Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   GPY46_RS22190 Genome accession   NZ_CP046776
Coordinates   2720693..2722378 (+) Length   561 a.a.
NCBI ID   WP_158128014.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain AM43962     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2715693..2727378
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GPY46_RS22170 pdhR 2717277..2718044 (-) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  GPY46_RS22175 ampD 2718450..2719001 (-) 552 WP_025505040.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  GPY46_RS22180 nadC 2719094..2719981 (+) 888 WP_015297249.1 carboxylating nicotinate-nucleotide diphosphorylase -
  GPY46_RS22185 pilA 2720244..2720684 (+) 441 WP_025505038.1 pilin Machinery gene
  GPY46_RS22190 pilB 2720693..2722378 (+) 1686 WP_158128014.1 type IV-A pilus assembly ATPase PilB Machinery gene
  GPY46_RS22195 pilC 2722403..2723626 (+) 1224 WP_005479682.1 type II secretion system F family protein Machinery gene
  GPY46_RS22200 pilD 2723691..2724560 (+) 870 WP_053315319.1 A24 family peptidase Machinery gene
  GPY46_RS22205 coaE 2724561..2725175 (+) 615 WP_005480887.1 dephospho-CoA kinase -
  GPY46_RS22210 zapD 2725203..2725943 (+) 741 WP_023624252.1 cell division protein ZapD -
  GPY46_RS22215 yacG 2726012..2726206 (+) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  GPY46_RS22220 rplS 2726580..2726933 (-) 354 WP_005462554.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62409.25 Da        Isoelectric Point: 5.4036

>NTDB_id=407516 GPY46_RS22190 WP_158128014.1 2720693..2722378(+) (pilB) [Vibrio parahaemolyticus strain AM43962]
MITNLSTVLRQKGLLTLSQEESLFEQIKASGISMPEALLSSGFFTSSELAEHLSSIFGLNQPELSQYEYASLCQQLGLRE
LITRHNALPLHRTPSTLLLAVADPTNQQAEDDFRFATGLQVELVLADFRELSAAIRRLYGRSLSHEKSGLKEINQEELAS
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLNILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLDIQTTDN
IFKANPDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=407516 GPY46_RS22190 WP_158128014.1 2720693..2722378(+) (pilB) [Vibrio parahaemolyticus strain AM43962]
GTGATAACCAACCTCTCCACGGTTCTTCGTCAAAAAGGGTTACTGACCTTATCCCAGGAAGAATCGTTATTTGAGCAAAT
CAAAGCTTCTGGCATCTCGATGCCGGAGGCTTTACTCAGTTCTGGATTCTTCACATCAAGCGAACTGGCCGAGCACTTAA
GTTCTATTTTTGGTTTAAACCAGCCTGAGTTATCTCAATATGAATATGCTTCGCTTTGCCAACAGCTCGGCCTACGTGAA
TTAATCACACGACATAACGCACTCCCGCTCCACCGCACGCCTTCAACGTTATTATTAGCGGTTGCCGACCCCACCAATCA
ACAAGCTGAAGATGATTTCCGCTTTGCCACTGGTTTACAGGTTGAATTGGTGTTGGCGGATTTTCGTGAACTCAGTGCAG
CAATTCGACGCTTATATGGTCGTTCATTAAGTCATGAAAAGTCTGGGTTAAAAGAAATCAACCAAGAAGAGCTAGCGAGT
CTGGTGGATGTCGGTGCAGATGAAATCGACAACATTGAAGACTTGAGCCAAGACGAATCTCCTGTTAGCCGTTACATCAA
CCAAATTCTGTTGGACGCTGTGCGTAAAGGCGCATCCGATATCCACTTTGAGCCTTATGAAAAGATGTACCGAGTTCGTC
TACGTTGCGATGGCATTTTGATCGAAACTCAGCAACCGCCAAATCACTTGAGTCGTCGCTTATCAGCTCGTATCAAAATT
CTCTCTAAACTTGATATTGCAGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACTGCGAT
TGATATGCGGGTATCTACGCTACCAACCTTGTTTGGAGAGAAAATCGTACTCCGACTGCTCGATAGCAGCTCTGCATCAC
TAGATATCGACAAGCTTGGTTATAGTGAGCAACAAAAACAACTGTATTTAGAGGCTCTGCGTCGTCCACAAGGTATGATT
CTGATGACAGGCCCAACAGGAAGCGGCAAAACCGTTTCGTTGTACACTGGGCTAAATATTCTCAATAAACCAGAGATCAA
CATCTCCACAGCGGAAGACCCGGTGGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAGCCTAAAATTGGTTTTG
GCTTTGCAGAAGCACTACGCTCTTTCCTGCGTCAAGATCCCGACGTGGTCATGGTGGGTGAGATTCGAGACCTAGATACT
GCGGAAATCGCCATCAAGGCGTCCCAAACCGGTCACTTAGTGCTCTCTACTTTGCATACCAACTCTGCAGCTGAAACCAT
CATTCGCTTATCAAACATGGGCGTGGAAAGTTTTAACCTCGCCTCTTCGCTTAGTTTGATTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAAACAACCGCAAGAGCATACCGTTCAACTTCAGCACCTCGACATCCAAACAACTGACAAC
ATCTTTAAAGCAAACCCAGATGGTTGCAACGAATGTACCCATGGTTATTCTGGCCGAACAGGTATCTATGAAGTCATGCG
CTTTGATGAATCTCTATCCGAAGCTCTTATTAAAGGAGCCTCGGTACATGAACTGGAAAAGCTTGCCATTGCGAATGGCA
TGAGTACCTTGCAAATGTCCGGAATAGAAAAACTCAAGCAAGGCATCACAAGCTTTAGTGAGTTACAACGCGTGCTCTAT
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

98.217

100

0.982
  pilB Vibrio campbellii strain DS40M4

90.196

100

0.902
  pilB Vibrio cholerae strain A1552

73.665

100

0.738
  pilB Acinetobacter baumannii D1279779

50.933

95.544

0.487
  pilB Legionella pneumophila strain ERS1305867

48.983

96.435

0.472
  pilB Acinetobacter baylyi ADP1

50.677

92.157

0.467
  pilF Neisseria gonorrhoeae MS11

44.681

100

0.449
  pilB/pilB1 Synechocystis sp. PCC 6803

36.931

100

0.39
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.491

100

0.371
  pilF Thermus thermophilus HB27

36.46

100

0.367

Multiple sequence alignment