Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   GGC04_RS13890 Genome accession   NZ_CP046065
Coordinates   3022500..3024146 (+) Length   548 a.a.
NCBI ID   WP_006958137.1    Uniprot ID   -
Organism   Vibrio sp. THAF191d     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3017500..3029146
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GGC04_RS13860 (GGC04_14005) - 3017765..3018517 (-) 753 WP_006958128.1 thioredoxin fold domain-containing protein -
  GGC04_RS13865 (GGC04_14010) xerD 3018557..3019453 (-) 897 WP_031343348.1 site-specific tyrosine recombinase XerD -
  GGC04_RS13870 (GGC04_14015) fldB 3019617..3020138 (+) 522 WP_038163561.1 flavodoxin FldB -
  GGC04_RS13875 (GGC04_14020) ampD 3020265..3020810 (-) 546 WP_006958131.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  GGC04_RS13880 (GGC04_14025) nadC 3020942..3021829 (+) 888 WP_006958132.1 carboxylating nicotinate-nucleotide diphosphorylase -
  GGC04_RS13885 (GGC04_14030) - 3022057..3022497 (+) 441 WP_031343346.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  GGC04_RS13890 (GGC04_14035) pilB 3022500..3024146 (+) 1647 WP_006958137.1 type IV-A pilus assembly ATPase PilB Machinery gene
  GGC04_RS13895 (GGC04_14040) - 3024155..3025369 (+) 1215 WP_039951277.1 type II secretion system F family protein -
  GGC04_RS13900 (GGC04_14045) pilD 3025419..3026288 (+) 870 WP_006958139.1 A24 family peptidase Machinery gene
  GGC04_RS13905 (GGC04_14050) coaE 3026290..3026898 (+) 609 WP_006958140.1 dephospho-CoA kinase -
  GGC04_RS13910 (GGC04_14055) zapD 3026932..3027672 (+) 741 WP_006958141.1 cell division protein ZapD -
  GGC04_RS13915 (GGC04_14060) yacG 3027724..3027918 (+) 195 WP_006958142.1 DNA gyrase inhibitor YacG -
  GGC04_RS13920 (GGC04_14065) rplS 3028186..3028539 (-) 354 WP_006958143.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 548 a.a.        Molecular weight: 60843.25 Da        Isoelectric Point: 4.7547

>NTDB_id=400859 GGC04_RS13890 WP_006958137.1 3022500..3024146(+) (pilB) [Vibrio sp. THAF191d]
MSELPFLLKKAYKISEEQALQAISATETRQIEAYSALLEISDLTSKQLTAAISELYALPIVSLDDFDYRTCCEQLGIGDL
IRSHTALPLEVERQHLTLALADPSISEIEQEFRFATGLAIKLVLAELPTLARAINNLYGAQSASDSLGYKEVSVLDLEQL
VEAEEHELIDSEDLNHDSSPISRYIQQILLDAVRKQASDIHFEPHESWFRVRFRCDGLLVEVQRPPQHLCQRLTARLKIL
AKLDIAERRLPQDGRITLNVTQTDSIDIRVSTLPTIWGEKIVLRLLDNRMTSFDLSSLGYNHIQSESYRQALTKPQGLIL
ITGPTGSGKTLSLYSGLNIINQNEINIATAEDPVEIHLTGINQVQIQPQIGFDFAQALRAFLRQDPDVVMVGEIRDRETA
EIATKAAQTGHLVLSTLHTNSAAEAILRLQNMGIEAFNLAASLSLIIAQRLIRCLCPQCKRPTKVQTGQYEASSEGCQDC
NQGYSGRTGIYEVLTVTPEIAQAINDDATAHQIEDLAIQQGMQTLPHSGLEKLAQGITSQAELQRMLF

Nucleotide


Download         Length: 1647 bp        

>NTDB_id=400859 GGC04_RS13890 WP_006958137.1 3022500..3024146(+) (pilB) [Vibrio sp. THAF191d]
ATGAGTGAACTGCCCTTCTTGCTAAAAAAAGCCTATAAAATTAGTGAAGAACAAGCCCTGCAAGCAATATCAGCTACAGA
AACCCGACAAATTGAGGCGTATTCTGCTCTGCTAGAGATTAGTGACCTGACATCCAAACAGCTGACAGCAGCTATCAGTG
AGCTCTATGCTCTCCCCATCGTGTCGTTAGATGACTTCGATTATCGAACTTGTTGCGAGCAGCTCGGCATTGGCGACTTA
ATTCGCAGCCACACGGCACTGCCACTAGAAGTAGAGCGACAACATCTTACTCTAGCGCTCGCTGATCCTTCCATTTCCGA
GATAGAACAAGAATTTCGTTTTGCAACTGGCCTAGCAATCAAACTCGTATTGGCCGAGTTACCGACTTTAGCCCGTGCGA
TAAACAACCTATATGGAGCTCAAAGCGCCAGTGACTCTTTAGGCTACAAAGAGGTTAGCGTCCTAGACCTTGAACAATTA
GTCGAAGCTGAAGAACATGAATTAATAGACAGTGAGGATCTCAATCACGATAGCTCGCCAATCAGTCGCTATATCCAGCA
GATACTGCTGGATGCCGTACGTAAGCAAGCTTCTGATATCCATTTTGAACCTCATGAATCATGGTTTCGCGTCCGGTTTC
GTTGTGATGGCTTGCTTGTTGAAGTGCAGCGACCTCCTCAGCACCTATGCCAAAGGTTAACCGCCAGACTAAAAATCCTC
GCTAAGCTGGACATCGCCGAGCGCAGACTCCCGCAAGATGGTCGTATCACTCTCAATGTGACTCAAACTGATTCTATCGA
CATACGTGTATCGACTCTGCCTACCATATGGGGTGAAAAAATTGTCCTTAGATTGCTCGACAACAGAATGACCAGCTTTG
ACTTAAGCAGCCTTGGCTACAATCACATTCAAAGCGAAAGCTATCGTCAGGCACTAACCAAGCCTCAGGGACTAATTCTA
ATCACTGGCCCCACGGGAAGCGGTAAGACTCTGTCTTTATACAGTGGACTTAACATCATCAATCAGAATGAGATCAACAT
CGCGACGGCAGAGGACCCCGTAGAGATTCACCTAACAGGAATCAATCAGGTGCAAATTCAACCTCAAATCGGCTTTGATT
TCGCTCAGGCACTCAGAGCCTTTCTACGTCAGGATCCCGATGTGGTTATGGTGGGTGAAATTCGCGATCGAGAAACTGCC
GAGATAGCCACCAAAGCGGCTCAAACAGGCCATTTAGTCCTTTCAACACTCCATACCAACTCAGCAGCAGAAGCTATTCT
TCGCCTCCAGAATATGGGAATAGAAGCTTTCAACCTTGCTGCTTCTCTTAGCCTCATCATTGCTCAGCGTTTGATCAGGT
GCCTATGCCCTCAATGCAAGCGCCCTACAAAAGTCCAGACAGGTCAATATGAGGCTTCTTCTGAAGGTTGTCAGGACTGC
AACCAAGGCTACTCAGGACGAACTGGTATTTATGAAGTACTCACAGTGACACCTGAAATTGCGCAAGCTATTAACGACGA
CGCCACAGCTCACCAGATTGAGGACTTAGCGATACAACAAGGCATGCAAACATTACCGCACTCGGGCTTAGAAAAATTGG
CCCAAGGTATCACTAGTCAGGCAGAACTGCAGCGAATGCTGTTCTAG

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(187-453)

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

(42-142)


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

56.607

100

0.578
  pilB Vibrio parahaemolyticus RIMD 2210633

56.987

100

0.573
  pilB Vibrio campbellii strain DS40M4

55.814

100

0.569
  pilB Acinetobacter baylyi ADP1

46.008

95.985

0.442
  pilB Acinetobacter baumannii D1279779

44.732

98.723

0.442
  pilB Legionella pneumophila strain ERS1305867

46.449

95.073

0.442
  pilF Neisseria gonorrhoeae MS11

41.843

95.073

0.398
  pilB Haemophilus influenzae Rd KW20

44.017

85.401

0.376
  pilB Haemophilus influenzae 86-028NP

43.376

85.401

0.37
  pilF Thermus thermophilus HB27

38.33

96.168

0.369

Multiple sequence alignment