Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   ACMXYR_RS03560 Genome accession   NZ_CP180556
Coordinates   794070..795785 (-) Length   571 a.a.
NCBI ID   WP_415902932.1    Uniprot ID   -
Organism   Neptuniibacter sp. QD29_5     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 789070..800785
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACMXYR_RS03535 (ACMXYR_03535) - 790202..791161 (+) 960 WP_415902927.1 Nudix family hydrolase -
  ACMXYR_RS03540 (ACMXYR_03540) yacG 791139..791366 (-) 228 WP_415902928.1 DNA gyrase inhibitor YacG -
  ACMXYR_RS03545 (ACMXYR_03545) coaE 791366..791968 (-) 603 WP_415902929.1 dephospho-CoA kinase -
  ACMXYR_RS03550 (ACMXYR_03550) pilD 791972..792820 (-) 849 WP_415902930.1 prepilin peptidase Machinery gene
  ACMXYR_RS03555 (ACMXYR_03555) pilC 792833..794053 (-) 1221 WP_415902931.1 type II secretion system F family protein Machinery gene
  ACMXYR_RS03560 (ACMXYR_03560) pilB 794070..795785 (-) 1716 WP_415902932.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ACMXYR_RS03565 (ACMXYR_03565) - 796036..796551 (+) 516 WP_415902933.1 pilin -
  ACMXYR_RS03570 (ACMXYR_03570) - 796733..797074 (+) 342 WP_415897625.1 hypothetical protein -
  ACMXYR_RS03575 (ACMXYR_03575) nadC 797159..798004 (-) 846 WP_415902934.1 carboxylating nicotinate-nucleotide diphosphorylase -
  ACMXYR_RS03580 (ACMXYR_03580) ampD 798106..798651 (+) 546 WP_415902935.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  ACMXYR_RS03585 (ACMXYR_03585) - 798652..799359 (-) 708 WP_415902936.1 16S rRNA (uracil(1498)-N(3))-methyltransferase -

Sequence

Protein


Download         Length: 571 a.a.        Molecular weight: 63169.99 Da        Isoelectric Point: 4.8128

>NTDB_id=1096557 ACMXYR_RS03560 WP_415902932.1 794070..795785(-) (pilB) [Neptuniibacter sp. QD29_5]
MQPNQPLSGLAKRLVNEGVCSAEVAADASLQSREKQQTFISYVIEQRLVSAYRAAAAASEEFGMPLLDLDALDPSSLPQG
LINDSLISKHHALPLQKRDNRLFVAISDPTNIQALDEFKFQSGITTEAIIVEEDKLTRAIEVFLEGQDSALDELEDSDLD
NLEISDGSAPEQEEQESEEDATKDAPIVRFINKILLDSIKNGASDIHFEPYEKSYRIRSRIDGILQEVAKPPSNLAARLS
ARLKVMSQMDISERRVPQDGRIKMKISKKRAIDFRVNTLPTLWGEKIVLRILDPSSAKMGVEALGFADFQKDLYLTTLHR
PQGMVLVTGPTGSGKTVSLYTGLNILNTEERNISTAEDPVEINLEGINQVHVNAKVGLNFAEALRAFLRQDPDVVMVGEI
RDLETAEIAIKAAQTGHMVLSTLHTNSAPETLTRLRNMGVPAFNIATSVSLIIAQRLGRRLCESCKKPVTLPEVTLREEG
FTEEEISNLSLFEPNQDGCKKCNRGYKGRVGIYEMLPMTSEIAEVIMENGNSLDILKVAEAQNFQSLRRSGLKKVAEGIT
SLEEMNRVIKT

Nucleotide


Download         Length: 1716 bp        

>NTDB_id=1096557 ACMXYR_RS03560 WP_415902932.1 794070..795785(-) (pilB) [Neptuniibacter sp. QD29_5]
TTGCAACCTAACCAACCATTAAGCGGACTTGCCAAACGATTGGTTAACGAAGGTGTATGTTCAGCCGAAGTTGCAGCAGA
CGCATCTCTTCAATCCAGAGAGAAACAACAAACCTTCATCTCGTACGTAATTGAACAACGCCTAGTAAGTGCATACAGAG
CCGCTGCCGCTGCATCCGAAGAATTCGGCATGCCTCTATTAGACTTAGACGCTCTAGACCCCTCGAGCCTCCCCCAAGGA
CTTATTAACGACTCCCTTATTTCAAAACATCATGCCCTTCCCTTACAAAAGCGCGACAACAGACTCTTTGTAGCTATTTC
TGATCCTACAAACATCCAAGCGCTTGATGAGTTTAAGTTTCAAAGTGGTATTACCACTGAAGCTATTATCGTTGAAGAGG
ATAAATTAACCCGCGCAATTGAAGTATTTCTAGAAGGTCAAGATTCCGCTCTAGATGAATTAGAAGATAGCGACCTAGAT
AATCTCGAGATCTCAGATGGAAGCGCTCCAGAACAGGAAGAGCAAGAGTCCGAAGAAGATGCTACCAAAGATGCACCTAT
CGTACGTTTTATTAACAAAATACTTTTAGATTCCATTAAAAACGGTGCGTCTGATATACATTTTGAACCCTATGAAAAAA
GTTACCGTATCAGAAGCAGGATAGATGGGATTCTTCAAGAAGTCGCTAAACCCCCATCTAACCTTGCTGCTAGGCTATCA
GCTCGTTTAAAAGTAATGTCACAGATGGATATTTCAGAAAGGCGCGTCCCTCAAGACGGCCGCATTAAAATGAAGATATC
CAAAAAGCGTGCTATAGATTTCCGTGTAAATACCCTACCTACTCTGTGGGGTGAAAAGATTGTGCTTCGTATACTTGACC
CTAGCAGCGCCAAAATGGGAGTCGAAGCACTTGGCTTTGCCGATTTTCAAAAAGATCTTTATCTAACCACCCTTCATCGC
CCACAAGGCATGGTGCTCGTAACAGGCCCTACAGGTAGCGGTAAAACAGTAAGCCTCTATACAGGGTTAAATATCCTCAA
TACCGAAGAGCGCAACATATCAACTGCGGAGGATCCTGTAGAAATTAATTTAGAAGGGATCAACCAGGTCCACGTAAATG
CAAAAGTCGGACTAAATTTTGCCGAAGCTCTCCGAGCCTTCCTCCGCCAAGACCCTGATGTCGTAATGGTTGGTGAGATT
CGAGACCTTGAAACAGCAGAAATCGCCATAAAAGCAGCGCAGACGGGTCATATGGTGCTATCTACACTTCACACAAATAG
TGCGCCAGAAACGTTGACACGTTTGCGTAATATGGGTGTACCAGCCTTCAATATTGCAACATCAGTAAGCCTTATCATAG
CTCAACGACTAGGCAGACGCCTCTGTGAAAGCTGCAAAAAACCTGTGACCCTCCCAGAAGTTACTTTAAGAGAAGAAGGC
TTCACTGAAGAAGAAATAAGTAACCTAAGTTTATTTGAGCCAAACCAAGATGGATGTAAAAAATGTAATAGAGGCTATAA
AGGCAGGGTCGGTATTTATGAAATGTTACCAATGACGTCAGAAATTGCTGAAGTAATTATGGAGAATGGTAACTCTCTAG
ATATACTAAAGGTAGCCGAAGCTCAAAATTTCCAAAGCCTACGTCGTTCAGGTTTGAAGAAAGTCGCGGAAGGAATCACC
AGTCTTGAAGAGATGAACAGAGTCATCAAGACCTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(193-460)

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

(44-148)


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

59.115

98.949

0.585
  pilB Acinetobacter baylyi ADP1

58.407

98.949

0.578
  pilB Legionella pneumophila strain ERS1305867

54.947

99.124

0.545
  pilB Vibrio cholerae strain A1552

55.319

90.543

0.501
  pilB Vibrio campbellii strain DS40M4

53.682

90.368

0.485
  pilB Vibrio parahaemolyticus RIMD 2210633

53.411

89.842

0.48
  pilF Neisseria gonorrhoeae MS11

48.754

98.424

0.48

Multiple sequence alignment