Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   K08M3_RS13390 Genome accession   NZ_CP017913
Coordinates   2849372..2851057 (+) Length   561 a.a.
NCBI ID   WP_054730502.1    Uniprot ID   -
Organism   Vibrio alginolyticus strain K08M3     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2844372..2856057
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  K08M3_RS13370 (K08M3_26140) pdhR 2845937..2846704 (-) 768 WP_005379989.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  K08M3_RS13375 (K08M3_26150) ampD 2847110..2847661 (-) 552 WP_042521337.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  K08M3_RS13380 (K08M3_26160) nadC 2847754..2848641 (+) 888 WP_005379983.1 carboxylating nicotinate-nucleotide diphosphorylase -
  K08M3_RS13385 (K08M3_26170) pilA 2848904..2849368 (+) 465 WP_033905592.1 pilin Machinery gene
  K08M3_RS13390 (K08M3_26180) pilB 2849372..2851057 (+) 1686 WP_054730502.1 type IV-A pilus assembly ATPase PilB Machinery gene
  K08M3_RS13395 (K08M3_26190) pilC 2851081..2852304 (+) 1224 WP_054730505.1 type II secretion system F family protein Machinery gene
  K08M3_RS13400 (K08M3_26200) pilD 2852369..2853238 (+) 870 WP_086047031.1 prepilin peptidase Machinery gene
  K08M3_RS13405 (K08M3_26210) coaE 2853239..2853853 (+) 615 WP_017635920.1 dephospho-CoA kinase -
  K08M3_RS13410 (K08M3_26220) zapD 2853881..2854621 (+) 741 WP_005373086.1 cell division protein ZapD -
  K08M3_RS13415 (K08M3_26230) yacG 2854780..2854974 (+) 195 WP_017635922.1 DNA gyrase inhibitor YacG -
  K08M3_RS13420 (K08M3_26240) rplS 2855629..2855982 (-) 354 WP_005379971.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62323.20 Da        Isoelectric Point: 5.6871

>NTDB_id=204007 K08M3_RS13390 WP_054730502.1 2849372..2851057(+) (pilB) [Vibrio alginolyticus strain K08M3]
MQTNLSTILRQKGLLAFSQEESLLEQVKASGISMPEALLSSGLFTSRELTEHLNSIFGLNQPELSQYEYASLCQQLGLRE
LITRHNALPLQRTPSTLLLAVADPTNQQAEDDFRFATGLQIELVLADFRQLSAAIRRLYGRSLSHEKSGLKEINQEELAN
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPSHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLDALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETVIRLSNMGVESFNLASSLSLIIAQRLARKLCSHCKQSQELTVQLQHLGIQASDN
IFKANPDGCNECTHGYSGRTGIYEVMRFDEFLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=204007 K08M3_RS13390 WP_054730502.1 2849372..2851057(+) (pilB) [Vibrio alginolyticus strain K08M3]
ATGCAAACCAACCTCTCCACGATTCTTCGTCAAAAAGGACTATTGGCTTTTTCCCAAGAAGAATCGTTACTTGAGCAAGT
CAAAGCTTCTGGCATTTCGATGCCAGAGGCTTTACTCAGTTCTGGATTATTTACATCACGCGAACTCACTGAACATTTAA
ATTCTATTTTTGGATTAAATCAGCCCGAGTTATCTCAGTACGAGTACGCCTCGCTTTGTCAGCAACTTGGCCTTAGGGAA
TTAATCACACGGCATAACGCACTCCCACTCCAGCGTACACCTTCAACGTTATTATTAGCCGTTGCCGACCCCACGAACCA
ACAAGCAGAAGACGATTTCCGCTTTGCCACTGGTTTACAGATTGAATTGGTGTTGGCGGATTTTCGTCAACTCAGCGCGG
CAATTCGACGCTTATATGGTCGTTCATTGAGTCATGAGAAGTCCGGGTTAAAAGAGATAAACCAAGAAGAGTTAGCCAAT
CTGGTTGACGTGGGCGCAGATGAAATCGACAACATTGAAGACTTGAGCCAAGATGAGTCTCCTGTTAGCCGTTACATCAA
CCAAATTCTATTGGACGCTGTGCGCAAAGGCGCATCCGATATCCACTTTGAGCCTTATGAAAAGATGTACCGCGTGCGCC
TGCGCTGTGATGGCATCTTAATTGAAACACAGCAGCCACCAAGCCACTTGAGTCGTCGCTTATCCGCTCGTATCAAAATC
CTCTCTAAGCTTGATATTGCAGAGCGACGTTTACCACAAGATGGGCGTATTAAGCTCAAGTTGAATCAAGACACCGCAAT
TGATATGCGTGTATCCACGCTGCCTACTCTATTTGGAGAGAAAATTGTACTACGACTGCTCGACAGCAGCTCTGCGTCAT
TGGATATCGACAAGCTTGGTTATAGCGAACAACAAAAACAATTGTACTTGGATGCGCTGCGTCGCCCACAAGGCATGATT
CTGATGACAGGTCCAACCGGGAGCGGAAAAACCGTTTCTCTGTACACCGGGCTGAGTATCCTCAATAAACCAGAAATCAA
CATTTCTACGGCAGAAGACCCAGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTTCAGCCTAAGATTGGTTTTG
GTTTTGCCGAAGCCCTGCGCTCTTTCTTACGTCAAGACCCGGATGTGGTAATGGTCGGTGAGATTCGTGACTTAGACACT
GCGGAGATCGCCATCAAAGCCTCGCAAACCGGTCACTTAGTACTTTCAACCTTGCATACCAACTCTGCGGCTGAAACGGT
TATTCGTTTATCAAACATGGGCGTAGAAAGCTTTAACTTGGCCTCATCTCTTAGTTTGATTATTGCCCAGCGCTTAGCCC
GTAAACTGTGCTCGCACTGTAAACAATCACAAGAGCTTACCGTTCAGCTACAACATCTTGGAATTCAAGCAAGCGACAAC
ATTTTTAAAGCCAATCCCGATGGATGCAATGAGTGTACCCATGGTTATTCCGGCCGAACGGGGATTTATGAAGTGATGCG
CTTTGATGAATTTCTTTCCGAAGCGCTTATTAAAGGCGCCTCGGTACATGAACTAGAAAAACTCGCCATCGCAAATGGTA
TGAGCACGTTACAAATGTCGGGCATAGAAAAACTCAAACAAGGAATCACAAGTTTTAGTGAACTACAGCGCGTACTTTAT
TTTTAA

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

95.365

100

0.954
  pilB Vibrio campbellii strain DS40M4

89.84

100

0.898
  pilB Vibrio cholerae strain A1552

74.555

100

0.747
  pilB Legionella pneumophila strain ERS1305867

48.387

99.465

0.481
  pilB Acinetobacter baumannii D1279779

51.346

92.692

0.476
  pilB Acinetobacter baylyi ADP1

51.852

86.631

0.449
  pilF Neisseria gonorrhoeae MS11

44.504

100

0.447
  pilB/pilB1 Synechocystis sp. PCC 6803

37.584

100

0.399
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.684

100

0.371
  pilF Thermus thermophilus HB27

36.299

100

0.364

Multiple sequence alignment