Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   NR793_RS11360 Genome accession   NZ_CP102434
Coordinates   627474..629159 (-) Length   561 a.a.
NCBI ID   WP_005479695.1    Uniprot ID   A0A0L8T4E0
Organism   Vibrio parahaemolyticus strain RMDVP1     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 622474..634159
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NR793_RS11330 (NR793_11355) rplS 622899..623252 (+) 354 WP_005462554.1 50S ribosomal protein L19 -
  NR793_RS11335 (NR793_11360) yacG 623647..623841 (-) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  NR793_RS11340 (NR793_11365) zapD 623910..624650 (-) 741 WP_005480890.1 cell division protein ZapD -
  NR793_RS11345 (NR793_11370) coaE 624678..625292 (-) 615 WP_005480887.1 dephospho-CoA kinase -
  NR793_RS11350 (NR793_11375) pilD 625293..626162 (-) 870 WP_005490359.1 A24 family peptidase Machinery gene
  NR793_RS11355 (NR793_11380) pilC 626227..627450 (-) 1224 WP_005479682.1 type II secretion system F family protein Machinery gene
  NR793_RS11360 (NR793_11385) pilB 627474..629159 (-) 1686 WP_005479695.1 type IV-A pilus assembly ATPase PilB Machinery gene
  NR793_RS11365 (NR793_11390) pilA 629169..629588 (-) 420 WP_005479693.1 pilin Machinery gene
  NR793_RS11370 (NR793_11395) nadC 629851..630738 (-) 888 WP_005479699.1 carboxylating nicotinate-nucleotide diphosphorylase -
  NR793_RS11375 (NR793_11400) ampD 630831..631382 (+) 552 WP_005479703.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  NR793_RS11380 (NR793_11405) pdhR 631788..632555 (+) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62392.18 Da        Isoelectric Point: 5.6538

>NTDB_id=716969 NR793_RS11360 WP_005479695.1 627474..629159(-) (pilB) [Vibrio parahaemolyticus strain RMDVP1]
MHSNLSTILRQKGLLTFSQEESLIEQVKASGISMPEALLSSGFFTSSELAEHLSSIFGLSQPELSQYEYASLCQQLGLRE
LITRHNALPLHRTPSTLLLAVADPTNQQAEDDFRFATGLQVELVLADFRELSTAIRRLYGRSLSHEKSGLKEINQEELAS
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLNILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLGIQTTDN
IFRANPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=716969 NR793_RS11360 WP_005479695.1 627474..629159(-) (pilB) [Vibrio parahaemolyticus strain RMDVP1]
ATGCACTCCAACCTCTCCACGATTCTTCGTCAAAAAGGATTACTGACGTTTTCCCAAGAAGAATCGTTAATAGAGCAAGT
TAAAGCTTCTGGCATCTCGATGCCGGAAGCTTTACTCAGTTCTGGATTCTTCACATCAAGCGAACTGGCCGAGCACTTAA
GTTCTATTTTTGGCCTAAGTCAGCCCGAGTTATCTCAATATGAATATGCTTCGCTTTGCCAACAGCTCGGCCTACGTGAA
TTAATCACACGACATAATGCACTCCCACTCCACCGTACTCCTTCAACTTTATTATTAGCGGTTGCCGACCCCACGAATCA
ACAAGCTGAAGATGATTTCCGCTTTGCCACTGGTTTACAGGTTGAGTTGGTGTTGGCGGATTTTCGCGAACTCAGTACAG
CAATTCGACGCTTATATGGTCGTTCATTGAGTCATGAAAAGTCTGGGTTAAAAGAGATCAACCAAGAAGAACTAGCGAGT
CTGGTGGATGTCGGTGCAGATGAAATCGACAATATCGAAGACTTGAGCCAAGACGAATCTCCTGTTAGCCGTTACATCAA
CCAAATTCTGTTGGACGCTGTACGCAAAGGCGCATCCGATATCCACTTTGAACCTTATGAAAAGATGTACCGAGTTCGTC
TACGTTGCGATGGCATTTTGATCGAAACTCAGCAACCGCCAAATCACTTGAGTCGTCGCTTATCAGCTCGTATAAAAATT
CTCTCTAAACTTGATATTGCCGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACCGCGAT
TGATATGCGGGTATCCACTCTACCTACCTTGTTTGGAGAGAAGATCGTACTACGACTGCTCGATAGCAGCTCTGCATCAC
TGGATATCGACAAGCTTGGTTATAGTGAGCAACAAAAACAGCTGTATTTAGAGGCTCTGCGTCGTCCACAAGGTATGATT
CTGATGACAGGTCCAACAGGAAGCGGCAAAACCGTTTCGTTGTACACTGGGCTAAATATTCTCAATAAACCAGAGATCAA
CATCTCCACAGCGGAAGACCCAGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAACCTAAGATTGGTTTTG
GCTTTGCAGAAGCACTACGTTCTTTTCTGCGTCAAGATCCCGATGTGGTCATGGTGGGTGAAATTCGAGACCTAGATACT
GCGGAAATCGCCATCAAGGCTTCCCAAACCGGTCACTTAGTGCTCTCTACTTTGCATACCAACTCTGCGGCTGAAACCAT
CATTCGTTTATCAAACATGGGCGTAGAAAGTTTTAACCTCGCCTCTTCTCTTAGTTTGATTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAAACAACCGCAAGAGCATACCGTTCAACTTCAGCACCTCGGCATTCAAACAACTGACAAC
ATTTTTAGAGCCAATCCAGATGGTTGCAACGAATGCACCCATGGTTATTCTGGCCGAACAGGTATCTATGAAGTCATGCG
CTTTGATGAATCTCTATCCGAAGCTCTTATTAAAGGAGCCTCGGTACATGAACTGGAAAAGCTTGCCATTGCGAACGGCA
TGAGCACCTTGCAAATGTCCGGAATAGAAAAACTCAAACAAGGCATCACAAGCTTTAGTGAGTTACAACGAGTGCTCTAT
TTCTAA

Domains

Predicted by InterproScan.

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

(38-144)

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
  AlphaFold DB A0A0L8T4E0

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

100

100

1
  pilB Vibrio campbellii strain DS40M4

90.374

100

0.904
  pilB Vibrio cholerae strain A1552

73.665

100

0.738
  pilB Acinetobacter baumannii D1279779

51.698

94.474

0.488
  pilB Acinetobacter baylyi ADP1

48.115

99.287

0.478
  pilB Legionella pneumophila strain ERS1305867

48.98

96.078

0.471
  pilF Neisseria gonorrhoeae MS11

45.39

100

0.456
  pilB/pilB1 Synechocystis sp. PCC 6803

37.099

100

0.392
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.861

100

0.373
  pilF Thermus thermophilus HB27

36.396

100

0.367