Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   GPY27_RS02140 Genome accession   NZ_CP046761
Coordinates   407550..409235 (-) Length   561 a.a.
NCBI ID   WP_140094612.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain AM46865     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 402550..414235
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GPY27_RS02110 rplS 402899..403252 (+) 354 WP_005462554.1 50S ribosomal protein L19 -
  GPY27_RS02115 yacG 403723..403917 (-) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  GPY27_RS02120 zapD 403986..404726 (-) 741 WP_023624252.1 cell division protein ZapD -
  GPY27_RS02125 coaE 404754..405368 (-) 615 WP_005480887.1 dephospho-CoA kinase -
  GPY27_RS02130 pilD 405369..406238 (-) 870 WP_031830116.1 A24 family peptidase Machinery gene
  GPY27_RS02135 pilC 406303..407526 (-) 1224 WP_031830115.1 type II secretion system F family protein Machinery gene
  GPY27_RS02140 pilB 407550..409235 (-) 1686 WP_140094612.1 type IV-A pilus assembly ATPase PilB Machinery gene
  GPY27_RS02145 pilA 409242..409637 (-) 396 WP_069485415.1 pilin Machinery gene
  GPY27_RS02150 nadC 409900..410787 (-) 888 WP_015297249.1 carboxylating nicotinate-nucleotide diphosphorylase -
  GPY27_RS02155 ampD 410880..411431 (+) 552 WP_025525953.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  GPY27_RS02160 pdhR 411837..412604 (+) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62467.23 Da        Isoelectric Point: 5.6500

>NTDB_id=407320 GPY27_RS02140 WP_140094612.1 407550..409235(-) (pilB) [Vibrio parahaemolyticus strain AM46865]
MHTNLSTILRQKGLLTFSQEESLIEQVKASGISMPEALLSSGFFTSNELAEHLSSMFGLSQPEFSQYEYASLCQQLGLRE
LITRHNALPLHRTPSTLLLAVADPTNQQAEDDFRFATGLQVELVLADFRQLSAAIRRLYGRSLSHEKSGLKEINQEELAN
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLNILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLGIQTTDN
IFRANPDGCNECTHGYSGRTGIYEVMRFDESLSEALINGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=407320 GPY27_RS02140 WP_140094612.1 407550..409235(-) (pilB) [Vibrio parahaemolyticus strain AM46865]
ATGCATACAAACCTCTCCACGATTCTTCGTCAAAAAGGATTACTGACGTTTTCCCAAGAAGAATCGTTAATAGAGCAAGT
CAAAGCTTCCGGTATCTCGATGCCGGAAGCTTTACTCAGTTCTGGGTTCTTCACATCAAACGAACTGGCCGAGCACTTAA
GTTCTATGTTTGGCTTAAGTCAGCCCGAGTTCTCTCAATATGAATATGCTTCGCTTTGCCAACAACTCGGCCTGCGTGAA
TTAATCACACGACATAATGCACTCCCGCTCCACCGTACTCCTTCAACTTTATTATTAGCGGTTGCCGACCCCACGAATCA
ACAAGCTGAAGATGATTTCCGCTTTGCCACTGGTTTACAGGTTGAATTGGTGTTGGCGGATTTTCGTCAACTCAGCGCGG
CAATCCGACGATTATATGGTCGTTCATTGAGTCACGAGAAGTCTGGATTAAAAGAGATCAACCAAGAAGAATTAGCCAAC
CTGGTTGATGTGGGCGCAGATGAAATCGACAACATTGAAGACTTGAGCCAAGATGAGTCTCCTGTTAGCCGTTACATAAA
CCAAATTCTGTTGGACGCTGTGCGCAAAGGCGCATCCGATATCCACTTTGAACCTTATGAAAAGATGTACCGAGTTCGTC
TACGTTGCGATGGCATTTTGATCGAAACTCAGCAACCGCCAAATCACTTGAGTCGTCGCTTATCAGCTCGTATAAAAATT
CTCTCTAAACTTGATATTGCCGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACCGCGAT
TGATATGCGGGTATCCACTCTACCTACCTTGTTTGGAGAGAAGATCGTACTACGACTGCTCGATAGCAGCTCTGCATCAC
TGGATATCGACAAGCTTGGTTATAGTGAGCAACAAAAACAGCTGTATTTAGAGGCTCTGCGTCGTCCACAAGGTATGATT
CTGATGACAGGTCCAACAGGAAGCGGCAAAACCGTTTCGTTGTACACTGGGCTAAATATTCTCAATAAACCAGAGATCAA
CATCTCCACAGCGGAAGACCCGGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAACCTAAGATTGGTTTTG
GCTTTGCAGAAGCACTACGTTCTTTTCTGCGTCAAGATCCCGATGTGGTCATGGTGGGTGAGATTCGAGACCTAGATACT
GCGGAAATCGCCATCAAGGCTTCCCAAACCGGTCACTTAGTGCTCTCTACTTTGCATACCAACTCTGCGGCTGAAACCAT
CATTCGTTTATCAAATATGGGCGTAGAAAGTTTTAACCTCGCCTCTTCTCTTAGTTTGATTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAAACAACCGCAAGAGCATACCGTTCAACTTCAGCACCTCGGCATTCAAACAACTGACAAC
ATTTTTAGAGCCAATCCAGATGGTTGCAACGAATGCACCCATGGTTATTCTGGCCGAACAGGTATCTATGAAGTCATGCG
CTTTGATGAATCTCTATCCGAAGCTCTTATTAACGGAGCCTCGGTACATGAACTGGAAAAGCTTGCCATTGCGAACGGCA
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

90.196

100

0.902
  pilB Vibrio cholerae strain A1552

73.843

100

0.74
  pilB Acinetobacter baumannii D1279779

52.51

92.335

0.485
  pilB Legionella pneumophila strain ERS1305867

49.165

96.078

0.472
  pilB Acinetobacter baylyi ADP1

50.677

92.157

0.467
  pilF Neisseria gonorrhoeae MS11

45.567

100

0.458
  pilB/pilB1 Synechocystis sp. PCC 6803

37.374

100

0.396
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.861

100

0.373
  pilF Thermus thermophilus HB27

36.525

100

0.367

Multiple sequence alignment