Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   VIBNI_RS00880 Genome accession   NC_022528
Coordinates   174515..176203 (-) Length   562 a.a.
NCBI ID   WP_022549577.1    Uniprot ID   -
Organism   Vibrio nigripulchritudo     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 169515..181203
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VIBNI_RS00845 (VIBNI_A0168) rplS 169654..170007 (+) 354 WP_004408890.1 50S ribosomal protein L19 -
  VIBNI_RS00850 (VIBNI_A0169) mutT 170195..170596 (+) 402 WP_004408891.1 8-oxo-dGTP diphosphatase MutT -
  VIBNI_RS00855 (VIBNI_A0170) yacG 170683..170877 (-) 195 WP_022549572.1 DNA gyrase inhibitor YacG -
  VIBNI_RS00860 (VIBNI_A0171) zapD 170934..171674 (-) 741 WP_022549573.1 cell division protein ZapD -
  VIBNI_RS00865 (VIBNI_A0172) coaE 171708..172313 (-) 606 WP_022549574.1 dephospho-CoA kinase -
  VIBNI_RS00870 (VIBNI_A0173) pilD 172363..173232 (-) 870 WP_022549575.1 A24 family peptidase Machinery gene
  VIBNI_RS00875 (VIBNI_A0174) pilC 173273..174505 (-) 1233 WP_022549576.1 type II secretion system F family protein Machinery gene
  VIBNI_RS00880 (VIBNI_A0175) pilB 174515..176203 (-) 1689 WP_022549577.1 type IV-A pilus assembly ATPase PilB Machinery gene
  VIBNI_RS00885 (VIBNI_A0176) pilA 176203..176661 (-) 459 WP_022601072.1 prepilin-type N-terminal cleavage/methylation domain-containing protein Machinery gene
  VIBNI_RS00890 (VIBNI_A0177) nadC 176939..177826 (-) 888 WP_022549579.1 carboxylating nicotinate-nucleotide diphosphorylase -
  VIBNI_RS00895 (VIBNI_A0178) ampD 177955..178512 (+) 558 WP_022549580.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  VIBNI_RS00900 (VIBNI_A0180) pdhR 178825..179595 (+) 771 WP_004397664.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 562 a.a.        Molecular weight: 62131.91 Da        Isoelectric Point: 4.7906

>NTDB_id=62564 VIBNI_RS00880 WP_022549577.1 174515..176203(-) (pilB) [Vibrio nigripulchritudo]
MHTNLASILRQADIISEEHEQAIVDRIESSGGSVPGAILALGILPSFELTQHIAEIFGLSVIETNQYDYAQLCEQLGLRD
LITRYNALPVESTNNTLFIALSDPTVVEAEEEFRFATNQQVEILLCDERELTSCIRRMYGKNRVDSRNAGKEITQDELAD
LVEISDDEFEAAEDLSLDDAPVSRFIHQVLLDAVRKGASDIHFEPYEDTYRIRMRCDGILIQANSPAPQLGRRLAARLKI
LSKLDIAERRLPQDGRIKLRLSEKAAIDLRVSTLPTLWGEKVVLRLLDSSSANLNIDMLGYSEQQKALYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNTVERNISTAEDPVEINLAGINQVQVSPKIGFTFAAALKSFLRQDPDIVMLGEIRDFET
AEIAIKAAQTGHLVLSTLHTNSAAETVIRLGNMGVEPYNLASSLSLIIAQRLARRLCSHCKQPHQLPSAVLEKHLIPEDT
TIYQASAEGCADCNAGYSGRIGIYEVMPFDADMQQAISHKASIVEIESLAVKNGMKTLSQSGIEILKQGITSYQELQRVL
YL

Nucleotide


Download         Length: 1689 bp        

>NTDB_id=62564 VIBNI_RS00880 WP_022549577.1 174515..176203(-) (pilB) [Vibrio nigripulchritudo]
ATGCATACCAACTTAGCTAGCATTCTTCGCCAAGCTGATATTATTAGCGAAGAACATGAGCAAGCTATAGTCGATCGTAT
AGAGAGCTCCGGGGGCAGTGTCCCCGGAGCTATTCTTGCTCTTGGCATTCTTCCTTCTTTTGAGCTGACTCAGCATATTG
CTGAGATTTTTGGTTTATCGGTCATCGAAACCAACCAATACGATTACGCTCAGCTCTGTGAGCAGTTAGGACTTCGTGAC
CTCATCACTCGTTATAACGCTTTACCCGTTGAATCCACTAATAACACGCTTTTTATTGCTCTATCGGACCCTACAGTGGT
TGAAGCGGAAGAAGAATTTCGCTTTGCAACTAACCAACAAGTAGAAATATTGCTTTGTGATGAAAGGGAGCTTACTAGCT
GTATTCGTCGTATGTACGGCAAAAATCGAGTCGATAGTAGAAATGCGGGGAAAGAGATCACTCAGGATGAACTCGCAGAT
CTGGTTGAAATTAGTGACGATGAATTTGAAGCCGCTGAAGATTTGAGCCTTGATGATGCACCTGTGAGCCGTTTTATCCA
TCAGGTTCTTCTGGACGCGGTACGTAAAGGGGCGTCGGACATTCACTTCGAGCCCTACGAAGACACCTATCGTATTCGCA
TGCGATGCGATGGAATACTGATTCAGGCCAATAGCCCTGCTCCACAGCTTGGAAGGCGTTTGGCTGCCCGACTTAAAATT
CTATCTAAACTTGATATTGCAGAACGCCGGCTTCCACAAGATGGTCGAATCAAACTCAGGCTAAGCGAAAAAGCCGCCAT
CGATCTTCGCGTATCCACACTGCCTACGCTGTGGGGGGAGAAGGTGGTGCTTCGGTTATTGGACAGCAGCAGTGCCAACC
TAAACATAGACATGCTTGGTTACAGTGAGCAGCAAAAAGCTCTTTATTTAGAAGCTTTGCGCCGCCCCCAAGGAATGATT
CTGATGACGGGACCTACTGGCAGTGGTAAGACCGTATCCTTGTACACTGGGTTAAGTATCCTCAACACCGTTGAAAGAAA
CATCTCCACAGCCGAAGACCCTGTCGAAATCAACCTTGCCGGAATCAATCAGGTTCAGGTTAGCCCTAAGATTGGGTTTA
CCTTTGCCGCAGCACTTAAGTCCTTTCTTCGACAAGACCCGGATATTGTAATGCTTGGTGAAATTCGAGATTTCGAAACC
GCGGAAATTGCCATCAAGGCAGCGCAAACAGGTCACTTGGTGCTTTCAACATTACATACCAATTCTGCGGCTGAAACCGT
TATTCGACTCGGTAATATGGGAGTTGAGCCATACAACTTAGCTTCATCTCTGAGCCTCATCATTGCTCAGAGACTCGCAA
GGCGACTGTGCTCGCATTGCAAACAGCCCCATCAGTTACCTTCTGCTGTATTGGAAAAACATTTAATCCCAGAAGACACC
ACTATTTATCAAGCTTCTGCGGAAGGCTGCGCAGACTGCAATGCAGGTTATAGCGGGCGTATAGGCATCTATGAAGTCAT
GCCGTTTGATGCCGATATGCAGCAAGCCATTTCTCACAAAGCGAGTATTGTGGAGATAGAAAGCCTTGCCGTTAAAAATG
GAATGAAAACATTAAGCCAGTCTGGAATTGAGATCCTCAAACAAGGAATAACCAGTTATCAAGAACTCCAACGCGTTCTG
TATCTGTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(188-455)

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

(42-142)


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

69.272

100

0.694
  pilB Vibrio campbellii strain DS40M4

66.548

100

0.665
  pilB Vibrio parahaemolyticus RIMD 2210633

66.252

100

0.664
  pilB Acinetobacter baumannii D1279779

51.631

92.705

0.479
  pilB Acinetobacter baylyi ADP1

50.677

91.993

0.466
  pilF Neisseria gonorrhoeae MS11

45.745

100

0.459
  pilB Legionella pneumophila strain ERS1305867

47.818

93.772

0.448
  pilF Thermus thermophilus HB27

37.057

100

0.372
  pilB/pilB1 Synechocystis sp. PCC 6803

34.725

100

0.37

Multiple sequence alignment