Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB/pilB1   Type   Machinery gene
Locus tag   Vc3S01_RS16555 Genome accession   NZ_CP020076
Coordinates   3444409..3445911 (-) Length   500 a.a.
NCBI ID   WP_038890212.1    Uniprot ID   -
Organism   Vibrio campbellii strain 20130629003S01     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3439409..3450911
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  Vc3S01_RS16525 (Vc3S01_3054) gspK 3439930..3440940 (-) 1011 WP_038890215.1 type II secretion system minor pseudopilin GspK -
  Vc3S01_RS16530 (Vc3S01_3055) gspJ 3440933..3441649 (-) 717 WP_086371192.1 type II secretion system minor pseudopilin GspJ -
  Vc3S01_RS16535 (Vc3S01_3056) gspI 3441672..3442067 (-) 396 WP_005430093.1 type II secretion system minor pseudopilin GspI -
  Vc3S01_RS16540 (Vc3S01_3057) - 3442048..3442653 (-) 606 WP_005430102.1 GspH/FimT family pseudopilin -
  Vc3S01_RS16545 (Vc3S01_3058) gspG 3442685..3443128 (-) 444 WP_005430189.1 type II secretion system major pseudopilin GspG -
  Vc3S01_RS16550 (Vc3S01_3059) gspF 3443189..3444409 (-) 1221 WP_005430086.1 type II secretion system inner membrane protein GspF -
  Vc3S01_RS16555 (Vc3S01_3060) pilB/pilB1 3444409..3445911 (-) 1503 WP_038890212.1 type II secretion system ATPase GspE Machinery gene
  Vc3S01_RS16560 (Vc3S01_3061) gspD 3445904..3447931 (-) 2028 WP_047480173.1 type II secretion system secretin GspD -
  Vc3S01_RS16565 (Vc3S01_3062) gspC 3447968..3448891 (-) 924 WP_005430158.1 type II secretion system protein GspC -
  Vc3S01_RS16570 (Vc3S01_3063) hslR 3449147..3449533 (+) 387 WP_005430076.1 ribosome-associated heat shock protein Hsp15 -
  Vc3S01_RS16575 (Vc3S01_3064) hslO 3449565..3450440 (+) 876 WP_077201186.1 Hsp33 family molecular chaperone HslO -

Sequence

Protein


Download         Length: 500 a.a.        Molecular weight: 55824.06 Da        Isoelectric Point: 5.7709

>NTDB_id=184538 Vc3S01_RS16555 WP_038890212.1 3444409..3445911(-) (pilB/pilB1) [Vibrio campbellii strain 20130629003S01]
MVDMLDTAPSMRRLPFSFANRFKLVLETEHPERPPILYYVEPLNPAALVEVRRVLKQNFIPQVMDKEAFDKKLTEAYQRD
SSEARQLMEDIGADSDDFFSLAEELPHDEDLLESEDDAPIIKLINAMLGEAIKEGASDIHIETFEKTLSIRFRVDGVLRE
VLTPSRKLAPLLVSRVKVMAKLDIAEKRVPQDGRISLRIGGRAVDVRVSTMPSSHGERVVMRLLDKNATRLDLHSLGMTP
SVHDNFRHLIGRPHGIILVTGPTGSGKSTTLYAGLQEINSNERNILTVEDPIEFDIDGIGQTQVNPKVDMTFARGLRAIL
RQDPDVVMVGEIRDLETAQIAVQASLTGHLVMSTLHTNTAVGAITRLRDMGIEPFLISSSLLGVLAQRLVRTLCSDCKEP
YEADKEQKKLFGLEEHESLVLHRAKGCEVCNQKGYRGRTGIHELLMVDEKVQELIHSEAGEQEIEKAVRAHTPSIRSDGL
SKVSRGITSLEEVMRVTKEA

Nucleotide


Download         Length: 1503 bp        

>NTDB_id=184538 Vc3S01_RS16555 WP_038890212.1 3444409..3445911(-) (pilB/pilB1) [Vibrio campbellii strain 20130629003S01]
ATGGTTGATATGTTAGACACCGCGCCAAGTATGCGCCGTCTGCCATTCAGTTTTGCCAATCGCTTTAAACTGGTTTTGGA
GACGGAGCACCCTGAGCGCCCTCCAATTCTGTATTACGTAGAGCCGCTTAACCCTGCGGCTCTGGTTGAAGTACGTCGAG
TACTGAAACAAAACTTTATTCCTCAAGTGATGGACAAAGAAGCATTCGATAAAAAGCTCACTGAAGCTTATCAACGTGAT
TCTTCTGAAGCCCGTCAGTTGATGGAAGACATTGGCGCAGACAGTGATGACTTCTTCTCATTAGCAGAAGAACTGCCTCA
CGACGAAGATTTGTTGGAATCGGAAGATGATGCGCCAATCATCAAATTGATCAATGCCATGTTGGGTGAAGCGATCAAAG
AAGGGGCGTCGGATATTCATATTGAGACGTTCGAGAAAACCCTTTCGATTCGTTTCCGTGTCGATGGTGTATTGCGTGAA
GTCTTAACCCCGAGCCGCAAGCTAGCACCTTTGCTGGTTTCTCGTGTGAAGGTTATGGCGAAGCTGGATATTGCGGAAAA
ACGCGTACCTCAAGATGGTCGTATTTCACTGCGTATCGGTGGTCGTGCGGTGGACGTGCGTGTATCGACCATGCCTTCAT
CGCATGGTGAGCGTGTGGTAATGCGTCTACTGGATAAGAACGCGACTCGTCTTGATCTGCATAGTTTGGGTATGACCCCT
TCAGTGCATGACAACTTCCGTCATTTGATTGGTCGCCCTCACGGCATTATCTTGGTAACCGGTCCGACAGGTTCGGGTAA
GTCGACGACCTTGTACGCGGGCTTGCAAGAGATCAACAGCAATGAACGCAACATTCTGACTGTTGAAGATCCTATCGAAT
TCGATATCGATGGCATTGGCCAAACACAGGTAAACCCTAAGGTTGATATGACCTTTGCGCGTGGTCTACGTGCGATTCTT
CGTCAAGACCCGGATGTAGTGATGGTTGGTGAGATCCGTGACTTGGAGACCGCACAAATTGCCGTGCAAGCCTCTTTGAC
TGGCCACTTAGTGATGTCAACGCTACACACCAACACCGCAGTTGGCGCAATCACGCGTCTGCGCGACATGGGTATTGAAC
CCTTCCTGATCTCTTCTTCGCTATTGGGCGTGCTAGCACAGCGCCTAGTTCGCACCCTTTGTTCTGACTGTAAAGAGCCA
TACGAAGCGGATAAAGAACAGAAGAAACTGTTCGGTCTGGAAGAGCACGAATCGCTGGTTCTGCATCGTGCAAAAGGCTG
TGAAGTGTGTAACCAAAAAGGTTACCGCGGTCGTACTGGTATTCACGAACTTCTAATGGTGGATGAGAAAGTTCAAGAAC
TGATCCACAGTGAAGCGGGTGAACAAGAAATTGAAAAAGCCGTACGAGCACACACACCAAGCATTCGTAGCGATGGCCTA
AGCAAAGTCAGTCGTGGTATCACTTCTCTTGAAGAGGTGATGCGAGTGACCAAGGAAGCGTAA

Domains

Predicted by InterProScan.

Type II/IV secretion system protein (T2SSE)

(126-392)


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

43.156

100

0.454
  pilF Thermus thermophilus HB27

44.28

94.4

0.418
  pilB Acinetobacter baumannii D1279779

42.589

95.8

0.408
  pilB Legionella pneumophila strain ERS1305867

47.307

85.4

0.404
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

42.644

93.8

0.4
  pilB Vibrio parahaemolyticus RIMD 2210633

46.21

81.8

0.378
  pilB Vibrio cholerae strain A1552

47.475

79.2

0.376
  pilB Vibrio campbellii strain DS40M4

45.721

81.8

0.374
  pilB Acinetobacter baylyi ADP1

46.667

78

0.364
  pilF Neisseria gonorrhoeae MS11

46.193

78.8

0.364

Multiple sequence alignment