Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB/pilB1   Type   Machinery gene
Locus tag   HPY04_RS11925 Genome accession   NZ_CP053744
Coordinates   2646766..2648493 (-) Length   575 a.a.
NCBI ID   WP_001122155.1    Uniprot ID   -
Organism   Vibrio cholerae strain SA3G     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2641766..2653493
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HPY04_RS11890 (HPY04_11900) - 2642028..2642798 (-) 771 WP_175249143.1 PilW family protein -
  HPY04_RS11895 (HPY04_11905) - 2642798..2643367 (-) 570 WP_001144508.1 type II secretion system protein -
  HPY04_RS11900 (HPY04_11910) - 2643357..2643845 (-) 489 WP_000691265.1 Tfp pilus assembly protein FimT/FimU -
  HPY04_RS11905 (HPY04_11915) - 2643882..2644409 (-) 528 WP_000828586.1 type II secretion system protein -
  HPY04_RS11910 (HPY04_11920) - 2644444..2644998 (-) 555 WP_000738707.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  HPY04_RS11915 (HPY04_11925) - 2645079..2645531 (-) 453 WP_000689650.1 hypothetical protein -
  HPY04_RS11920 (HPY04_11930) - 2645534..2646757 (-) 1224 WP_102786355.1 type II secretion system F family protein -
  HPY04_RS11925 (HPY04_11935) pilB/pilB1 2646766..2648493 (-) 1728 WP_001122155.1 GspE/PulE family protein Machinery gene
  HPY04_RS11930 (HPY04_11940) - 2648483..2649634 (-) 1152 WP_175249144.1 lipopolysaccharide assembly protein LapB -
  HPY04_RS11935 (HPY04_11945) - 2649631..2650476 (-) 846 WP_000281361.1 ExeA family protein -
  HPY04_RS11940 (HPY04_11950) mshL 2650481..2652160 (-) 1680 WP_175249145.1 pilus (MSHA type) biogenesis protein MshL -
  HPY04_RS11945 (HPY04_11955) - 2652175..2652492 (-) 318 WP_000252812.1 MSHA biogenesis protein MshK -
  HPY04_RS11950 (HPY04_11960) gspM 2652485..2653135 (-) 651 WP_053037476.1 type II secretion system protein GspM -

Sequence

Protein


Download         Length: 575 a.a.        Molecular weight: 63872.34 Da        Isoelectric Point: 6.0455

>NTDB_id=394085 HPY04_RS11925 WP_001122155.1 2646766..2648493(-) (pilB/pilB1) [Vibrio cholerae strain SA3G]
MPINKLRKRLGDLLVEEGIVSEAQLEQALNAQKNTGRRLGDTLISLGFLSETQLLNFLAQQLSLPVIDLSRAHVDIDAVP
LLPEVHARRLRALVIGRSGDTLRIAMSDPADLFAQEALLNQLPDYGFEFVIAPEKQLVDGFDRYYRRTKEIVSFAEQLHA
EHKTNDSFDFEITDSDSDEVTVVKLINSLFEDAIQVGASDIHIEPDANVLRLRQRIDGVLHETLLHEVNIASALVLRLKL
MANLDISEKRLPQDGRFNIRVKGQSVDIRMSTMPIQHGESVVMRLLNQSAGVRKLEESGIPPHLLLRLRHQLKRPHGMIL
VTGPTGSGKTTTLYGALNELNTSGKKIITAEDPVEYRISRINQVQVNPKINLDFSTLLRTFLRQDPDIILVGEMRDQETV
EIGLRAALTGHLVLSTLHTNDAVDSALRLIDMGAPGYLVASAVRAVVAQRLVRKVCPDCSGHDEVDEARRQWLVTRFPNQ
VAAKFTRGRGCQNCNLTGYRGRIGVFEMLELDQPMMDCLRANDAVAFSKAARSNTDYKPLLASAMELALQGIVSLDEVMS
LGEGDSSGLVEPIYL

Nucleotide


Download         Length: 1728 bp        

>NTDB_id=394085 HPY04_RS11925 WP_001122155.1 2646766..2648493(-) (pilB/pilB1) [Vibrio cholerae strain SA3G]
GTGCCAATTAATAAACTGCGTAAACGGCTTGGTGACTTGCTGGTTGAAGAGGGGATTGTCAGCGAAGCGCAGCTTGAACA
AGCGCTCAATGCCCAGAAAAATACCGGACGCCGCTTAGGGGATACCTTAATTTCGCTTGGCTTTTTAAGCGAAACCCAGT
TGCTGAACTTTTTGGCGCAGCAATTGAGTTTACCTGTGATCGATTTGAGCCGCGCTCATGTTGATATTGATGCGGTTCCT
TTACTGCCTGAAGTTCATGCCCGCCGTTTGCGTGCGCTGGTGATAGGCCGCAGTGGTGATACGCTGCGCATAGCCATGAG
TGATCCTGCGGATCTGTTTGCTCAAGAAGCCTTGCTCAACCAGTTGCCTGATTATGGTTTTGAGTTTGTCATCGCCCCTG
AGAAGCAGTTGGTCGATGGCTTTGATCGTTACTATCGCCGCACCAAAGAAATTGTCTCGTTTGCCGAGCAATTGCATGCC
GAACACAAAACCAATGATAGTTTTGATTTTGAGATCACCGATTCAGATAGCGATGAAGTGACGGTTGTTAAACTGATCAA
CTCGCTGTTTGAAGATGCGATTCAAGTGGGTGCCTCGGATATACACATTGAGCCAGATGCCAACGTACTGCGTTTGCGGC
AACGGATCGATGGGGTATTGCATGAAACCTTGCTTCATGAAGTGAATATCGCCTCTGCCTTAGTGCTGCGCTTAAAATTA
ATGGCTAATCTGGATATTTCAGAAAAACGCCTTCCGCAAGATGGACGTTTTAACATCCGTGTAAAAGGACAATCCGTCGA
TATCCGGATGTCAACCATGCCTATCCAGCACGGTGAATCGGTGGTGATGCGTCTGCTCAACCAATCTGCAGGGGTTAGAA
AGCTCGAAGAGTCAGGTATTCCGCCTCATTTATTGCTGCGTTTGCGCCATCAGTTGAAACGCCCTCATGGCATGATTCTG
GTGACGGGACCTACCGGCTCGGGGAAAACCACCACCCTGTATGGCGCACTCAACGAGCTCAATACCTCCGGCAAAAAAAT
CATTACTGCGGAAGATCCGGTGGAATACCGGATTTCACGGATCAATCAGGTGCAAGTGAACCCGAAAATCAATCTCGATT
TCTCGACGTTACTGCGCACTTTCTTGCGCCAAGACCCAGATATTATTCTGGTCGGTGAGATGCGTGACCAAGAGACGGTC
GAAATTGGCCTGCGCGCCGCCTTAACCGGTCACTTAGTCTTAAGTACTCTGCACACCAATGATGCCGTCGATAGCGCGCT
GCGTTTGATTGATATGGGGGCGCCCGGTTATCTGGTCGCCAGTGCGGTACGTGCCGTGGTTGCGCAGCGTTTAGTGCGAA
AAGTCTGTCCAGATTGTAGTGGACATGATGAGGTGGATGAAGCGCGTCGCCAATGGCTTGTGACGCGTTTCCCTAATCAA
GTTGCCGCCAAATTCACTCGTGGACGCGGCTGCCAAAACTGTAACTTAACCGGTTATCGCGGCCGGATCGGTGTATTTGA
AATGCTTGAGCTGGATCAGCCGATGATGGATTGCTTGCGGGCAAATGATGCTGTGGCCTTCTCTAAAGCCGCACGCAGTA
ACACAGATTATAAACCGCTACTGGCTTCAGCGATGGAGTTAGCGCTGCAAGGTATCGTCAGTCTTGATGAAGTGATGTCG
CTCGGTGAAGGTGATTCCTCTGGTTTGGTTGAACCGATTTATCTGTAG

Domains

Predicted by InterProScan.

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

(43-149)

Type II/IV secretion system protein (T2SSE)

(189-454)


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/pilB1 Synechocystis sp. PCC 6803

35.596

100

0.374
  pilB Vibrio campbellii strain DS40M4

36.796

98.783

0.363
  pilB Vibrio cholerae strain A1552

36.945

97.913

0.362
  pilF Thermus thermophilus HB27

37.209

97.217

0.362
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

37.477

96.522

0.362
  pilB Legionella pneumophila strain ERS1305867

39.057

92.174

0.36

Multiple sequence alignment