Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   ACA40_RS04020 Genome accession   NZ_CP013183
Coordinates   903676..905370 (-) Length   564 a.a.
NCBI ID   WP_057405956.1    Uniprot ID   -
Organism   Pseudomonas syringae pv. lapsa strain ATCC 10859     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 898676..910370
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACA40_RS03995 (ACA40_03995) - 900165..900623 (+) 459 WP_010415567.1 hypothetical protein -
  ACA40_RS04000 (ACA40_04000) yacG 900756..900965 (-) 210 WP_002552020.1 DNA gyrase inhibitor YacG -
  ACA40_RS04005 (ACA40_04005) coaE 900962..901585 (-) 624 WP_057405959.1 dephospho-CoA kinase -
  ACA40_RS04010 (ACA40_04010) pilD 901582..902454 (-) 873 WP_057405958.1 prepilin peptidase Machinery gene
  ACA40_RS04015 (ACA40_04015) pilC 902456..903673 (-) 1218 WP_057405957.1 type II secretion system F family protein Machinery gene
  ACA40_RS04020 (ACA40_04020) pilB 903676..905370 (-) 1695 WP_057405956.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ACA40_RS25745 - 905597..906031 (+) 435 WP_080391914.1 pilin -
  ACA40_RS04030 (ACA40_04030) - 906805..907392 (+) 588 WP_161806257.1 DUF433 domain-containing protein -
  ACA40_RS04035 (ACA40_04035) - 907440..907985 (-) 546 WP_010415546.1 DUF1523 family protein -
  ACA40_RS04040 (ACA40_04040) - 908105..909103 (+) 999 WP_057405954.1 ATP-grasp domain-containing protein -
  ACA40_RS04045 (ACA40_04045) - 909158..910297 (+) 1140 WP_057405953.1 trypsin-like peptidase domain-containing protein -

Sequence

Protein


Download         Length: 564 a.a.        Molecular weight: 62528.92 Da        Isoelectric Point: 6.4532

>NTDB_id=160433 ACA40_RS04020 WP_057405956.1 903676..905370(-) (pilB) [Pseudomonas syringae pv. lapsa strain ATCC 10859]
MTDAVLTGLAKQLVLAELLTEPVAQQAYQQARRDKISLVSYLVQHKLVKSLTLAELASDQFGVPFMDLASLDKESQPKGL
VSEKLVRQHHALPLWRRGNKLFIAISDPTNHQAVTDIQFSTGLNTEAILVEDDKLTIAIDRFFDSDSGLGNLEDVDLGLD
IEPADGKETTLATQNDADDAPVVRFVNKMLMDAIRLGSSDLHFEPYEKIFRVRLRTDGILHEVARPPIHLANRIAARLKV
MASLDISERRKPQDGRVKLRVSKTKAIDFRMNTLPTLWGEKIVMRILDPTSAQMGIDALGYEPEQKALYLEALKQPQGMI
LVTGPTGSGKTVSLYTGLNILNTVDINISTAEDPVEINLEGINQVNVNPRQGLDFSQALRAFLRQDPDVIMVGEIRDLET
AEIAIKASQTGHMVLSTLHTNSAAETLTRLHHMGVAAFNIATAINLIIAQRLARKLCSHCKKELDIPRETLIKEGFPEAK
IGTFKIYGPMGCEHCNGGYRGRVGIYEVVKKTAELERIIMEEGNSLEISRQMRKDGFNDLRTSGLSKAMQGITSLEEVNR
VTKD

Nucleotide


Download         Length: 1695 bp        

>NTDB_id=160433 ACA40_RS04020 WP_057405956.1 903676..905370(-) (pilB) [Pseudomonas syringae pv. lapsa strain ATCC 10859]
ATGACTGATGCTGTCCTCACTGGCCTGGCCAAACAATTGGTCCTAGCCGAGCTACTTACTGAACCTGTTGCGCAGCAAGC
GTACCAGCAGGCGCGCCGCGACAAGATTTCGTTGGTGAGCTATCTGGTTCAGCACAAACTGGTCAAAAGCCTGACGCTGG
CAGAATTGGCCTCCGATCAGTTCGGCGTGCCGTTCATGGACCTCGCCAGCCTGGACAAGGAAAGCCAGCCTAAGGGGCTG
GTCAGTGAAAAGCTGGTTAGACAGCATCATGCGCTGCCGCTTTGGCGACGCGGCAATAAGCTTTTCATTGCAATCTCGGA
CCCGACTAATCATCAGGCAGTGACAGATATTCAGTTCAGCACAGGTCTGAACACCGAAGCGATTCTGGTCGAAGATGACA
AGCTGACCATAGCGATAGATCGTTTTTTTGACAGTGATAGCGGTTTGGGCAATCTGGAGGATGTCGATCTAGGCCTGGAT
ATCGAACCGGCCGATGGCAAGGAAACCACGCTAGCTACACAGAATGACGCTGACGATGCCCCAGTGGTACGTTTCGTCAA
CAAGATGCTTATGGATGCCATCCGATTAGGATCATCCGACCTGCACTTCGAGCCCTATGAAAAGATCTTCCGCGTACGTT
TGCGTACCGATGGCATCCTGCACGAAGTCGCCAGACCGCCGATCCATTTGGCAAACCGTATTGCTGCGCGTCTGAAGGTC
ATGGCCAGCCTCGATATTTCGGAACGACGCAAACCGCAGGACGGAAGGGTCAAGTTGCGGGTGTCCAAAACAAAGGCCAT
CGATTTTCGTATGAATACCTTGCCCACACTGTGGGGCGAAAAGATCGTGATGCGGATCCTCGACCCGACCAGCGCTCAGA
TGGGTATCGATGCGCTGGGCTATGAGCCAGAACAAAAGGCTTTGTATCTGGAGGCGTTGAAACAGCCGCAAGGCATGATT
CTTGTGACCGGCCCCACAGGTTCCGGCAAGACAGTTTCGCTGTATACGGGCCTGAATATTCTCAATACCGTGGACATCAA
CATATCCACAGCCGAAGACCCGGTAGAGATCAACCTGGAAGGTATCAATCAGGTCAACGTCAACCCGCGCCAAGGGTTGG
ACTTTTCTCAGGCACTGCGCGCCTTCCTGCGTCAAGATCCCGACGTAATCATGGTCGGCGAGATTCGCGACCTGGAAACC
GCCGAAATCGCTATTAAGGCGTCGCAAACCGGCCACATGGTGCTCTCAACGCTGCACACCAACAGCGCAGCAGAAACATT
GACTCGACTGCATCATATGGGCGTTGCAGCGTTCAACATTGCCACCGCAATAAACCTGATTATTGCGCAGCGACTGGCGC
GCAAGCTGTGTAGCCACTGCAAGAAAGAACTCGATATTCCTCGCGAGACATTGATTAAAGAAGGCTTTCCAGAGGCGAAG
ATCGGTACGTTCAAGATCTATGGGCCGATGGGCTGCGAGCATTGCAATGGTGGTTATAGAGGCCGAGTCGGCATTTATGA
GGTGGTCAAGAAAACAGCGGAGCTGGAGCGCATTATCATGGAAGAAGGTAACTCACTTGAGATTTCCAGGCAGATGCGCA
AGGACGGCTTCAATGACCTGCGAACCTCGGGCCTGTCAAAAGCCATGCAGGGCATCACCAGCCTTGAAGAAGTCAACCGC
GTGACCAAGGATTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(188-455)

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

(42-147)


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

57.672

100

0.58
  pilB Acinetobacter baylyi ADP1

56.36

100

0.566
  pilB Legionella pneumophila strain ERS1305867

55.185

100

0.557
  pilB Vibrio cholerae strain A1552

50.712

99.645

0.505
  pilB Vibrio parahaemolyticus RIMD 2210633

50.626

99.113

0.502
  pilB Vibrio campbellii strain DS40M4

49.47

100

0.496
  pilF Neisseria gonorrhoeae MS11

48.399

99.645

0.482
  pilF Thermus thermophilus HB27

39.046

100

0.392
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.469

93.44

0.369

Multiple sequence alignment