Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   AB1S68_RS16945 Genome accession   NZ_CP160473
Coordinates   4190850..4192580 (+) Length   576 a.a.
NCBI ID   WP_280945978.1    Uniprot ID   -
Organism   Saccharophagus degradans strain HMH0024     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4185850..4197580
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AB1S68_RS16925 (AB1S68_16920) - 4186327..4187211 (-) 885 WP_280945974.1 glycosyltransferase -
  AB1S68_RS16930 (AB1S68_16925) - 4187214..4188074 (-) 861 WP_280945975.1 glycosyltransferase family 2 protein -
  AB1S68_RS16935 (AB1S68_16930) - 4188067..4189995 (-) 1929 WP_280945976.1 hypothetical protein -
  AB1S68_RS16940 (AB1S68_16935) - 4190061..4190492 (-) 432 WP_280945977.1 pilin -
  AB1S68_RS16945 (AB1S68_16940) pilB 4190850..4192580 (+) 1731 WP_280945978.1 type IV-A pilus assembly ATPase PilB Machinery gene
  AB1S68_RS16950 (AB1S68_16945) pilC 4192584..4193801 (+) 1218 WP_280945979.1 type II secretion system F family protein Machinery gene
  AB1S68_RS16955 (AB1S68_16950) pilD 4193801..4194700 (+) 900 WP_280945980.1 prepilin peptidase Machinery gene
  AB1S68_RS16960 (AB1S68_16955) coaE 4194700..4195311 (+) 612 WP_280945981.1 dephospho-CoA kinase -
  AB1S68_RS16965 (AB1S68_16960) - 4195316..4195528 (+) 213 WP_011467342.1 DNA gyrase inhibitor YacG -
  AB1S68_RS16970 (AB1S68_16965) - 4195525..4196514 (-) 990 WP_280945982.1 Nudix family hydrolase -

Sequence

Protein


Download         Length: 576 a.a.        Molecular weight: 63094.22 Da        Isoelectric Point: 5.1864

>NTDB_id=1021445 AB1S68_RS16945 WP_280945978.1 4190850..4192580(+) (pilB) [Saccharophagus degradans strain HMH0024]
MGSQAIVISGLARRLVRDNVLSDEEARLALEEAAREKLPLPIYLTQKSGISALTIASAASEEFGTPLCDLRSIRKDAIPA
GLVDKKLIGKHHALPLFKRGNRLFVAVTDPTNLHAIDEIKFNTGLNTEAVLAEADLLHTYIEAYLNAEEETLSDSLGGLD
GDDLDSLDVEAVDESGARAAEDTSDIDETPIVRFINKVLLDAIKIGASDIHFEPYEKSYRVRYRTDGILKEVARPPTNLS
QRIAARLKVMSQMDISERRIPQDGRIKMKLSKTRAIDFRVNTLPTLFGEKVVLRILDPSSAKLGIDALGYEDFQKKLFME
ALNQPQGMILVTGPTGSGKTVSLYTGLNILNTPERNISTAEDPVEINLEGINQVNVSNKVGLTFAEALRSFLRQDPDIVM
VGEIRDLETAEIGIKAAQTGHLVLSTLHTNSAAETLTRLMNMGVPTFNVATTVSLIIAQRLARRLCPECKVPADDITEEV
LKEEGFDEIGIERKDFQLFHPKGCEKCNNGYKGRVGIYEVVRITSKISRIIMSGGSAIDIADAAKEAGFFNLRVAALRKA
ATGLTSLEEANRVTKD

Nucleotide


Download         Length: 1731 bp        

>NTDB_id=1021445 AB1S68_RS16945 WP_280945978.1 4190850..4192580(+) (pilB) [Saccharophagus degradans strain HMH0024]
ATGGGCAGCCAGGCAATTGTTATTAGCGGATTAGCAAGAAGGCTAGTCAGGGACAATGTTCTTAGCGACGAAGAAGCGAG
ACTTGCCTTAGAAGAAGCTGCCCGCGAAAAACTTCCGCTACCTATTTATTTAACACAGAAAAGCGGGATTAGCGCACTTA
CCATTGCCTCCGCCGCCTCCGAGGAGTTTGGCACCCCTTTGTGTGACCTTCGCTCCATACGCAAAGACGCCATTCCTGCG
GGCCTTGTAGACAAGAAACTAATAGGCAAACATCACGCACTCCCCCTATTTAAAAGGGGAAACCGCCTTTTTGTAGCGGT
AACAGACCCCACGAATTTACATGCCATTGATGAGATAAAGTTTAATACCGGACTTAACACAGAAGCGGTATTGGCCGAAG
CGGATCTACTACACACCTATATAGAAGCATACCTAAATGCAGAAGAGGAAACCCTTAGCGATTCACTCGGCGGGCTAGAT
GGCGACGACTTAGATAGCTTAGATGTTGAGGCTGTAGATGAATCTGGCGCAAGAGCAGCCGAAGACACGAGCGATATAGA
CGAAACCCCCATTGTTCGATTTATTAATAAAGTGTTACTAGATGCCATCAAAATAGGCGCATCAGATATACATTTTGAAC
CTTATGAAAAAAGCTATCGTGTTCGCTACAGAACAGACGGCATATTAAAAGAAGTGGCACGTCCACCAACAAACCTATCA
CAACGCATCGCGGCTAGACTGAAAGTAATGTCGCAAATGGATATATCTGAGCGTCGTATCCCTCAGGATGGCCGCATAAA
AATGAAGCTCTCCAAAACACGGGCAATCGATTTTCGGGTAAACACATTGCCTACATTGTTTGGCGAAAAAGTCGTATTGC
GAATTCTAGACCCTTCCAGCGCGAAGCTAGGTATTGATGCCCTGGGTTATGAGGACTTCCAGAAAAAACTTTTTATGGAG
GCACTCAACCAGCCACAAGGAATGATACTGGTGACCGGGCCTACAGGCTCAGGAAAAACCGTATCTCTATACACAGGCTT
AAATATTCTTAATACACCCGAGCGCAATATCTCAACGGCAGAAGATCCTGTCGAGATTAACCTCGAAGGCATAAACCAAG
TTAACGTGAGTAACAAGGTTGGCCTAACTTTCGCGGAAGCGCTACGCTCGTTCCTTCGTCAAGACCCCGACATTGTGATG
GTGGGTGAGATTCGAGATTTAGAAACGGCTGAGATAGGCATTAAGGCAGCACAAACGGGTCACTTGGTTTTATCCACCCT
GCATACCAATAGCGCGGCCGAAACGCTAACTCGGCTTATGAATATGGGGGTTCCCACATTTAACGTGGCAACCACCGTAA
GCCTCATTATTGCCCAGCGCTTAGCGCGCCGACTGTGCCCAGAGTGCAAAGTCCCTGCAGATGATATAACCGAAGAAGTG
CTAAAAGAAGAAGGCTTCGACGAAATAGGTATCGAACGTAAAGACTTTCAATTATTCCACCCTAAGGGGTGTGAAAAGTG
CAATAACGGCTATAAAGGCCGCGTAGGTATTTATGAAGTTGTTCGCATTACCTCGAAGATATCTCGCATTATAATGAGCG
GTGGCAGCGCAATCGACATTGCAGACGCGGCCAAAGAAGCAGGCTTTTTCAACTTACGCGTCGCTGCATTACGCAAAGCT
GCGACGGGTTTAACTAGCCTAGAAGAAGCAAACCGAGTAACCAAGGACTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(197-464)

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

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

60.281

98.785

0.595
  pilB Acinetobacter baylyi ADP1

59.754

98.785

0.59
  pilB Legionella pneumophila strain ERS1305867

55.965

98.958

0.554
  pilB Vibrio parahaemolyticus RIMD 2210633

50.791

98.785

0.502
  pilB Vibrio cholerae strain A1552

52.788

93.403

0.493
  pilB Vibrio campbellii strain DS40M4

49.912

98.785

0.493
  pilF Neisseria gonorrhoeae MS11

48.687

99.132

0.483
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

37.167

100

0.387
  pilB/pilB1 Synechocystis sp. PCC 6803

40.9

88.715

0.363

Multiple sequence alignment