Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   ACMDW7_RS03935 Genome accession   NZ_CP180191
Coordinates   868047..869774 (-) Length   575 a.a.
NCBI ID   WP_377305377.1    Uniprot ID   -
Organism   Piscinibacterium candidicorallinum strain LMG 29480     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 863047..874774
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACMDW7_RS03905 (ACMDW7_03905) - 863222..864160 (+) 939 WP_377305387.1 Nudix family hydrolase -
  ACMDW7_RS03910 (ACMDW7_03910) - 864218..864436 (-) 219 WP_377305386.1 DNA gyrase inhibitor YacG -
  ACMDW7_RS03915 (ACMDW7_03915) zapD 864451..865206 (-) 756 WP_377305385.1 cell division protein ZapD -
  ACMDW7_RS03920 (ACMDW7_03920) coaE 865280..865885 (-) 606 WP_377305383.1 dephospho-CoA kinase -
  ACMDW7_RS03925 (ACMDW7_03925) pilD 865898..866770 (-) 873 WP_377305381.1 prepilin peptidase Machinery gene
  ACMDW7_RS03930 (ACMDW7_03930) pilC 866783..868003 (-) 1221 WP_377305379.1 type II secretion system F family protein Machinery gene
  ACMDW7_RS03935 (ACMDW7_03935) pilB 868047..869774 (-) 1728 WP_377305377.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ACMDW7_RS03945 (ACMDW7_03945) - 870101..871030 (-) 930 WP_377306147.1 polyprenyl synthetase family protein -
  ACMDW7_RS03950 (ACMDW7_03950) rplU 871288..871596 (+) 309 Protein_777 50S ribosomal protein L21 -
  ACMDW7_RS03955 (ACMDW7_03955) - 871630..871893 (+) 264 WP_377306145.1 DUF4332 domain-containing protein -
  ACMDW7_RS03960 (ACMDW7_03960) rpmA 871907..872164 (+) 258 WP_054125708.1 50S ribosomal protein L27 -
  ACMDW7_RS03965 (ACMDW7_03965) obgE 872489..873601 (+) 1113 WP_377305375.1 GTPase ObgE -
  ACMDW7_RS03970 (ACMDW7_03970) proB 873631..874761 (+) 1131 WP_377306143.1 glutamate 5-kinase -

Sequence

Protein


Download         Length: 575 a.a.        Molecular weight: 62893.09 Da        Isoelectric Point: 4.9276

>NTDB_id=1094364 ACMDW7_RS03935 WP_377305377.1 868047..869774(-) (pilB) [Piscinibacterium candidicorallinum strain LMG 29480]
MAVNAAAAGTTQLTGLARALVQFNALNVPDADRVSKRATENKTEFIDELLAAKLPNMNAATLARVISESFGHPMVDVSTL
DIDQLPIDLIDKKLAQSNYVLALKKRGNRLYVAVSDPTNQQALSQIQFQTQLQLDIVVAEHDRLREIVDKNAKSATTAIS
ELADDSDVNLEVVDTDAQSVDDGADADEAPIVKFLQKIMIDAIDAGASDMHFEPYEKFYRIRFRVDGMLKEVAQPPLQLR
ERIAARLKVISKLDISEKRVPQDGRVKIAVSPTKVIDLRVSTLPTMYGEKIVMRILDPSSARLGIDALGYDPIEKERLME
AIKRPYGMVLVTGPTGSGKTVSLYTCLNLLNEPGVNIATAEDPAEISLPGINQVNVNEKAGLTFAAALKSFLRQDPDIIM
VGEIRDLETADIAIKAAQTGHMVFSTLHTNDAPTTLTRLMNMGVAPFNIASSVILITAQRLARRLCAQCKQPYELPYDAL
VEAGYTDDDLDGSWKPYKPVGCDRCNGSGYKGRVGIYQVMPISEEIQRIILSNGNAMQIAEQAKIEGVRSLRESGLAKVR
QGVTSLEEVFAVTNE

Nucleotide


Download         Length: 1728 bp        

>NTDB_id=1094364 ACMDW7_RS03935 WP_377305377.1 868047..869774(-) (pilB) [Piscinibacterium candidicorallinum strain LMG 29480]
ATGGCCGTTAACGCAGCAGCTGCTGGCACGACCCAGCTGACCGGGTTGGCGCGCGCGCTCGTCCAGTTCAACGCGCTGAA
CGTGCCTGACGCCGACCGCGTCAGCAAGCGCGCCACAGAGAACAAGACGGAGTTCATCGACGAACTGCTGGCCGCCAAGC
TGCCGAACATGAATGCAGCCACATTAGCGCGCGTCATCAGCGAGTCCTTCGGCCATCCGATGGTGGACGTATCGACGCTG
GACATCGACCAGCTGCCGATCGATCTGATCGACAAGAAGCTCGCTCAGAGCAACTACGTGCTGGCGCTCAAGAAGCGCGG
CAACCGCCTGTACGTCGCGGTCTCGGACCCGACCAACCAGCAGGCGCTCTCGCAGATCCAGTTTCAGACGCAGTTGCAGC
TCGACATCGTGGTGGCCGAGCATGACCGGCTGCGCGAAATCGTCGACAAAAACGCGAAGTCCGCGACCACAGCCATCAGC
GAGCTCGCCGACGACTCCGACGTCAACCTGGAAGTGGTCGATACAGACGCTCAGTCTGTAGACGACGGCGCCGACGCGGA
CGAAGCGCCGATCGTCAAGTTTTTGCAGAAGATCATGATCGACGCCATCGATGCCGGCGCCTCGGACATGCACTTCGAGC
CCTACGAGAAGTTCTACCGGATCCGTTTCCGAGTCGATGGCATGCTCAAGGAGGTGGCTCAGCCACCGCTGCAGCTCAGA
GAGCGGATCGCCGCGCGCCTGAAGGTGATCTCCAAGCTCGACATCTCGGAGAAGCGCGTGCCGCAGGATGGGCGCGTGAA
GATCGCAGTCAGCCCGACCAAGGTGATTGACCTTCGCGTCTCGACACTGCCGACCATGTATGGCGAGAAGATCGTGATGC
GTATTCTCGACCCGTCGTCGGCTCGGCTCGGGATCGATGCGCTGGGCTACGACCCGATCGAGAAAGAACGCCTCATGGAG
GCGATCAAGCGACCCTACGGGATGGTGCTGGTGACTGGGCCGACCGGTTCTGGCAAGACTGTGTCGCTCTACACCTGCCT
GAATCTCTTGAACGAGCCTGGCGTGAACATCGCTACAGCGGAAGATCCTGCTGAAATTTCGCTACCCGGGATCAACCAGG
TCAACGTGAATGAAAAGGCAGGGCTGACCTTTGCTGCGGCACTGAAGTCCTTCCTGCGCCAGGACCCTGACATCATCATG
GTCGGCGAAATCCGCGATCTCGAGACCGCCGACATCGCCATCAAGGCCGCTCAGACCGGCCACATGGTGTTCTCCACCCT
GCACACCAATGACGCGCCAACAACCTTGACGCGCCTGATGAACATGGGCGTGGCTCCGTTCAACATTGCATCATCGGTGA
TTCTCATCACGGCCCAGCGACTGGCGCGGCGCCTGTGTGCACAGTGCAAGCAGCCCTACGAGCTGCCCTATGACGCGCTC
GTTGAGGCTGGATATACCGACGACGATCTTGACGGCAGCTGGAAGCCCTACAAGCCAGTCGGCTGCGATCGCTGCAATGG
CTCGGGCTACAAGGGCCGGGTCGGCATCTACCAGGTGATGCCGATCTCAGAGGAGATCCAGCGCATCATCCTGTCCAACG
GCAACGCAATGCAGATCGCCGAGCAGGCCAAGATTGAAGGCGTGCGCTCGTTGCGCGAGTCCGGGCTGGCGAAGGTCCGA
CAAGGCGTGACATCACTCGAGGAAGTGTTCGCAGTCACCAACGAGTGA

Domains

Predicted by InterproScan.

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

(59-153)

Type II/IV secretion system protein (T2SSE)

(197-464)


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

54.514

100

0.546
  pilB Acinetobacter baylyi ADP1

54.24

98.435

0.534
  pilF Neisseria gonorrhoeae MS11

52.66

98.087

0.517
  pilB Legionella pneumophila strain ERS1305867

50.607

100

0.508
  pilB Vibrio cholerae strain A1552

46.967

100

0.471
  pilB Vibrio parahaemolyticus RIMD 2210633

47.399

90.261

0.428
  pilB Vibrio campbellii strain DS40M4

43.594

97.739

0.426
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

42.035

90.609

0.381
  pilF Thermus thermophilus HB27

40.454

92

0.372

Multiple sequence alignment