Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   NI383_RS20445 Genome accession   NZ_CP099955
Coordinates   2672161..2673846 (+) Length   561 a.a.
NCBI ID   WP_315868304.1    Uniprot ID   -
Organism   Vibrio parahaemolyticus strain Isc4A     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2667161..2678846
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NI383_RS20425 (NI383_20580) pdhR 2668740..2669507 (-) 768 WP_005462576.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  NI383_RS20430 (NI383_20585) ampD 2669913..2670464 (-) 552 WP_140284224.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  NI383_RS20435 (NI383_20590) nadC 2670557..2671444 (+) 888 WP_015297249.1 carboxylating nicotinate-nucleotide diphosphorylase -
  NI383_RS20440 (NI383_20595) - 2671707..2672159 (+) 453 WP_029846089.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  NI383_RS20445 (NI383_20600) pilB 2672161..2673846 (+) 1686 WP_315868304.1 type IV-A pilus assembly ATPase PilB Machinery gene
  NI383_RS20450 (NI383_20605) pilC 2673870..2675093 (+) 1224 WP_315868305.1 type II secretion system F family protein Machinery gene
  NI383_RS20455 (NI383_20610) pilD 2675158..2676027 (+) 870 WP_140154970.1 A24 family peptidase Machinery gene
  NI383_RS20460 (NI383_20615) coaE 2676028..2676642 (+) 615 WP_005480887.1 dephospho-CoA kinase -
  NI383_RS20465 (NI383_20620) zapD 2676670..2677410 (+) 741 WP_015297254.1 cell division protein ZapD -
  NI383_RS20470 (NI383_20625) yacG 2677479..2677673 (+) 195 WP_005462546.1 DNA gyrase inhibitor YacG -
  NI383_RS20475 (NI383_20630) rplS 2678081..2678434 (-) 354 WP_005462554.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62285.07 Da        Isoelectric Point: 5.5238

>NTDB_id=702892 NI383_RS20445 WP_315868304.1 2672161..2673846(+) (pilB) [Vibrio parahaemolyticus strain Isc4A]
MLTNLSTILRQNGLLTFSQEESLIEQVKASGISMPEALLSSGFFTSSELAAHLSSIFGLSQPELSQYEYAALCQQLGLRE
LITRHNALPLHRTSSTLLLAIADPTNQQAEDDFRFATGLQVELVLADFRELSAAIRRLYGRSLSHEKSGLKEINQEELAN
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPNHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLNILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETIIRLSNMGVESFNLASSLSLIIAQRLARKLCPYCKQPQEHTVQLQHLGIQTTDN
IFRANSDGCNECTHGYSGRTGIYEVMRFDESLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=702892 NI383_RS20445 WP_315868304.1 2672161..2673846(+) (pilB) [Vibrio parahaemolyticus strain Isc4A]
ATGCTAACCAACCTCTCGACAATTCTTCGCCAAAACGGATTACTGACGTTTTCCCAAGAAGAATCGTTAATAGAGCAAGT
TAAAGCTTCTGGCATCTCGATGCCGGAAGCTTTACTCAGTTCTGGATTCTTCACGTCAAGCGAACTCGCCGCACACTTAA
GTTCTATTTTTGGCTTAAGTCAGCCCGAGTTATCTCAATATGAGTATGCTGCGCTTTGCCAACAGCTCGGCCTCAGAGAG
TTAATCACACGACATAATGCACTCCCGCTCCACCGTACTTCTTCAACTTTATTATTAGCGATTGCCGACCCCACGAATCA
ACAAGCTGAAGATGATTTCCGCTTTGCCACTGGTTTACAGGTTGAATTGGTGTTGGCGGATTTTCGTGAACTCAGTGCAG
CAATTCGACGCTTATATGGTCGTTCATTAAGTCATGAAAAGTCTGGGTTAAAAGAAATCAACCAAGAAGAATTAGCCAAC
CTGGTTGATGTGGGCGCAGATGAAATCGACAACATTGAAGACTTGAGCCAAGATGAGTCTCCTGTTAGCCGTTACATCAA
CCAAATTCTGTTGGACGCTGTGCGCAAAGGCGCATCCGATATCCACTTTGAACCTTATGAAAAGATGTACCGAGTTCGTC
TACGTTGCGATGGCATTTTGATCGAAACTCAGCAACCGCCAAATCACTTGAGTCGTCGCTTATCAGCTCGTATAAAAATT
CTCTCTAAACTTGATATTGCCGAGCGACGTTTACCACAAGATGGGCGAATTAAACTCAAACTGAATCAAGACACCGCGAT
TGATATGCGGGTATCCACTCTACCTACCTTGTTTGGAGAGAAGATCGTACTACGACTGCTCGATAGCAGCTCTGCATCAC
TGGATATCGACAAGCTTGGTTATAGTGAGCAACAAAAACAGCTGTATTTAGAGGCTCTGCGTCGTCCACAAGGTATGATT
CTGATGACAGGTCCAACAGGAAGCGGCAAAACCGTTTCGTTGTACACTGGGCTAAATATTCTCAATAAACCAGAGATCAA
CATCTCCACAGCGGAAGACCCAGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTCCAACCTAAGATTGGTTTTG
GCTTTGCAGAAGCACTACGTTCTTTTCTGCGTCAAGATCCCGATGTGGTCATGGTGGGTGAGATTCGAGACCTAGATACT
GCGGAAATCGCCATCAAGGCTTCCCAAACCGGTCACTTAGTGCTCTCTACTTTGCATACCAACTCTGCGGCTGAAACCAT
CATTCGTTTATCAAACATGGGCGTAGAAAGTTTTAACCTCGCCTCTTCTCTTAGTTTGATTATTGCCCAACGCCTAGCTC
GCAAACTTTGTCCATATTGTAAACAACCGCAAGAGCATACCGTTCAACTTCAGCACCTCGGCATTCAAACAACTGACAAC
ATTTTTAGAGCCAATTCAGATGGTTGCAACGAATGCACCCATGGTTATTCTGGCCGAACAGGTATCTATGAAGTCATGCG
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

98.217

100

0.982
  pilB Vibrio campbellii strain DS40M4

90.374

100

0.904
  pilB Vibrio cholerae strain A1552

74.021

100

0.742
  pilB Acinetobacter baumannii D1279779

51.607

94.296

0.487
  pilB Legionella pneumophila strain ERS1305867

49.165

96.078

0.472
  pilB Acinetobacter baylyi ADP1

50.484

92.157

0.465
  pilF Neisseria gonorrhoeae MS11

45.567

100

0.458
  pilB/pilB1 Synechocystis sp. PCC 6803

36.762

100

0.389
  pilF Thermus thermophilus HB27

37.102

100

0.374
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.861

100

0.373