Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   PSYTB_RS04445 Genome accession   NZ_CP042804
Coordinates   907286..908980 (-) Length   564 a.a.
NCBI ID   WP_010196262.1    Uniprot ID   -
Organism   Pseudomonas amygdali pv. tabaci str. ATCC 11528     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 902286..913980
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PSYTB_RS04420 (PSYTB_04425) - 903769..904227 (+) 459 WP_005782685.1 hypothetical protein -
  PSYTB_RS04425 (PSYTB_04430) yacG 904366..904575 (-) 210 WP_002552020.1 DNA gyrase inhibitor YacG -
  PSYTB_RS04430 (PSYTB_04435) coaE 904572..905195 (-) 624 WP_005782687.1 dephospho-CoA kinase -
  PSYTB_RS04435 (PSYTB_04440) pilD 905192..906064 (-) 873 WP_005782691.1 A24 family peptidase Machinery gene
  PSYTB_RS04440 (PSYTB_04445) pilC 906066..907283 (-) 1218 WP_010196261.1 type II secretion system F family protein Machinery gene
  PSYTB_RS04445 (PSYTB_04450) pilB 907286..908980 (-) 1695 WP_010196262.1 type IV-A pilus assembly ATPase PilB Machinery gene
  PSYTB_RS04450 (PSYTB_04455) - 909207..909641 (+) 435 WP_005782696.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  PSYTB_RS04455 (PSYTB_04460) - 909892..910116 (-) 225 Protein_808 winged helix-turn-helix transcriptional regulator -
  PSYTB_RS04470 (PSYTB_04475) - 910621..911313 (+) 693 WP_005782701.1 DUF433 domain-containing protein -
  PSYTB_RS04475 (PSYTB_04480) - 911361..911906 (-) 546 WP_005782702.1 DUF1523 family protein -
  PSYTB_RS04480 (PSYTB_04485) - 912026..913024 (+) 999 WP_005782703.1 ATP-grasp domain-containing protein -

Sequence

Protein


Download         Length: 564 a.a.        Molecular weight: 62570.78 Da        Isoelectric Point: 6.2558

>NTDB_id=378653 PSYTB_RS04445 WP_010196262.1 907286..908980(-) (pilB) [Pseudomonas amygdali pv. tabaci str. ATCC 11528]
MTDAVLTGLAKQLVLAELLTESVAQQAYQQARRDKISLVSYLVQNKLVKSLTLAEMASDQFGVPFMDLASLDKESQPKGL
VSEKLVRQHHALPLWRRGNKLFIGISDPTNHQAVTDIQFSTGLNTEAILVEDDKLNTAIDRFFDSDTGLGNLEDVDLGLD
IEPADGKETSLATQNDADDAPVVRFVNKMLMDAIRLGSSDLHFEPYEKIFRVRLRTDGILHEVARPPIHLANRIAARLKV
MASLDISERRKPQDGRVKLRVSKTKAIDFRMNTLPTLWGEKIVMRILDPTSAQMGIDALGYEPEQKALYLEALKQPQGMI
LVTGPTGSGKTVSLYTGLNILNTVDINISTAEDPVEINLEGINQVNVNPRQGLDFSQALRAFLRQDPDVIMVGEIRDLET
AEIAIKASQTGHMVLSTLHTNSAAETLTRLHHMGVAAFNIATAINLIIAQRLARKLCSHCKKELDIPRETLIREGFPEEK
IGTFKIYGPVGCEHCNSGYRGRVGIYEVVKKTAELERIIMEEGNSLEISRQMRKDGFNDLRTSGLSKAMQGVTSLEEVNR
VTKD

Nucleotide


Download         Length: 1695 bp        

>NTDB_id=378653 PSYTB_RS04445 WP_010196262.1 907286..908980(-) (pilB) [Pseudomonas amygdali pv. tabaci str. ATCC 11528]
ATGACTGATGCTGTCCTCACTGGCTTGGCCAAACAATTGGTCCTCGCCGAGCTACTTACTGAATCTGTTGCGCAACAAGC
GTATCAACAGGCGCGCCGCGACAAGATTTCGTTGGTGAGCTATCTGGTTCAGAACAAACTGGTCAAAAGTCTGACACTGG
CAGAGATGGCTTCCGACCAGTTTGGCGTGCCATTCATGGACCTCGCCAGTCTGGACAAAGAAAGCCAGCCTAAAGGCCTA
GTGAGTGAAAAGCTGGTTCGACAGCATCATGCCTTGCCGCTGTGGCGACGTGGGAACAAGCTGTTCATTGGCATATCGGA
TCCGACCAATCATCAGGCAGTCACCGATATTCAGTTCAGCACCGGCCTGAATACCGAAGCGATTCTGGTAGAAGATGACA
AGCTGAACACTGCAATAGATCGCTTTTTTGACAGTGATACCGGTCTAGGTAATCTGGAAGATGTCGATCTGGGCTTGGAT
ATCGAACCGGCCGATGGCAAGGAAACCTCTCTAGCTACACAGAATGATGCTGACGATGCTCCAGTAGTGCGATTTGTCAA
CAAAATGCTTATGGATGCCATCCGATTAGGATCATCCGACTTGCACTTCGAGCCCTACGAAAAGATCTTCCGTGTACGTT
TGCGTACCGATGGCATCCTGCACGAGGTCGCCAGACCGCCGATCCATCTTGCAAACCGTATTGCTGCGCGGCTGAAGGTC
ATGGCCAGCCTCGATATTTCGGAACGACGCAAACCGCAGGACGGAAGGGTCAAGTTGCGGGTGTCCAAAACAAAGGCTAT
CGATTTTCGTATGAATACCTTGCCCACACTGTGGGGCGAAAAGATTGTGATGCGGATCCTAGACCCGACCAGCGCGCAGA
TGGGTATTGATGCTTTGGGCTACGAGCCAGAACAAAAGGCACTGTATCTGGAAGCGCTGAAACAGCCGCAGGGCATGATT
CTCGTAACTGGTCCCACTGGGTCCGGCAAGACTGTTTCGCTGTATACAGGCCTGAATATCCTCAATACCGTAGACATCAA
CATTTCTACAGCCGAAGACCCGGTGGAGATCAACCTGGAAGGTATCAACCAAGTCAACGTCAATCCGCGTCAGGGGCTGG
ACTTTTCTCAGGCATTGCGCGCGTTCCTGCGTCAAGATCCCGACGTAATTATGGTCGGCGAGATTCGCGACTTGGAAACT
GCCGAAATCGCCATCAAGGCGTCACAGACCGGCCACATGGTACTGTCAACCCTGCACACCAACAGTGCGGCAGAAACACT
GACTCGCCTGCATCATATGGGTGTCGCAGCATTCAACATTGCTACAGCAATCAACCTGATTATTGCGCAGCGCCTTGCGC
GCAAGTTGTGCAGCCACTGCAAGAAAGAACTCGATATTCCTCGCGAGACACTGATTCGAGAAGGTTTTCCTGAAGAGAAG
ATTGGCACTTTCAAGATTTATGGCCCAGTGGGCTGTGAGCATTGCAATAGTGGCTATAGAGGCAGGGTCGGTATTTACGA
AGTCGTCAAGAAAACAGCGGAACTGGAGCGCATAATCATGGAAGAAGGCAACTCATTAGAGATTTCCAGGCAGATGCGTA
AGGACGGCTTCAACGACTTGCGAACCTCGGGCCTTTCGAAAGCTATGCAGGGCGTCACCAGCCTTGAAGAAGTCAATCGC
GTGACCAAGGATTAA

Domains

Predicted by InterproScan.

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

(42-147)

Type II/IV secretion system protein (T2SSE)

(188-455)


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

57.067

100

0.573
  pilB Legionella pneumophila strain ERS1305867

55.221

100

0.553
  pilB Vibrio cholerae strain A1552

50.356

99.645

0.502
  pilB Vibrio parahaemolyticus RIMD 2210633

50.179

99.291

0.498
  pilB Vibrio campbellii strain DS40M4

48.94

100

0.491
  pilF Neisseria gonorrhoeae MS11

47.865

99.645

0.477
  pilF Thermus thermophilus HB27

38.339

100

0.385
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.279

93.44

0.367

Multiple sequence alignment