  VXM60_RS02205 (VXM60_02205) nadC 482327..483184 (-) 858 WP_338591343.1 carboxylating nicotinate-nucleotide diphosphorylase -
  VXM60_RS02210 (VXM60_02210) ampD 483431..484003 (+) 573 WP_126169209.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  VXM60_RS02215 (VXM60_02215) ampE 484005..484883 (+) 879 WP_338591345.1 beta-lactamase regulator AmpE -

Sequence

Protein


Download         Length: 568 a.a.        Molecular weight: 63000.33 Da        Isoelectric Point: 5.3571

>NTDB_id=928140 VXM60_RS02195 WP_338591341.1 478736..480442(-) (pilB) [Shewanella khirikhana strain JW44]
MPTTGLHLGLSTLFIRKKLLTEEQLSEAVALSRKNRHSLVTTLVASKLLSAREIAELCYEEYGTPLLDLVEFDIKSIPEE
FLNRKLIEKHRCLPLFKRGNRLYIGTSDPTNIAALEDFQFSAGLHAEAILVEDDKLVTALEKILEEDISALDLSGIDEDS
LAGIEVADTDKRPENDNEGADDAPIVIYINKILTDAIRRGASDLHFEPYEKRYRIRFRIDGILHEVSEPPINLSGRISAR
LKVMSKLDIAERRLPQDGRIKMKLSRTKSIDFRVSTLPTLWGEKIVMRILDSSSAQLGIEKLGYEPDQKQLYLDNLAKPQ
GMILVTGPTGSGKTVSLYTGLNILNTEERNISTAEDPVEINLEGVNQVHINNKAGLTFASALRSFLRQDPDVVMVGEIRD
LETAEIAIKAAQTGHLVLSTLHTNSAAETLTRLLNMGVPGYNIASSVNLIIAQRLARRLCPECKQPEEIPQHELERLGFS
PEQISEGFTVFKPCGCDLCSGGYKGRVGIYEVMPMSDEIARVIMEGGNSLEIARMAKTQGIRDLRQSGLLKVVQGVTSIT
EVNRVTSF

Nucleotide


Download         Length: 1707 bp        

>NTDB_id=928140 VXM60_RS02195 WP_338591341.1 478736..480442(-) (pilB) [Shewanella khirikhana strain JW44]
ATGCCAACTACTGGTCTCCACTTAGGATTATCGACGCTATTTATCCGTAAGAAGCTACTCACAGAGGAGCAACTGTCGGA
GGCCGTCGCACTTTCGCGTAAAAACAGGCATTCGCTGGTCACCACCTTGGTGGCCAGCAAATTACTGTCGGCGAGGGAAA
TTGCTGAACTGTGCTACGAGGAGTATGGAACTCCACTACTGGATTTAGTCGAATTTGATATTAAGAGCATTCCTGAGGAA
TTCCTTAATCGCAAATTAATCGAAAAACACCGTTGCTTACCACTGTTTAAGCGTGGTAATAGGCTGTATATAGGCACATC
TGACCCAACCAATATTGCCGCCCTTGAAGACTTTCAGTTTTCTGCAGGCCTGCATGCTGAAGCAATATTGGTGGAAGATG
ACAAACTAGTTACAGCCCTTGAGAAAATCCTCGAAGAGGACATTAGTGCGCTGGACTTAAGTGGGATTGACGAGGACTCA
CTAGCTGGTATTGAGGTTGCTGATACTGATAAACGCCCCGAGAATGACAACGAAGGTGCAGATGATGCCCCTATCGTAAT
TTACATTAATAAAATCCTAACAGATGCCATTAGGCGTGGTGCATCGGACTTACACTTCGAGCCCTATGAAAAGCGCTATC
GCATTCGCTTTCGTATTGATGGGATCCTTCATGAAGTTTCTGAGCCACCGATAAACCTTTCGGGTCGTATATCCGCCCGA
CTAAAGGTAATGTCAAAACTGGATATTGCTGAGAGACGGCTGCCCCAGGACGGCCGTATCAAGATGAAACTCAGTCGTAC
CAAGAGCATCGATTTCCGTGTAAGCACCCTACCTACGCTCTGGGGCGAAAAAATTGTAATGCGTATTCTGGACTCATCCT
CTGCCCAACTCGGCATTGAGAAGCTGGGGTATGAGCCAGACCAAAAGCAACTCTATCTGGACAATCTAGCCAAACCTCAG
GGTATGATTTTGGTAACCGGCCCCACCGGCTCGGGTAAAACCGTATCCCTCTACACAGGTCTTAATATCCTCAATACCGA
AGAGCGCAATATTTCCACCGCCGAAGACCCGGTGGAAATTAACTTGGAAGGTGTTAACCAAGTTCATATTAATAATAAAG
CGGGTCTCACATTCGCTTCAGCCCTTCGCTCCTTCCTGCGTCAAGATCCTGATGTGGTGATGGTCGGGGAAATCCGTGAT
CTAGAAACTGCTGAAATCGCCATCAAAGCTGCACAAACCGGCCACTTGGTGCTTTCAACTCTGCACACGAATTCAGCGGC
AGAAACATTAACACGTCTTCTGAACATGGGTGTTCCAGGCTACAACATAGCAAGCTCTGTGAATCTCATCATTGCCCAGC
GTCTTGCCCGTAGACTATGTCCGGAGTGTAAGCAACCAGAAGAGATCCCACAGCATGAGCTTGAACGACTAGGATTCTCG
CCGGAGCAGATTTCAGAAGGTTTTACTGTATTCAAGCCCTGCGGCTGCGACCTCTGCTCTGGTGGTTACAAAGGCCGCGT
AGGTATTTATGAAGTGATGCCCATGTCTGACGAGATTGCTCGGGTTATTATGGAGGGTGGCAACTCACTGGAGATTGCCA
GAATGGCCAAAACGCAGGGCATTAGGGACCTCAGGCAATCGGGCCTTTTAAAAGTCGTCCAAGGCGTTACCAGCATCACA
GAAGTGAACCGGGTAACCAGTTTCTAA

Domains

Predicted by InterproScan.

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

(43-144)

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 baylyi ADP1

58.645

98.768

0.579
  pilB Legionella pneumophila strain ERS1305867

56.661

99.12

0.562
  pilB Acinetobacter baumannii D1279779

56.964

98.592

0.562
  pilB Vibrio cholerae strain A1552

53.036

98.592

0.523
  pilB Vibrio parahaemolyticus RIMD 2210633

52.381

99.824

0.523
  pilB Vibrio campbellii strain DS40M4

51.779

98.944

0.512
  pilF Neisseria gonorrhoeae MS11

48.85

99.472

0.486
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

40.219

96.303

0.387
  pilF Thermus thermophilus HB27

38.393

98.592

0.379