Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   FDP11_RS10675 Genome accession   NZ_CP040100
Coordinates   528033..529718 (-) Length   561 a.a.
NCBI ID   WP_178981808.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain LVP1     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 523033..534718
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  FDP11_RS10645 (FDP11_11440) rplS 523444..523797 (+) 354 WP_005462554.1 50S ribosomal protein L19 -
  FDP11_RS10650 (FDP11_11445) yacG 524206..524400 (-) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  FDP11_RS10655 (FDP11_11450) zapD 524469..525209 (-) 741 WP_023624252.1 cell division protein ZapD -
  FDP11_RS10660 (FDP11_11455) coaE 525237..525851 (-) 615 WP_005480887.1 dephospho-CoA kinase -
  FDP11_RS10665 (FDP11_11460) pilD 525852..526721 (-) 870 WP_178981806.1 A24 family peptidase Machinery gene
  FDP11_RS10670 (FDP11_11465) pilC 526786..528009 (-) 1224 WP_005479682.1 type II secretion system F family protein Machinery gene
  FDP11_RS10675 (FDP11_11470) pilB 528033..529718 (-) 1686 WP_178981808.1 type IV-A pilus assembly ATPase PilB Machinery gene
  FDP11_RS10680 (FDP11_11475) pilA 529724..530143 (-) 420 WP_025442238.1 pilin Machinery gene
  FDP11_RS10685 (FDP11_11480) nadC 530407..531294 (-) 888 WP_025442237.1 carboxylating nicotinate-nucleotide diphosphorylase -
  FDP11_RS10690 (FDP11_11485) ampD 531387..531938 (+) 552 WP_005462574.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  FDP11_RS10695 (FDP11_11490) pdhR 532344..533111 (+) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62354.21 Da        Isoelectric Point: 5.5288

>NTDB_id=362095 FDP11_RS10675 WP_178981808.1 528033..529718(-) (pilB) [Vibrio parahaemolyticus strain LVP1]
MLTNLSTILRQKGLLTFSQEESLIEQVKASGISMPEALLSSGFFTSSELAEHLSSIFGLSQPELSQYEYASLCQQLGLRE
LITRHNALPLHRTPSTLLLAVADPTNQQAEDDFRFATGLQVELVLADFRELSAVIRRLYGRSLSHEKSGLKEINQEELAS
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLNILNKSEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLANMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLGIQTTDN
IFRANPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=362095 FDP11_RS10675 WP_178981808.1 528033..529718(-) (pilB) [Vibrio parahaemolyticus strain LVP1]
ATGTTAACCAACCTCTCCACGATTCTTCGTCAAAAAGGATTACTGACGTTTTCCCAAGAAGAATCGTTAATAGAGCAAGT
TAAAGCTTCTGGCATCTCGATGCCGGAAGCTTTACTCAGTTCTGGATTCTTCACGTCAAGCGAACTGGCCGAGCACTTAA
GTTCTATTTTTGGCTTAAGTCAGCCCGAGTTATCTCAATATGAATATGCTTCTCTTTGCCAACAGCTCGGCCTACGTGAA
TTAATCACACGACATAATGCACTCCCGCTCCACCGTACTCCTTCAACGTTATTGTTAGCGGTTGCCGATCCCACTAATCA
ACAAGCTGAAGATGATTTCCGCTTTGCCACTGGTTTACAGGTTGAATTGGTGTTGGCGGATTTTCGCGAACTCAGTGCAG
TAATTCGACGCTTATATGGTCGTTCATTGAGTCATGAAAAGTCTGGGTTAAAAGAGATCAACCAAGAAGAGCTAGCGAGT
CTGGTGGATGTCGGTGCAGATGAAATCGACAACATCGAAGACTTGAGCCAAGACGAGTCACCCGTTAGCCGTTACATCAA
CCAAATTCTGTTGGATGCTGTGCGTAAAGGCGCATCCGATATCCACTTTGAGCCTTATGAAAAGATGTACCGAGTTCGTC
TACGTTGCGATGGCATTTTGATCGAAACTCAGCAACCGCCAAATCACTTGAGTCGTCGCTTATCAGCTCGTATCAAAATT
CTCTCTAAACTTGATATTGCAGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACTGCGAT
TGATATGCGGGTATCTACGCTACCAACCTTGTTTGGAGAGAAAATCGTACTCCGACTGCTCGATAGCAGCTCTGCATCAC
TAGATATCGACAAGCTTGGTTATAGTGAGCAACAAAAACAACTGTATTTAGAGGCTCTGCGTCGTCCACAAGGTATGATT
CTGATGACAGGCCCAACAGGAAGCGGCAAAACCGTTTCGTTGTACACTGGGTTAAATATTCTCAATAAATCAGAGATCAA
CATCTCCACAGCGGAAGACCCGGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAACCTAAGATTGGTTTTG
GCTTTGCAGAAGCTCTACGTTCTTTTCTGCGTCAAGATCCCGATGTGGTCATGGTGGGTGAGATTCGAGACCTAGATACT
GCGGAAATCGCGATTAAGGCTTCCCAAACCGGTCACTTAGTGCTCTCTACTTTGCATACCAACTCTGCGGCTGAAACCAT
CATTCGTTTAGCAAATATGGGCGTAGAAAGTTTTAACCTCGCCTCTTCTCTTAGTTTGATTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAAACAACCGCAAGAGCATACCGTTCAACTTCAGCACCTCGGCATTCAAACAACTGACAAC
ATTTTTAGAGCCAATCCAGATGGTTGCAACGAATGCACCCATGGTTATTCTGGCCGAACAGGTATCTATGAAGTCATGCG
CTTTGATGAATCTCTATCCGAAGCTCTTATTAAAGGAGCCTCGGTACATGAACTGGAAAAGCTTGCCATTGCGAACGGCA
TGAGCACCTTGCAAATGTCCGGAATAGAAAAACTCAAACAAGGCATCACAAGCTTTAGTGAGTTACAACGCGTGCTCTAT
TTCTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(188-455)

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

(38-144)


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 parahaemolyticus RIMD 2210633

98.93

100

0.989
  pilB Vibrio campbellii strain DS40M4

90.374

100

0.904
  pilB Vibrio cholerae strain A1552

74.377

100

0.745
  pilB Acinetobacter baumannii D1279779

51.887

94.474

0.49
  pilB Acinetobacter baylyi ADP1

48.115

99.287

0.478
  pilB Legionella pneumophila strain ERS1305867

49.165

96.078

0.472
  pilF Neisseria gonorrhoeae MS11

45.39

100

0.456
  pilB/pilB1 Synechocystis sp. PCC 6803

36.379

100

0.383
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.684

100

0.371
  pilF Thermus thermophilus HB27

36.219

100

0.365

Multiple sequence alignment