Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   P6988_RS05240 Genome accession   NZ_CP120719
Coordinates   1080375..1082021 (-) Length   548 a.a.
NCBI ID   WP_277684724.1    Uniprot ID   -
Organism   Vibrio coralliilyticus strain Rb102     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1075375..1087021
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  P6988_RS05210 (P6988_05210) rplS 1076004..1076357 (+) 354 WP_006958143.1 50S ribosomal protein L19 -
  P6988_RS05215 (P6988_05215) yacG 1076603..1076797 (-) 195 WP_277684722.1 DNA gyrase inhibitor YacG -
  P6988_RS05220 (P6988_05220) zapD 1076849..1077589 (-) 741 WP_006958141.1 cell division protein ZapD -
  P6988_RS05225 (P6988_05225) coaE 1077623..1078231 (-) 609 WP_043009232.1 dephospho-CoA kinase -
  P6988_RS05230 (P6988_05230) pilD 1078233..1079102 (-) 870 WP_064488045.1 prepilin peptidase Machinery gene
  P6988_RS05235 (P6988_05235) - 1079152..1080366 (-) 1215 WP_277684723.1 type II secretion system F family protein -
  P6988_RS05240 (P6988_05240) pilB 1080375..1082021 (-) 1647 WP_277684724.1 type IV-A pilus assembly ATPase PilB Machinery gene
  P6988_RS05245 (P6988_05245) - 1082024..1082464 (-) 441 WP_171347462.1 pilin -
  P6988_RS05250 (P6988_05250) nadC 1082692..1083579 (-) 888 WP_038163308.1 carboxylating nicotinate-nucleotide diphosphorylase -
  P6988_RS05255 (P6988_05255) ampD 1083711..1084256 (+) 546 WP_171347464.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  P6988_RS05260 (P6988_05260) fldB 1084383..1084904 (-) 522 WP_277684948.1 flavodoxin FldB -
  P6988_RS05265 (P6988_05265) xerD 1085068..1085964 (+) 897 WP_277684949.1 site-specific tyrosine recombinase XerD -
  P6988_RS05270 (P6988_05270) - 1086005..1086757 (+) 753 WP_277684725.1 thioredoxin fold domain-containing protein -

Sequence

Protein


Download         Length: 548 a.a.        Molecular weight: 60703.07 Da        Isoelectric Point: 4.8040

>NTDB_id=808305 P6988_RS05240 WP_277684724.1 1080375..1082021(-) (pilB) [Vibrio coralliilyticus strain Rb102]
MSELPFLLKKANKISEEQALQAISATETRQIEAYSALLEISDLTSKQLTAAISELYALPILSLDDFDYRTCCEQLGIGDL
IRSHTALPLEVERQHLTLALADPSISEIEQEFRFATGLAIKLVLAELPTLARAINNLYGAQSASDSLGYKEVSALDLEQL
VEAEEHELIDSEDLNHDSSPISRYIQQILLDAVRKQASDIHFEPHESWFRVRFRCDGLLVEVQRPPQHLCQRLTARLKIL
AKLDIAERRLPQDGRITLNVTQTDSIDIRVSTLPTIWGEKIVLRLLDNRMTSFDLSSLGYNHIQNESYRQALTKPQGLIL
ITGPTGSGKTLSLYSGLNIINQNEINIATAEDPVEIHLTGINQVQIQPQIGFDFAQALRAFLRQDPDVVMVGEIRDRETA
EIATKAAQTGHLVLSTLHTNSAAEAILRLQNMGIEAFNLAASLSLIIAQRLIRCLCPQCKRPTKTQTGHCEASSEGCQDC
NQGYSGRTGIYEVLTVTPEIAQAINDGATANQIEDLAIQQGMQTLPHSGLEKLAQGLTSKEELQRVLF

Nucleotide


Download         Length: 1647 bp        

>NTDB_id=808305 P6988_RS05240 WP_277684724.1 1080375..1082021(-) (pilB) [Vibrio coralliilyticus strain Rb102]
ATGAGTGAACTGCCCTTCTTGCTAAAAAAAGCCAATAAAATTAGTGAAGAACAAGCCCTGCAAGCAATATCAGCTACAGA
AACCCGACAAATTGAGGCGTATTCTGCTCTGCTAGAGATTAGTGACCTGACATCCAAACAGCTGACAGCAGCTATCAGTG
AACTCTATGCTCTCCCTATCTTGTCGTTAGATGACTTCGATTATCGAACTTGTTGCGAGCAGCTCGGCATTGGCGACTTA
ATTCGCAGCCACACGGCACTGCCACTAGAAGTAGAGCGACAACATCTTACTCTAGCGCTCGCCGATCCTTCCATTTCCGA
GATAGAACAAGAATTTCGTTTTGCAACTGGCCTAGCAATCAAACTCGTATTGGCCGAGTTACCGACTTTAGCCCGTGCGA
TAAACAACCTATATGGAGCTCAAAGCGCCAGTGACTCTTTAGGCTACAAAGAGGTTAGCGCCCTAGACCTTGAACAGTTA
GTCGAAGCTGAAGAACATGAATTAATAGACAGTGAGGATCTCAATCACGATAGCTCGCCAATCAGTCGCTATATCCAGCA
GATACTGCTGGATGCCGTACGTAAGCAAGCTTCTGATATCCATTTTGAACCTCATGAATCATGGTTTCGCGTCAGGTTTC
GTTGTGATGGCTTGCTTGTTGAAGTGCAGCGACCTCCTCAGCACTTATGCCAAAGGTTAACCGCCAGACTCAAAATCCTC
GCTAAGCTGGACATCGCCGAGCGCAGACTCCCGCAAGATGGCCGTATCACTCTCAATGTGACTCAAACTGATTCTATCGA
CATACGTGTATCGACTCTGCCCACCATATGGGGTGAAAAAATTGTCCTTAGATTGCTCGACAACAGAATGACCAGCTTTG
ACTTAAGCAGCCTTGGCTACAATCACATTCAAAACGAAAGCTATCGTCAGGCGCTGACCAAGCCTCAGGGACTCATTCTA
ATCACTGGCCCCACGGGGAGCGGTAAGACTCTGTCTTTATACAGTGGACTTAACATCATCAATCAGAATGAGATCAACAT
CGCGACGGCAGAAGATCCCGTAGAGATTCACCTAACTGGAATCAATCAGGTGCAAATTCAACCTCAAATCGGCTTTGATT
TCGCTCAGGCACTCAGAGCCTTTCTACGTCAGGATCCCGATGTGGTTATGGTGGGTGAAATTCGCGATCGAGAAACTGCC
GAGATAGCCACCAAAGCGGCTCAAACAGGCCATTTAGTCCTTTCAACACTCCATACCAACTCAGCAGCAGAAGCTATTCT
TCGCCTCCAGAATATGGGAATAGAAGCTTTCAACCTTGCTGCTTCTCTTAGCCTCATCATTGCCCAGCGTTTAATCAGAT
GCCTATGCCCTCAATGCAAGCGCCCTACAAAAACCCAGACTGGCCACTGCGAAGCTTCTTCTGAAGGTTGTCAGGACTGC
AACCAAGGCTACTCAGGACGAACTGGTATTTATGAAGTACTCACAGTGACACCTGAAATTGCGCAAGCTATTAACGACGG
CGCCACAGCTAACCAGATTGAGGACTTAGCGATACAACAAGGCATGCAAACATTACCGCACTCGGGCTTAGAAAAATTGG
CCCAAGGTCTCACCAGTAAGGAAGAACTGCAGCGAGTGCTGTTCTAG

Domains

Predicted by InterproScan.

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

(42-142)

Type II/IV secretion system protein (T2SSE)

(187-453)


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

56.071

100

0.573
  pilB Vibrio parahaemolyticus RIMD 2210633

56.093

100

0.571
  pilB Vibrio campbellii strain DS40M4

55.814

100

0.569
  pilB Legionella pneumophila strain ERS1305867

47.217

95.073

0.449
  pilB Acinetobacter baylyi ADP1

46.008

95.985

0.442
  pilB Acinetobacter baumannii D1279779

44.362

98.723

0.438
  pilF Neisseria gonorrhoeae MS11

42.035

95.073

0.4
  pilB Haemophilus influenzae Rd KW20

44.017

85.401

0.376
  pilB Haemophilus influenzae 86-028NP

43.376

85.401

0.37
  pilB Glaesserella parasuis strain SC1401

40.909

88.321

0.361