Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   H9J98_RS03150 Genome accession   NZ_CP064041
Coordinates   650433..652118 (-) Length   561 a.a.
NCBI ID   WP_176296458.1    Uniprot ID   A0A9Q3YJ11
Organism   Vibrio parahaemolyticus strain XMO116     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 645433..657118
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  H9J98_RS03120 (H9J98_03115) rplS 645956..646309 (+) 354 WP_005462554.1 50S ribosomal protein L19 -
  H9J98_RS03125 (H9J98_03120) yacG 646604..646798 (-) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  H9J98_RS03130 (H9J98_03125) zapD 646867..647607 (-) 741 WP_023624252.1 cell division protein ZapD -
  H9J98_RS03135 (H9J98_03130) coaE 647635..648249 (-) 615 WP_025631392.1 dephospho-CoA kinase -
  H9J98_RS03140 (H9J98_03135) pilD 648250..649119 (-) 870 WP_176296457.1 A24 family peptidase Machinery gene
  H9J98_RS03145 (H9J98_03140) pilC 649184..650407 (-) 1224 WP_005479682.1 type II secretion system F family protein Machinery gene
  H9J98_RS03150 (H9J98_03145) pilB 650433..652118 (-) 1686 WP_176296458.1 type IV-A pilus assembly ATPase PilB Machinery gene
  H9J98_RS03155 (H9J98_03150) pilA 652119..652571 (-) 453 WP_024702454.1 pilin Machinery gene
  H9J98_RS03160 (H9J98_03155) nadC 652834..653721 (-) 888 WP_228085838.1 carboxylating nicotinate-nucleotide diphosphorylase -
  H9J98_RS03165 (H9J98_03160) ampD 653814..654365 (+) 552 WP_005479703.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  H9J98_RS03170 (H9J98_03165) pdhR 654771..655538 (+) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62326.16 Da        Isoelectric Point: 5.5288

>NTDB_id=498646 H9J98_RS03150 WP_176296458.1 650433..652118(-) (pilB) [Vibrio parahaemolyticus strain XMO116]
MYTNLSTVLRQKGLLTFSQEESLIEQVKASGISMPEALLSSGLFTSSELAEHLSSLFGLSQPELSQYEYASLCQQLGLRE
LITRHNALPLHRTPSTLLLAVADPTNQQAEDDFRFATGLQVELVLADFRELSAAIRRLYGRSLSHEKSGLKEINQEELAS
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLNILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLGIQTTDN
IFKANPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=498646 H9J98_RS03150 WP_176296458.1 650433..652118(-) (pilB) [Vibrio parahaemolyticus strain XMO116]
ATGTACACCAACCTCTCCACGGTTCTTCGCCAAAAAGGGTTACTGACCTTTTCCCAAGAAGAATCGTTAATAGAGCAAGT
CAAAGCTTCTGGCATCTCGATGCCGGAAGCTTTACTTAGTTCTGGATTATTTACATCAAGCGAACTCGCTGAGCACTTAA
GCTCTCTCTTTGGTTTGAGTCAGCCCGAGTTATCTCAATATGAATATGCTTCGCTTTGCCAACAGCTCGGCCTACGTGAA
TTAATCACACGACATAACGCACTCCCACTCCACCGTACTCCTTCAACGTTATTATTAGCGGTTGCCGACCCCACCAATCA
ACAAGCTGAAGATGATTTCCGCTTTGCCACTGGTTTACAGGTTGAATTGGTGTTGGCAGATTTTCGTGAACTCAGTGCAG
CAATTCGACGCTTATATGGTCGTTCATTAAGTCATGAAAAGTCTGGGTTAAAAGAAATCAACCAAGAAGAGCTAGCGAGT
CTGGTGGATGTCGGTGCAGATGAAATCGACAACATCGAAGACTTGAGCCAAGACGAATCTCCTGTTAGCCGTTACATCAA
CCAAATTCTGTTGGACGCTGTACGCAAAGGCGCATCCGATATCCACTTTGAACCTTATGAAAAGATGTACCGAGTTCGTC
TACGTTGCGATGGCATTTTGATCGAAACTCAGCAACCGCCAAATCACTTGAGTCGTCGCTTATCAGCTCGTATAAAAATT
CTCTCTAAACTTGATATTGCCGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACCGCGAT
TGATATGCGAGTATCCACGCTACCAACCTTGTTTGGAGAGAAAATCGTACTCCGACTGCTCGATAGCAGCTCTGCATCAC
TGGATATCGACAAGCTTGGTTATAGTGAGCAACAAAAACAGCTGTATTTAGAAGCTCTGCGTCGCCCACAAGGCATGATT
CTGATGACAGGCCCAACCGGGAGCGGAAAAACCGTTTCGTTGTACACTGGGTTAAATATTCTCAATAAACCAGAGATCAA
CATCTCCACAGCGGAAGACCCGGTGGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAACCTAAGATTGGTTTTG
GCTTTGCAGAAGCTCTACGTTCTTTTCTACGTCAAGATCCCGATGTGGTCATGGTGGGTGAGATTCGAGACCTAGATACT
GCGGAAATCGCCATTAAGGCGTCCCAAACCGGTCACTTAGTGCTCTCTACTTTGCATACCAACTCTGCAGCTGAAACCAT
CATTCGCTTATCAAACATGGGCGTGGAAAGTTTTAACCTCGCCTCTTCACTTAGCTTGATTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAAACAACCGCAAGAGCATACCGTTCAACTTCAGCACCTCGGCATCCAAACAACTGACAAC
ATCTTTAAAGCCAATCCAGATGGTTGCAACGAATGTACCCATGGTTATTCTGGCCGAACGGGTATCTATGAAGTCATGCG
CTTTGATGAATCTCTATCCGAAGCTCTTATTAAAGGAGCCTCAGTACATGAACTGGAAAAGCTTGCCATTGCGAATGGCA
TGAGCACCTTGCAAATGTCCGGAATCGAAAAACTCAAGCAAGGCATCACAAGCTTTAGTGAGTTACAACGCGTGCTCTAT
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

98.752

100

0.988
  pilB Vibrio campbellii strain DS40M4

90.731

100

0.907
  pilB Vibrio cholerae strain A1552

73.665

100

0.738
  pilB Acinetobacter baumannii D1279779

51.711

93.761

0.485
  pilB Legionella pneumophila strain ERS1305867

49.168

96.435

0.474
  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

37.437

100

0.396
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.861

100

0.373
  pilF Thermus thermophilus HB27

36.396

100

0.367