Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   Vp2S01_RS02105 Genome accession   NZ_CP020034
Coordinates   406004..407728 (+) Length   574 a.a.
NCBI ID   WP_029795430.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain 20130629002S01     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 401004..412728
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  Vp2S01_RS02080 (Vp2S01_0360) gspM 401409..402059 (+) 651 WP_031855949.1 type II secretion system protein GspM -
  Vp2S01_RS02085 (Vp2S01_0361) - 402052..402381 (+) 330 WP_005481006.1 MSHA biogenesis protein MshK -
  Vp2S01_RS02090 (Vp2S01_0362) mshL 402402..404045 (+) 1644 WP_024701141.1 pilus (MSHA type) biogenesis protein MshL -
  Vp2S01_RS02095 (Vp2S01_0363) - 404089..404934 (+) 846 WP_005497278.1 AAA family ATPase -
  Vp2S01_RS02100 (Vp2S01_0364) - 404931..406007 (+) 1077 WP_025541499.1 tetratricopeptide repeat protein -
  Vp2S01_RS02105 (Vp2S01_0365) pilB 406004..407728 (+) 1725 WP_029795430.1 GspE/PulE family protein Machinery gene
  Vp2S01_RS02110 (Vp2S01_0366) - 407737..408960 (+) 1224 WP_015297334.1 type II secretion system F family protein -
  Vp2S01_RS02115 (Vp2S01_0367) - 408964..409425 (+) 462 WP_024701144.1 hypothetical protein -
  Vp2S01_RS02120 (Vp2S01_0369) - 409720..410211 (+) 492 WP_025787798.1 type II secretion system protein -
  Vp2S01_RS02125 (Vp2S01_0370) - 410286..410519 (+) 234 WP_005481019.1 hypothetical protein -
  Vp2S01_RS02130 (Vp2S01_0371) - 410635..411120 (+) 486 WP_031855950.1 type II secretion system protein -
  Vp2S01_RS02135 (Vp2S01_0372) - 411117..411683 (+) 567 WP_031855951.1 type II secretion system protein -
  Vp2S01_RS02140 (Vp2S01_0373) - 411684..412397 (+) 714 WP_031855952.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -

Sequence

Protein


Download         Length: 574 a.a.        Molecular weight: 63914.27 Da        Isoelectric Point: 5.2324

>NTDB_id=184022 Vp2S01_RS02105 WP_029795430.1 406004..407728(+) (pilB) [Vibrio parahaemolyticus strain 20130629002S01]
MKIQLRKRLGDLLVEEGIVSEDQIQQALSAQRSTGQKLGDALIDLGFITEKQMLEFLSQQLGLPLIDLGRAPVDADAVQI
LPEVHARRLRAMVVARNGDTLRVAMSDPADLFTQESLMNLLGEYNLEFIIASERQLISSFDRYYRRTKEIASFAEQLQAE
HQDVQSFDYGIDEADSEEVTVVKLVNSMFEDAVQVGASDIHIEPDDKVLRLRQRVDGVLHETILNEVNIASALVLRLKLM
AHLDISEKRLPQDGRFNIKVRGQSIDIRMSTLPTQYGESVVMRLLNQSSGLRPLEESGLPPELLVRLRRQLSRPHGMILV
TGPTGSGKTTTLYGALSELNEPGKKIITAEDPVEYRLPRITQVQINSKIDLTFSRVLRTFLRQDPDIILIGEMRDQETVE
IGLRAALTGHLVLSTLHTNDAVDSALRMIDMGAPGYLVASAVRAVVAQRLVRRVCPDCKTQDHLDESRQQWLAGRFPNQV
GVTFHKGAGCQNCNLTGYRGRIGVFEMLELEHEMMDKLRANDAVGFAQAARRSENYKPLLASAMELALQGAVSLDEVMTL
GEGDASGKTDPIFM

Nucleotide


Download         Length: 1725 bp        

>NTDB_id=184022 Vp2S01_RS02105 WP_029795430.1 406004..407728(+) (pilB) [Vibrio parahaemolyticus strain 20130629002S01]
ATGAAAATTCAGTTGAGAAAACGCTTAGGTGACCTACTTGTTGAAGAAGGTATCGTATCGGAAGATCAAATCCAGCAAGC
TCTATCCGCTCAGCGCAGTACCGGACAAAAATTAGGTGATGCCCTGATTGATCTCGGGTTTATTACCGAAAAGCAAATGC
TGGAGTTCTTGTCTCAGCAACTTGGATTACCGTTGATCGATCTTGGACGCGCTCCAGTGGATGCGGATGCGGTGCAAATA
CTGCCAGAAGTGCATGCTCGTCGTTTACGTGCAATGGTGGTGGCTCGTAATGGTGACACTCTACGTGTTGCGATGAGTGA
TCCGGCGGATCTGTTTACCCAAGAGTCTTTAATGAACTTGCTCGGTGAGTACAACCTTGAGTTCATCATAGCCTCTGAGC
GTCAGTTGATTAGCAGTTTCGACCGTTACTACCGCCGTACCAAAGAGATCGCGTCCTTTGCTGAGCAGTTACAAGCCGAG
CACCAAGACGTACAAAGCTTTGACTATGGCATCGATGAAGCCGACAGTGAAGAAGTCACCGTTGTAAAACTGGTTAATTC
GATGTTTGAAGACGCGGTGCAAGTTGGTGCATCGGATATCCATATCGAACCAGACGATAAAGTCCTGCGTTTACGCCAGC
GTGTCGATGGTGTGCTGCATGAAACCATTCTGAACGAAGTGAACATCGCTTCTGCATTGGTATTACGCCTTAAATTGATG
GCGCACTTGGATATTTCTGAGAAGCGTCTGCCGCAAGATGGTCGCTTCAACATCAAAGTTCGTGGTCAATCTATTGATAT
TCGTATGTCGACGTTACCGACTCAGTACGGTGAATCGGTCGTAATGCGTCTGCTTAACCAGTCGTCAGGTTTACGTCCAT
TAGAAGAATCGGGTTTACCGCCTGAGCTACTGGTGCGTTTGCGTCGTCAGTTATCTCGTCCTCATGGCATGATTTTGGTA
ACTGGCCCTACGGGATCGGGTAAAACCACGACACTTTACGGCGCGTTGAGTGAGCTCAATGAACCGGGTAAAAAAATCAT
CACCGCAGAAGATCCGGTGGAATACCGTTTACCACGTATCACGCAAGTACAGATCAACAGCAAGATCGACTTAACGTTTT
CACGCGTGCTACGCACCTTCTTACGCCAAGACCCAGACATCATTTTGATTGGTGAGATGCGTGACCAAGAGACGGTAGAG
ATTGGCTTGCGAGCAGCACTAACCGGCCACTTAGTATTGAGTACGTTGCACACCAACGATGCGGTCGACAGCGCACTGCG
TATGATCGACATGGGAGCGCCAGGCTATCTCGTTGCCAGTGCCGTGCGTGCCGTTGTGGCTCAGCGATTGGTTCGCCGTG
TTTGTCCAGATTGTAAAACCCAAGATCATCTCGATGAGTCGCGTCAACAATGGTTAGCGGGGCGTTTTCCAAATCAAGTT
GGGGTGACTTTCCACAAAGGCGCAGGTTGTCAAAACTGTAACTTGACGGGGTATCGAGGTCGAATCGGTGTGTTTGAAAT
GCTTGAGCTGGAACATGAGATGATGGACAAGCTGCGTGCGAATGATGCGGTTGGTTTTGCACAAGCGGCTCGACGTTCAG
AAAACTACAAACCGCTTCTTGCCTCAGCAATGGAGCTTGCACTGCAAGGTGCTGTGAGCTTGGATGAAGTGATGACCCTC
GGCGAGGGTGACGCTTCGGGTAAAACTGATCCCATTTTCATGTAG

Domains

Predicted by InterProScan.

Type II/IV secretion system protein (T2SSE)

(187-453)

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

(42-148)


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 Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.64

97.387

0.376
  pilB/pilB1 Synechocystis sp. PCC 6803

34.272

100

0.361

Multiple sequence alignment