Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   VNTUMSATTG_RS16025 Genome accession   NZ_AP024087
Coordinates   3508727..3510415 (+) Length   562 a.a.
NCBI ID   WP_200766161.1    Uniprot ID   -
Organism   Vibrio nigripulchritudo strain TUMSAT-TG-2018     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3503727..3515415
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VNTUMSATTG_RS16005 (VNTUMSATTG_31340) pdhR 3505359..3506129 (-) 771 WP_004397664.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  VNTUMSATTG_RS16010 (VNTUMSATTG_31350) ampD 3506442..3506999 (-) 558 WP_200767481.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  VNTUMSATTG_RS16015 (VNTUMSATTG_31360) nadC 3507128..3508015 (+) 888 WP_200766159.1 carboxylating nicotinate-nucleotide diphosphorylase -
  VNTUMSATTG_RS16020 (VNTUMSATTG_31370) pilA 3508293..3508727 (+) 435 WP_225911751.1 pilin Machinery gene
  VNTUMSATTG_RS16025 (VNTUMSATTG_31380) pilB 3508727..3510415 (+) 1689 WP_200766161.1 type IV-A pilus assembly ATPase PilB Machinery gene
  VNTUMSATTG_RS16030 (VNTUMSATTG_31390) pilC 3510425..3511657 (+) 1233 WP_200766162.1 type II secretion system F family protein Machinery gene
  VNTUMSATTG_RS16035 (VNTUMSATTG_31400) pilD 3511698..3512567 (+) 870 WP_200766163.1 A24 family peptidase Machinery gene
  VNTUMSATTG_RS16040 (VNTUMSATTG_31410) coaE 3512617..3513222 (+) 606 WP_200766164.1 dephospho-CoA kinase -
  VNTUMSATTG_RS16045 (VNTUMSATTG_31420) zapD 3513256..3513996 (+) 741 WP_022599627.1 cell division protein ZapD -
  VNTUMSATTG_RS16050 (VNTUMSATTG_31430) yacG 3514053..3514247 (+) 195 WP_004408892.1 DNA gyrase inhibitor YacG -
  VNTUMSATTG_RS16055 (VNTUMSATTG_31440) mutT 3514334..3514735 (-) 402 WP_004408891.1 8-oxo-dGTP diphosphatase MutT -
  VNTUMSATTG_RS16060 (VNTUMSATTG_31450) rplS 3514927..3515280 (-) 354 WP_004408890.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 562 a.a.        Molecular weight: 62230.01 Da        Isoelectric Point: 4.7152

>NTDB_id=83388 VNTUMSATTG_RS16025 WP_200766161.1 3508727..3510415(+) (pilB) [Vibrio nigripulchritudo strain TUMSAT-TG-2018]
MHTNLASILRQADIISEEHEQAIVERIESSGGSVPGAILALDILPSFELTQHIAEIFGLSVIETNQYDYTQLCEQLGLRD
LITRYNALPVESTNNTLFIALSDPTVVEAEEEFRFATNQQVEILLCDERELTSCIRRMYGKNRVDSRNAGKEITQDELAD
LVEISDDEFEAAEDLSLDDAPVSRFIHQVLLDAVRKGASDIHFEPYEDTYRIRMRCDGILIQANSPAPQLGRRLAARLKI
LSKLDIAERRLPQDGRIKLRLSEKAAIDLRVSTLPTLWGEKVVLRLLDSSSANLNIDMLGYSAEQKALYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNTVERNISTAEDPVEINLAGINQVQVSPKIGFTFAAALKSFLRQDPDIVMLGEIRDFET
AEIAIKAAQTGHLVLSTLHTNSAAETVIRLGNMGVEPYNLASSLSLIIAQRLARRLCSHCKQPHQLPSAVLEKHLIPEDT
TIYQASAEGCADCNAGYSGRIGIYEVMPFDADMQQAISYKASIVEIENLAVKNGMKTLSQSGIEILKQGITSYQELQRVL
YL

Nucleotide


Download         Length: 1689 bp        

>NTDB_id=83388 VNTUMSATTG_RS16025 WP_200766161.1 3508727..3510415(+) (pilB) [Vibrio nigripulchritudo strain TUMSAT-TG-2018]
ATGCACACAAACTTAGCTAGCATTCTTCGCCAAGCTGATATTATTAGCGAAGAACATGAGCAAGCTATAGTCGAACGCAT
TGAAAGCTCTGGGGGAAGTGTCCCCGGAGCTATTCTTGCCCTCGACATTCTTCCCTCTTTTGAGCTGACTCAGCATATTG
CTGAGATTTTTGGTTTATCGGTCATCGAAACCAACCAATACGATTATACTCAGCTCTGTGAGCAGTTAGGACTTCGAGAC
TTAATCACCCGTTATAACGCGTTACCCGTTGAATCCACTAATAACACGCTTTTTATTGCTCTATCGGACCCTACAGTGGT
TGAAGCGGAAGAAGAATTTCGCTTTGCAACTAACCAACAAGTAGAAATATTGCTTTGTGATGAAAGGGAGCTTACTAGCT
GTATTCGTCGTATGTACGGCAAAAATCGAGTCGATAGTAGAAATGCCGGGAAAGAGATCACTCAGGATGAACTCGCAGAT
CTGGTTGAAATCAGTGACGATGAATTTGAAGCCGCTGAAGATTTGAGCCTTGATGATGCACCTGTGAGCCGTTTTATCCA
TCAGGTTCTTCTGGACGCGGTACGTAAAGGTGCATCGGATATTCACTTCGAGCCTTACGAAGACACCTATCGTATTCGCA
TGCGATGCGATGGAATACTGATTCAGGCTAATAGCCCTGCTCCACAGCTCGGACGACGTTTGGCTGCCAGACTTAAAATT
TTGTCCAAACTTGATATTGCAGAACGCCGGCTTCCACAAGATGGTCGTATCAAACTCAGGCTAAGCGAAAAAGCCGCCAT
CGATCTACGTGTATCCACACTGCCTACTTTGTGGGGAGAGAAGGTGGTACTGCGGTTATTGGACAGCAGCAGTGCTAATT
TAAACATAGATATGCTTGGTTACAGTGCTGAGCAAAAAGCCCTTTATTTAGAAGCTTTACGCCGCCCCCAAGGAATGATT
CTGATGACAGGACCTACCGGCAGTGGTAAGACCGTATCCTTGTACACTGGGTTAAGTATCCTCAACACTGTGGAAAGAAA
TATCTCCACAGCCGAAGACCCTGTCGAAATCAACCTTGCCGGAATCAATCAGGTTCAGGTTAGCCCTAAGATTGGGTTTA
CCTTTGCCGCAGCACTTAAGTCCTTTCTTCGACAAGACCCGGATATTGTAATGCTTGGTGAAATTCGAGATTTCGAAACC
GCGGAAATTGCCATCAAGGCAGCGCAAACAGGTCACTTGGTGCTTTCAACATTACATACCAATTCTGCAGCCGAAACCGT
TATTCGACTTGGTAATATGGGAGTTGAACCGTACAACTTAGCCTCATCTCTGAGCCTCATTATTGCTCAGAGGCTCGCAA
GGCGACTGTGCTCGCATTGCAAACAACCCCATCAATTACCTTCTGCTGTATTGGAAAAACATTTAATCCCAGAAGACACC
ACCATTTATCAAGCTTCTGCTGAAGGCTGCGCAGACTGCAATGCGGGTTATAGCGGGCGTATAGGGATTTATGAAGTCAT
GCCGTTTGATGCTGATATGCAACAAGCCATTTCTTACAAAGCGAGCATTGTAGAGATAGAAAACCTTGCCGTTAAAAATG
GCATGAAAACATTAAGCCAGTCTGGAATTGAGATCCTCAAACAAGGAATAACCAGTTATCAAGAACTCCAACGCGTTCTG
TATCTGTAA

Domains

Predicted by InterproScan.

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

(48-142)

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 Vibrio cholerae strain A1552

68.917

100

0.69
  pilB Vibrio campbellii strain DS40M4

66.37

100

0.664
  pilB Vibrio parahaemolyticus RIMD 2210633

65.719

100

0.658
  pilB Acinetobacter baumannii D1279779

51.44

92.705

0.477
  pilB Acinetobacter baylyi ADP1

50.677

91.993

0.466
  pilB Legionella pneumophila strain ERS1305867

46.835

98.399

0.461
  pilF Neisseria gonorrhoeae MS11

45.567

100

0.457
  pilB/pilB1 Synechocystis sp. PCC 6803

34.891

100

0.372
  pilF Thermus thermophilus HB27

36.879

100

0.37

Multiple sequence alignment