Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   ACK2V4_RS12005 Genome accession   NZ_CP176646
Coordinates   2611100..2612785 (+) Length   561 a.a.
NCBI ID   WP_021822764.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain GTVSS-031     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2606100..2617785
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ACK2V4_RS11985 (ACK2V4_11985) pdhR 2607684..2608451 (-) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  ACK2V4_RS11990 (ACK2V4_11990) ampD 2608857..2609408 (-) 552 WP_005484832.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  ACK2V4_RS11995 (ACK2V4_11995) nadC 2609501..2610388 (+) 888 WP_062854445.1 carboxylating nicotinate-nucleotide diphosphorylase -
  ACK2V4_RS12000 (ACK2V4_12000) pilA 2610651..2611088 (+) 438 WP_062854444.1 type IV pilin protein Machinery gene
  ACK2V4_RS12005 (ACK2V4_12005) pilB 2611100..2612785 (+) 1686 WP_021822764.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ACK2V4_RS12010 (ACK2V4_12010) pilC 2612809..2614032 (+) 1224 WP_005479682.1 type II secretion system F family protein Machinery gene
  ACK2V4_RS12015 (ACK2V4_12015) pilD 2614097..2614966 (+) 870 WP_062854443.1 prepilin peptidase Machinery gene
  ACK2V4_RS12020 (ACK2V4_12020) coaE 2614967..2615581 (+) 615 WP_062854442.1 dephospho-CoA kinase -
  ACK2V4_RS12025 (ACK2V4_12025) zapD 2615609..2616349 (+) 741 WP_015297254.1 cell division protein ZapD -
  ACK2V4_RS12030 (ACK2V4_12030) yacG 2616418..2616612 (+) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  ACK2V4_RS12035 (ACK2V4_12035) rplS 2617007..2617360 (-) 354 WP_005462554.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62379.22 Da        Isoelectric Point: 5.5288

>NTDB_id=1081917 ACK2V4_RS12005 WP_021822764.1 2611100..2612785(+) (pilB) [Vibrio parahaemolyticus strain GTVSS-031]
MITNLSTVLRQKGLLTLSQEESLFEQIKASGISMPEALLSSGFFTSSELAEHLSSIFGLNQPELSQYEYASLCQQLGLRE
LITRHNALPLHRTPSTLLLAVADPTNQQAEDDFRFATGLQVELVLADFRELSAAIRRLYGRSLSHEKSGLKEINQEELAS
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLNILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLGIQTTDN
IFRANPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=1081917 ACK2V4_RS12005 WP_021822764.1 2611100..2612785(+) (pilB) [Vibrio parahaemolyticus strain GTVSS-031]
GTGATAACCAACCTCTCCACGGTTCTTCGTCAAAAAGGGTTACTGACCTTATCCCAGGAAGAATCGTTATTTGAGCAAAT
CAAAGCTTCTGGCATCTCGATGCCGGAGGCTTTACTCAGTTCTGGATTCTTCACATCAAGCGAACTGGCCGAGCACTTAA
GTTCTATTTTTGGTTTAAACCAGCCAGAGTTATCTCAATATGAATATGCTTCGCTTTGCCAACAGCTCGGCCTACGTGAA
TTAATCACACGACATAACGCACTCCCGCTCCACCGCACGCCTTCAACGTTATTATTAGCGGTTGCCGACCCCACCAATCA
ACAAGCTGAAGATGATTTCCGCTTTGCCACTGGTTTACAGGTTGAATTGGTGTTGGCGGATTTTCGTGAACTCAGTGCAG
CAATTCGACGCTTATATGGTCGTTCATTAAGTCATGAAAAGTCTGGGTTAAAAGAGATCAACCAAGAAGAGCTAGCGAGT
CTGGTGGATGTCGGTGCAGATGAAATCGACAACATCGAAGACTTGAGCCAAGACGAATCTCCTGTTAGCCGTTACATCAA
CCAAATTCTGTTGGACGCTGTGCGTAAAGGCGCATCCGATATCCACTTTGAGCCTTATGAAAAGATGTACCGAGTTCGTC
TACGTTGCGATGGCATTTTGATCGAAACTCAGCAACCGCCAAATCACCTGAGTCGTCGCTTATCAGCTCGTATCAAAATT
CTCTCTAAACTTGATATTGCCGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACCGCGAT
TGATATGCGGGTATCCACTCTACCTACCTTGTTTGGAGAGAAGATCGTACTACGACTGCTCGATAGCAGCTCTGCATCAC
TGGATATCGACAAGCTTGGTTATAGTGAGCAACAAAAACAGCTGTATTTAGAGGCTCTGCGTCGTCCACAAGGTATGATT
CTGATGACAGGTCCAACAGGAAGCGGCAAAACCGTTTCGTTGTACACTGGGCTAAATATTCTCAATAAACCAGAGATCAA
CATCTCCACAGCGGAAGACCCAGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAACCTAAGATTGGTTTTG
GCTTTGCAGAAGCACTACGTTCTTTTCTGCGTCAAGATCCCGATGTGGTCATGGTGGGAGAGATTCGAGACCTAGATACT
GCGGAAATCGCCATCAAGGCTTCCCAAACCGGTCACTTAGTGCTCTCTACTTTGCATACCAACTCTGCGGCTGAAACCAT
CATTCGTTTATCAAACATGGGCGTAGAAAGTTTTAACCTCGCCTCTTCTCTTAGTTTGATTATTGCCCAACGCCTAGCTC
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

98.574

100

0.986
  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 Legionella pneumophila strain ERS1305867

49.165

96.078

0.472
  pilB Acinetobacter baylyi ADP1

50.87

92.157

0.469
  pilF Neisseria gonorrhoeae MS11

45.035

100

0.453
  pilB/pilB1 Synechocystis sp. PCC 6803

36.931

100

0.39
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.842

100

0.374
  pilF Thermus thermophilus HB27

36.219

100

0.365

Multiple sequence alignment