Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   C7Y67_RS02725 Genome accession   NZ_CP028342
Coordinates   526798..528483 (-) Length   561 a.a.
NCBI ID   WP_057619577.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus isolate R13     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 521798..533483
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  C7Y67_RS02695 (C7Y67_02695) rplS 522295..522648 (+) 354 WP_005379971.1 50S ribosomal protein L19 -
  C7Y67_RS02700 (C7Y67_02700) yacG 522970..523164 (-) 195 WP_031845920.1 DNA gyrase inhibitor YacG -
  C7Y67_RS02705 (C7Y67_02705) zapD 523233..523973 (-) 741 WP_015297254.1 cell division protein ZapD -
  C7Y67_RS02710 (C7Y67_02710) coaE 524001..524615 (-) 615 WP_005480887.1 dephospho-CoA kinase -
  C7Y67_RS02715 (C7Y67_02715) pilD 524616..525485 (-) 870 WP_057619578.1 A24 family peptidase Machinery gene
  C7Y67_RS02720 (C7Y67_02720) pilC 525550..526773 (-) 1224 WP_005462561.1 type II secretion system F family protein Machinery gene
  C7Y67_RS02725 (C7Y67_02725) pilB 526798..528483 (-) 1686 WP_057619577.1 type IV-A pilus assembly ATPase PilB Machinery gene
  C7Y67_RS02730 (C7Y67_02730) - 528489..528947 (-) 459 WP_025547614.1 pilin -
  C7Y67_RS02735 (C7Y67_02735) nadC 529211..530098 (-) 888 WP_025547616.1 carboxylating nicotinate-nucleotide diphosphorylase -
  C7Y67_RS02740 (C7Y67_02740) ampD 530191..530742 (+) 552 WP_005484832.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  C7Y67_RS02745 (C7Y67_02745) pdhR 531148..531915 (+) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62461.32 Da        Isoelectric Point: 5.4069

>NTDB_id=284256 C7Y67_RS02725 WP_057619577.1 526798..528483(-) (pilB) [Vibrio parahaemolyticus isolate R13]
MLTNLSTVLRQKGLLTFFQEESLIEQVKASGISMPEALLSSGFFTSSELAEHLSSIFSLSQPELSQYEYASLCQQLGLRE
LITRHNALPLHRTPSTLLLAVADPTNQQAEDDFRFATGLQVELVLADFRQLSAAIRRLYGRSLNNEKSGLKEINQEELAS
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLNILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLDIQTTDN
IFKANPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=284256 C7Y67_RS02725 WP_057619577.1 526798..528483(-) (pilB) [Vibrio parahaemolyticus isolate R13]
ATGCTAACCAACCTCTCCACGGTTCTTCGCCAAAAAGGGTTACTGACTTTTTTCCAAGAAGAATCGTTAATAGAGCAAGT
TAAAGCTTCTGGCATCTCGATGCCGGAAGCTTTACTCAGTTCTGGATTCTTCACATCAAGCGAACTGGCCGAGCACTTAA
GTTCTATTTTTAGCTTAAGTCAGCCCGAGTTATCTCAATATGAATATGCTTCGCTTTGCCAACAGCTCGGCCTACGTGAA
TTAATCACACGACATAATGCACTCCCACTCCACCGTACCCCTTCAACTTTATTATTAGCGGTTGCCGACCCCACTAATCA
ACAAGCTGAAGATGATTTTCGCTTTGCCACTGGGTTACAGGTTGAATTGGTGTTGGCGGATTTTCGTCAACTCAGCGCGG
CAATTCGACGCTTATATGGTCGTTCATTGAATAATGAAAAGTCTGGGTTAAAAGAGATCAACCAAGAAGAACTAGCGAGT
CTGGTGGATGTCGGTGCAGATGAAATCGACAATATCGAAGACTTGAGCCAAGACGAATCTCCTGTTAGCCGTTACATCAA
CCAAATTCTGTTGGACGCTGTGCGCAAAGGCGCATCCGATATCCACTTTGAACCTTATGAAAAGATGTACCGAGTTCGTT
TACGTTGCGATGGCATTTTGATCGAAACTCAGCAACCGCCAAATCACTTGAGTCGTCGCTTATCAGCTCGTATAAAAATT
CTCTCTAAACTTGATATTGCCGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACCGCGAT
TGATATGCGGGTATCCACTCTACCTACCTTGTTTGGAGAGAAGATCGTACTACGACTGCTCGATAGCAGCTCTGCATCAC
TGGATATCGACAAGCTTGGTTATAGTGAGCAACAAAAACAGCTGTATTTAGAAGCTCTGCGTCGTCCACAAGGTATGATT
CTGATGACAGGCCCAACAGGAAGCGGCAAAACCGTTTCGTTGTACACTGGATTAAATATTCTCAATAAACCAGAGATCAA
TATATCCACAGCAGAGGATCCTGTGGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAACCTAAGATTGGTTTTG
GCTTTGCAGAAGCACTACGCTCTTTCCTGCGTCAAGATCCCGACGTGGTCATGGTGGGTGAGATTCGAGACCTAGATACT
GCGGAAATCGCCATCAAGGCGTCCCAAACCGGTCACTTAGTGCTCTCTACTTTGCATACCAACTCTGCAGCTGAAACCAT
CATTCGCTTATCAAACATGGGCGTGGAAAGTTTTAACCTCGCCTCTTCGCTTAGTTTGATTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAAACAACCGCAAGAGCATACCGTTCAACTTCAGCACCTCGACATCCAAACAACTGACAAC
ATTTTTAAAGCAAACCCAGATGGTTGCAACGAATGTACCCATGGTTATTCTGGCCGAACAGGTATCTATGAAGTCATGCG
CTTTGATGAATCTCTATCCGAAGCTCTTATTAAAGGAGCCTCGGTACATGAACTGGAAAAGCTTGCTATTGCGAACGGCA
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)

(38-142)


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 parahaemolyticus RIMD 2210633

98.039

100

0.98
  pilB Vibrio campbellii strain DS40M4

90.374

100

0.904
  pilB Vibrio cholerae strain A1552

73.843

100

0.74
  pilB Acinetobacter baumannii D1279779

50.933

95.544

0.487
  pilB Acinetobacter baylyi ADP1

48.208

99.465

0.48
  pilB Legionella pneumophila strain ERS1305867

48.799

96.435

0.471
  pilF Neisseria gonorrhoeae MS11

45.035

100

0.453
  pilB/pilB1 Synechocystis sp. PCC 6803

37.081

100

0.394
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.508

100

0.369
  pilF Thermus thermophilus HB27

36.909

98.039

0.362

Multiple sequence alignment