Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB/pilB1   Type   Machinery gene
Locus tag   HPY13_RS12000 Genome accession   NZ_CP053796
Coordinates   2638251..2639978 (-) Length   575 a.a.
NCBI ID   WP_001122155.1    Uniprot ID   -
Organism   Vibrio cholerae strain SL4G     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2633251..2644978
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HPY13_RS11965 (HPY13_11965) - 2633553..2634323 (-) 771 WP_042989134.1 PilW family protein -
  HPY13_RS11970 (HPY13_11970) - 2634323..2634892 (-) 570 WP_162298898.1 type II secretion system protein -
  HPY13_RS11975 (HPY13_11975) - 2634882..2635394 (-) 513 WP_001249938.1 type II secretion system protein -
  HPY13_RS11980 (HPY13_11980) - 2635457..2635894 (-) 438 WP_094392766.1 type II secretion system protein -
  HPY13_RS11985 (HPY13_11985) - 2635929..2636483 (-) 555 WP_000738708.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  HPY13_RS11990 (HPY13_11990) - 2636564..2637016 (-) 453 WP_000689652.1 hypothetical protein -
  HPY13_RS11995 (HPY13_11995) - 2637019..2638242 (-) 1224 WP_001914643.1 type II secretion system F family protein -
  HPY13_RS12000 (HPY13_12000) pilB/pilB1 2638251..2639978 (-) 1728 WP_001122155.1 GspE/PulE family protein Machinery gene
  HPY13_RS12005 (HPY13_12005) - 2639968..2641119 (-) 1152 WP_001914645.1 lipopolysaccharide assembly protein LapB -
  HPY13_RS12010 (HPY13_12010) - 2641116..2641961 (-) 846 WP_000281360.1 ExeA family protein -
  HPY13_RS12015 (HPY13_12015) mshL 2641966..2643645 (-) 1680 WP_095488198.1 pilus (MSHA type) biogenesis protein MshL -
  HPY13_RS12020 (HPY13_12020) - 2643660..2643977 (-) 318 WP_000252812.1 MSHA biogenesis protein MshK -
  HPY13_RS12025 (HPY13_12025) gspM 2643970..2644620 (-) 651 WP_094392771.1 type II secretion system protein GspM -

Sequence

Protein


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

>NTDB_id=394830 HPY13_RS12000 WP_001122155.1 2638251..2639978(-) (pilB/pilB1) [Vibrio cholerae strain SL4G]
MPINKLRKRLGDLLVEEGIVSEAQLEQALNAQKNTGRRLGDTLISLGFLSETQLLNFLAQQLSLPVIDLSRAHVDIDAVP
LLPEVHARRLRALVIGRSGDTLRIAMSDPADLFAQEALLNQLPDYGFEFVIAPEKQLVDGFDRYYRRTKEIVSFAEQLHA
EHKTNDSFDFEITDSDSDEVTVVKLINSLFEDAIQVGASDIHIEPDANVLRLRQRIDGVLHETLLHEVNIASALVLRLKL
MANLDISEKRLPQDGRFNIRVKGQSVDIRMSTMPIQHGESVVMRLLNQSAGVRKLEESGIPPHLLLRLRHQLKRPHGMIL
VTGPTGSGKTTTLYGALNELNTSGKKIITAEDPVEYRISRINQVQVNPKINLDFSTLLRTFLRQDPDIILVGEMRDQETV
EIGLRAALTGHLVLSTLHTNDAVDSALRLIDMGAPGYLVASAVRAVVAQRLVRKVCPDCSGHDEVDEARRQWLVTRFPNQ
VAAKFTRGRGCQNCNLTGYRGRIGVFEMLELDQPMMDCLRANDAVAFSKAARSNTDYKPLLASAMELALQGIVSLDEVMS
LGEGDSSGLVEPIYL

Nucleotide


Download         Length: 1728 bp        

>NTDB_id=394830 HPY13_RS12000 WP_001122155.1 2638251..2639978(-) (pilB/pilB1) [Vibrio cholerae strain SL4G]
GTGCCAATTAATAAACTGCGTAAACGGCTTGGTGACTTGCTGGTTGAAGAGGGGATTGTGAGCGAAGCGCAGCTTGAACA
AGCGCTCAATGCCCAGAAAAATACCGGACGCCGCTTAGGGGATACCTTAATTTCGCTTGGCTTTTTAAGCGAAACCCAGT
TGCTGAACTTTTTGGCGCAGCAATTGAGTTTGCCAGTGATCGATCTGAGCCGTGCCCATGTCGATATTGATGCGGTTCCT
TTACTGCCTGAAGTTCATGCCCGCCGTTTGCGTGCGCTGGTGATAGGCCGCAGTGGTGATACGCTTCGCATAGCCATGAG
TGATCCTGCGGATCTGTTTGCTCAAGAAGCCTTGCTCAACCAGTTGCCTGATTACGGTTTTGAGTTTGTCATCGCCCCTG
AGAAGCAGTTGGTCGATGGCTTTGATCGTTACTATCGCCGCACCAAAGAAATTGTCTCGTTTGCCGAGCAATTGCATGCC
GAACACAAAACGAATGATAGTTTTGATTTTGAGATCACCGATTCAGATAGCGATGAAGTGACGGTTGTTAAACTGATCAA
CTCGCTGTTTGAAGATGCGATTCAAGTGGGAGCCTCGGATATACACATTGAGCCGGATGCCAACGTACTGCGTTTGCGTC
AACGGATCGATGGGGTACTGCATGAAACCTTGCTCCATGAAGTGAATATCGCCTCAGCCTTAGTGCTGCGCTTAAAATTA
ATGGCGAATCTGGATATTTCAGAAAAACGCCTTCCGCAAGATGGACGTTTTAACATCCGTGTAAAAGGACAATCCGTCGA
TATCCGGATGTCAACCATGCCTATCCAGCACGGTGAATCGGTGGTGATGCGTTTGCTCAACCAATCTGCAGGGGTTAGAA
AGCTCGAAGAGTCCGGTATTCCGCCTCATTTATTGCTGCGTTTGCGCCATCAGTTGAAACGCCCTCATGGCATGATTCTG
GTGACTGGGCCTACCGGCTCGGGGAAAACCACCACCTTGTATGGCGCACTCAACGAGCTCAATACGTCCGGCAAAAAAAT
CATTACTGCGGAAGATCCGGTGGAATACCGGATTTCACGGATCAATCAGGTGCAAGTGAACCCGAAAATCAATCTCGATT
TCTCGACGTTACTGCGCACTTTCTTGCGCCAAGACCCAGATATTATTTTGGTCGGTGAGATGCGTGACCAAGAGACGGTC
GAAATTGGCCTGCGCGCCGCCTTAACCGGTCACTTAGTCTTAAGTACTCTGCACACCAATGATGCCGTCGATAGCGCGTT
GCGTTTGATTGATATGGGGGCGCCCGGTTATCTTGTCGCCAGTGCGGTACGTGCCGTGGTTGCGCAGCGTTTAGTACGAA
AAGTCTGTCCAGATTGTAGTGGACATGATGAGGTGGATGAAGCGCGTCGCCAATGGCTTGTGACGCGTTTCCCTAATCAA
GTTGCCGCCAAATTCACTCGTGGACGCGGCTGTCAAAACTGTAACTTAACTGGTTATCGCGGCCGGATCGGTGTATTTGA
AATGCTTGAGCTGGATCAGCCGATGATGGATTGCTTGCGGGCAAATGATGCTGTGGCCTTCTCTAAAGCCGCACGCAGTA
ACACAGATTATAAACCGCTACTGGCTTCGGCGATGGAGTTAGCGCTGCAAGGCATCGTCAGTCTTGATGAAGTGATGTCG
CTGGGTGAAGGTGATTCCTCTGGTTTGGTTGAACCGATTTATCTGTAG

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