Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   M5598_RS02985 Genome accession   NZ_CP097355
Coordinates   608778..610463 (-) Length   561 a.a.
NCBI ID   WP_228086646.1    Uniprot ID   A0AA46Z6H8
Organism   Vibrio parahaemolyticus strain 16-VB00198     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 603778..615463
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  M5598_RS02955 (M5598_02955) rplS 604302..604655 (+) 354 WP_005462554.1 50S ribosomal protein L19 -
  M5598_RS02960 (M5598_02960) yacG 604950..605144 (-) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  M5598_RS02965 (M5598_02965) zapD 605213..605953 (-) 741 WP_023624252.1 cell division protein ZapD -
  M5598_RS02970 (M5598_02970) coaE 605981..606595 (-) 615 WP_031816758.1 dephospho-CoA kinase -
  M5598_RS02975 (M5598_02975) pilD 606596..607465 (-) 870 WP_031816757.1 A24 family peptidase Machinery gene
  M5598_RS02980 (M5598_02980) pilC 607530..608753 (-) 1224 WP_005462561.1 type II secretion system F family protein Machinery gene
  M5598_RS02985 (M5598_02985) pilB 608778..610463 (-) 1686 WP_228086646.1 type IV-A pilus assembly ATPase PilB Machinery gene
  M5598_RS02990 (M5598_02990) - 610463..610921 (-) 459 WP_031816754.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  M5598_RS02995 (M5598_02995) nadC 611184..612071 (-) 888 WP_025638275.1 carboxylating nicotinate-nucleotide diphosphorylase -
  M5598_RS03000 (M5598_03000) ampD 612164..612715 (+) 552 WP_031816752.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  M5598_RS03005 (M5598_03005) pdhR 613121..613888 (+) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62358.34 Da        Isoelectric Point: 5.6684

>NTDB_id=688979 M5598_RS02985 WP_228086646.1 608778..610463(-) (pilB) [Vibrio parahaemolyticus strain 16-VB00198]
MLTNLSTILRQNGLLTFPQEESLIEQVKASGISMPEALLSSGFFTSSELAAHLSSIFGLSQPELSQYEYAALCQQLGLRE
LITRHNALPLHRTSSTLLLAIADPTNLQAEDDFRFATGLQVELVLVDFRELSAAIRRLYGRAIGQERSQLKEINHEELAS
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLNILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLGIQTTDK
IFRANPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=688979 M5598_RS02985 WP_228086646.1 608778..610463(-) (pilB) [Vibrio parahaemolyticus strain 16-VB00198]
ATGCTAACCAACCTCTCAACAATTCTTCGCCAAAACGGGTTACTGACTTTTCCCCAAGAAGAATCGTTAATAGAGCAAGT
CAAAGCTTCTGGCATCTCGATGCCGGAAGCTTTACTCAGTTCTGGATTCTTCACGTCAAGCGAACTCGCCGCACACTTAA
GTTCTATTTTTGGCTTAAGTCAGCCCGAGTTATCTCAATATGAGTATGCTGCGCTTTGCCAACAGCTCGGCCTCAGAGAG
TTAATCACACGACATAATGCACTCCCGCTCCACCGTACTTCTTCAACTTTATTATTAGCGATTGCCGACCCCACGAATCT
ACAAGCCGAAGATGACTTCCGCTTTGCCACTGGTTTGCAGGTCGAACTGGTTCTGGTCGATTTTCGCGAACTAAGTGCTG
CAATTCGTCGCTTGTACGGGCGTGCCATTGGTCAGGAACGCTCCCAGCTCAAAGAGATCAACCATGAAGAGCTAGCCAGC
TTAGTGGATGTCGGTGCAGATGAAATCGACAACATCGAAGACTTGAGCCAGGACGAGTCGCCCGTCAGCCGCTACATCAA
CCAAATTTTACTGGATGCGGTACGTAAAGGCGCATCCGATATCCACTTTGAGCCTTATGAAAAGATGTACCGAGTTCGCC
TACGTTGTGATGGCATTTTGATCGAAACTCAGCAACCTCCAAATCACTTGAGTCGTCGCTTATCCGCTCGTATCAAAATT
CTCTCCAAACTTGATATTGCCGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACCGCGAT
TGATATGCGGGTATCCACGCTACCAACCTTGTTTGGAGAGAAAATCGTACTCCGACTGCTCGATAGCAGCTCTGCATCAC
TGGATATCGACAAGCTTGGTTATAGTGAGCAACAAAAACAGTTGTATTTAGAGGCTCTGCGTCGCCCACAAGGTATGATT
CTGATGACAGGCCCAACAGGAAGCGGCAAGACTGTTTCGTTGTACACTGGGTTAAATATTCTCAATAAACCAGAGATCAA
TATATCCACAGCAGAGGATCCTGTGGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAACCTAAGATTGGTTTTG
GCTTTGCAGAAGCTCTACGTTCTTTTCTACGTCAAGATCCCGATGTGGTCATGGTGGGTGAGATTCGAGACCTAGATACT
GCGGAAATCGCGATTAAGGCGTCCCAAACCGGTCACTTAGTGCTCTCTACTTTGCATACAAACTCTGCAGCTGAAACCAT
CATTCGCTTATCAAACATGGGCGTAGAAAGTTTTAACCTCGCCTCTTCTCTTAGTTTGATTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAAACAACCGCAAGAGCATACCGTTCAACTTCAGCACCTAGGCATTCAAACAACTGACAAA
ATTTTTAGAGCCAATCCAGATGGTTGCAACGAATGCACCCATGGTTATTCTGGCCGAACGGGTATCTATGAAGTCATGCG
CTTTGATGAATCTCTATCCGAAGCTCTTATTAAAGGAGCCTCGGTACATGAACTGGAAAAGCTTGCTATTGCGAACGGCA
TGAGCACCTTGCAAATGTCCGGAATAGAAAAACTCAAGCAAGGCATCACAAGCTTTAGTGAGTTACAACGCGTGCTCTAT
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)

(38-141)


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

96.613

100

0.966
  pilB Vibrio campbellii strain DS40M4

89.84

100

0.898
  pilB Vibrio cholerae strain A1552

73.843

100

0.74
  pilB Acinetobacter baumannii D1279779

51.316

94.831

0.487
  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

45.567

100

0.458
  pilB/pilB1 Synechocystis sp. PCC 6803

37.669

100

0.398
  pilF Thermus thermophilus HB27

36.926

100

0.373
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.572

100

0.369