Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   AMJAP_RS04810 Genome accession   NZ_AP014545
Coordinates   1048588..1050306 (-) Length   572 a.a.
NCBI ID   WP_019621938.1    Uniprot ID   A0A7R6P9W0
Organism   Amphritea japonica ATCC BAA-1530     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1043588..1055306
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AMJAP_RS04785 (AMJAP_0921) - 1044451..1045398 (+) 948 WP_019621933.1 Nudix family hydrolase -
  AMJAP_RS04790 (AMJAP_0922) yacG 1045430..1045669 (-) 240 WP_019621934.1 DNA gyrase inhibitor YacG -
  AMJAP_RS04795 (AMJAP_0923) coaE 1045671..1046279 (-) 609 WP_019621935.1 dephospho-CoA kinase -
  AMJAP_RS04800 (AMJAP_0924) pilD 1046316..1047212 (-) 897 WP_019621936.1 prepilin peptidase Machinery gene
  AMJAP_RS04805 (AMJAP_0925) pilC 1047284..1048510 (-) 1227 WP_019621937.1 type II secretion system F family protein Machinery gene
  AMJAP_RS04810 (AMJAP_0926) pilB 1048588..1050306 (-) 1719 WP_019621938.1 type IV-A pilus assembly ATPase PilB Machinery gene
  AMJAP_RS17820 (AMJAP_0927) - 1050559..1051059 (+) 501 WP_019621939.1 pilin -
  AMJAP_RS04820 (AMJAP_0928) - 1051149..1051508 (+) 360 WP_019621940.1 hypothetical protein -
  AMJAP_RS04825 (AMJAP_0929) nadC 1051699..1052544 (-) 846 WP_019621941.1 carboxylating nicotinate-nucleotide diphosphorylase -
  AMJAP_RS04830 (AMJAP_0930) ampD 1052710..1053288 (+) 579 WP_019621942.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  AMJAP_RS04835 (AMJAP_0931) - 1053285..1054133 (+) 849 WP_019621943.1 hypothetical protein -

Sequence

Protein


Download         Length: 572 a.a.        Molecular weight: 63224.46 Da        Isoelectric Point: 5.0865

>NTDB_id=65858 AMJAP_RS04810 WP_019621938.1 1048588..1050306(-) (pilB) [Amphritea japonica ATCC BAA-1530]
MSVQPFQPLSGLARRLVNDGVFSSDVAMDALKTARKDNKPFIAHIIENRLVSAYRAAAAAADEFGMPLLDLEVIDIEALP
QGLVDEKLITKHHALPLIKRENRLYVAISDPTNIQALDEFKFHTGTTTEGVIVEEDKLSNLIDTFLDEQNSALDGLEDAD
LDNLEIDEGLTEQQEDTGEEAANDAPIVRFVNKILLDAIKTGASDIHFEPYEKSYRIRCRIDGILQEVAKPPSNLASRLC
ARLKVMSQMDISERRIPQDGRIKMKISKNRAIDFRVNTLPTLWGEKVVLRILDPTSAQMGIEALGYDEDQKELFMQTLHK
PQGMILVTGPTGSGKTVSLYTGLNILNTVERNISTAEDPVEINLEGINQVHVNIKVGLTFAEALRSFLRQDPDVVMVGEI
RDIETAEIAIKAAQTGHMVLSTLHTNSAAETLTRLRNMGVPAFNIATSVSMIIAQRLGRRLCNGCKKPASIPETTLLEEG
FTPEQIKAGLNIFEHNPEGCNKCNKGYKGRVGVYETMSMSPEIAQVIMDNGSSLDILNTAKQQGFRSLRLSALRKVIQGV
TSLEEMNRVIKL

Nucleotide


Download         Length: 1719 bp        

>NTDB_id=65858 AMJAP_RS04810 WP_019621938.1 1048588..1050306(-) (pilB) [Amphritea japonica ATCC BAA-1530]
ATGAGCGTACAACCCTTTCAGCCGCTCAGCGGCCTGGCAAGACGACTGGTTAACGATGGTGTGTTTTCATCGGATGTTGC
GATGGACGCCCTCAAAACAGCCCGCAAAGACAATAAGCCTTTTATCGCCCATATTATTGAGAATCGATTGGTCAGCGCCT
ATCGTGCAGCCGCAGCCGCTGCTGATGAATTTGGCATGCCACTTCTTGATCTTGAAGTAATCGACATTGAAGCTCTGCCT
CAAGGGTTGGTTGATGAGAAACTAATCACTAAGCACCACGCCCTGCCCTTAATTAAGCGTGAAAACCGGCTTTATGTTGC
TATTTCAGACCCCACCAATATCCAGGCACTGGATGAATTTAAGTTCCATACCGGCACAACGACTGAAGGAGTTATCGTAG
AGGAAGATAAGCTTTCCAACCTGATCGATACCTTCCTTGACGAGCAAAACTCAGCTTTAGACGGACTCGAGGATGCAGAC
CTTGATAATCTGGAGATTGATGAGGGGCTTACAGAACAGCAGGAGGACACCGGCGAAGAGGCTGCTAACGACGCTCCTAT
TGTTCGCTTTGTTAATAAGATACTTTTGGACGCGATTAAAACAGGCGCTTCAGATATCCACTTTGAGCCCTATGAAAAAT
CCTACCGTATCCGCTGTCGTATTGATGGCATCCTTCAAGAAGTCGCTAAGCCGCCATCTAACCTGGCCTCCAGGCTCTGT
GCCCGGCTGAAAGTCATGTCACAAATGGACATATCTGAACGGCGTATCCCTCAGGATGGCCGTATTAAAATGAAAATATC
AAAAAACCGCGCCATTGATTTTCGTGTGAACACCCTACCTACTCTCTGGGGCGAGAAAGTTGTACTACGTATTTTAGACC
CAACAAGCGCACAGATGGGTATCGAAGCGCTTGGGTACGACGAAGACCAAAAAGAGTTGTTTATGCAGACTCTACATAAA
CCCCAGGGAATGATTCTGGTTACCGGACCTACTGGTAGCGGCAAGACCGTATCTCTCTATACCGGTTTGAATATCCTCAA
CACCGTTGAACGAAACATATCCACTGCAGAAGACCCCGTAGAGATCAACCTGGAAGGCATCAACCAGGTTCATGTAAATA
TTAAAGTAGGCCTGACATTTGCTGAGGCCCTTCGCTCATTCCTGCGCCAAGACCCCGATGTCGTCATGGTAGGTGAGATC
CGGGATATTGAAACTGCTGAGATCGCAATTAAGGCTGCTCAAACTGGCCACATGGTTCTATCTACCCTGCATACCAACAG
CGCAGCAGAAACTCTCACACGACTGCGCAATATGGGTGTTCCTGCCTTTAACATTGCCACATCTGTCTCTATGATTATTG
CTCAACGTTTAGGAAGACGCCTTTGTAATGGTTGTAAAAAACCAGCCAGCATTCCAGAAACCACTCTATTAGAAGAGGGC
TTTACCCCGGAACAGATAAAAGCAGGACTCAATATATTTGAACACAACCCAGAAGGCTGTAATAAATGTAATAAAGGCTA
TAAAGGCCGTGTAGGTGTCTACGAAACTATGTCTATGAGCCCTGAAATTGCACAGGTTATAATGGATAACGGGAGTTCAC
TGGACATTCTCAACACAGCGAAGCAACAAGGCTTCAGATCACTTCGGCTATCGGCCCTGAGGAAAGTAATTCAAGGGGTT
ACCAGTCTGGAAGAGATGAACCGGGTTATTAAGCTTTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(193-460)

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

(46-150)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB A0A7R6P9W0

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

60.32

98.252

0.593
  pilB Acinetobacter baylyi ADP1

59.858

98.427

0.589
  pilB Legionella pneumophila strain ERS1305867

55.752

98.776

0.551
  pilB Vibrio cholerae strain A1552

54.175

90.035

0.488
  pilB Vibrio parahaemolyticus RIMD 2210633

53.711

89.51

0.481
  pilF Neisseria gonorrhoeae MS11

47.957

98.427

0.472
  pilB Vibrio campbellii strain DS40M4

52.344

89.51

0.469
  pilB/pilB1 Synechocystis sp. PCC 6803

40.194

90.035

0.362

Multiple sequence alignment