Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   GPY28_RS23490 Genome accession   NZ_CP046814
Coordinates   3059531..3061216 (+) Length   561 a.a.
NCBI ID   WP_158159767.1    Uniprot ID   -
Organism   Vibrio alginolyticus strain 2010V-1102     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3054531..3066216
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GPY28_RS23470 pdhR 3056133..3056900 (-) 768 WP_005379989.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  GPY28_RS23475 ampD 3057306..3057857 (-) 552 WP_042521337.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  GPY28_RS23480 nadC 3057950..3058837 (+) 888 WP_158159766.1 carboxylating nicotinate-nucleotide diphosphorylase -
  GPY28_RS23485 pilA 3059103..3059531 (+) 429 WP_050912911.1 pilin Machinery gene
  GPY28_RS23490 pilB 3059531..3061216 (+) 1686 WP_158159767.1 type IV-A pilus assembly ATPase PilB Machinery gene
  GPY28_RS23495 pilC 3061240..3062463 (+) 1224 WP_017635918.1 type II secretion system F family protein Machinery gene
  GPY28_RS23500 pilD 3062528..3063397 (+) 870 WP_158159768.1 A24 family peptidase Machinery gene
  GPY28_RS23505 coaE 3063398..3064012 (+) 615 WP_158159769.1 dephospho-CoA kinase -
  GPY28_RS23510 zapD 3064040..3064780 (+) 741 WP_005373086.1 cell division protein ZapD -
  GPY28_RS23515 yacG 3064939..3065133 (+) 195 WP_017635922.1 DNA gyrase inhibitor YacG -
  GPY28_RS23520 rplS 3065788..3066141 (-) 354 WP_005379971.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62076.89 Da        Isoelectric Point: 5.1968

>NTDB_id=408236 GPY28_RS23490 WP_158159767.1 3059531..3061216(+) (pilB) [Vibrio alginolyticus strain 2010V-1102]
MLTNLSTVLRQAGILTFSQEESLIEQVKASGISMPEALLSSGLFTSSELAEHLSSLFGLNQPELSQYEYASLCQQLGLRE
LITRHNALPLQRTSSTLLLAVADPTNQQAEDDFRFATGLQVELVLADFRELTAAIRRLYGRALGQEKSGLKEINQEELAN
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPSHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLDALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETVIRLSNMGVESFNLASSLSLIIAQRLARKLCSHCKQSQELTVQLQHLGIQASDN
IFKANPDGCNECTHGYSGRTGIYEVMRFDEFLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=408236 GPY28_RS23490 WP_158159767.1 3059531..3061216(+) (pilB) [Vibrio alginolyticus strain 2010V-1102]
ATGCTAACCAACCTCTCAACGGTTCTTCGCCAAGCAGGAATACTGACCTTTTCCCAAGAAGAATCGTTAATAGAGCAAGT
CAAAGCTTCTGGCATTTCGATGCCAGAGGCTTTACTCAGTTCTGGATTATTTACATCAAGCGAACTCGCTGAGCACTTAA
GTTCTCTCTTTGGTTTAAATCAGCCCGAGTTATCTCAGTACGAGTATGCTTCGCTTTGTCAGCAACTTGGCCTTAGGGAA
TTAATCACGCGGCATAACGCACTCCCACTCCAGCGTACGTCTTCAACGTTATTATTAGCGGTTGCCGACCCCACCAACCA
ACAAGCAGAAGATGACTTTCGTTTTGCGACAGGATTGCAAGTAGAACTTGTTCTCGCTGATTTTCGCGAGCTGACCGCTG
CGATTCGGCGCTTATATGGCCGCGCACTTGGGCAAGAAAAGTCTGGGCTAAAAGAGATCAACCAAGAAGAATTAGCCAAC
CTGGTTGATGTGGGCGCAGATGAAATCGACAACATTGAAGACTTGAGCCAAGATGAGTCTCCTGTTAGCCGTTACATAAA
CCAAATTCTGTTGGACGCTGTGCGCAAAGGCGCATCCGATATCCACTTTGAACCTTATGAAAAGATGTACCGCGTGCGCC
TACGCTGTGATGGCATCTTAATTGAAACACAGCAGCCACCAAGCCACTTGAGTCGCCGCTTATCCGCTCGTATCAAAATC
CTCTCTAAGCTTGATATTGCAGAGCGACGTTTACCACAAGATGGGCGTATTAAGCTCAAGTTGAATCAAGACACCGCAAT
TGATATGCGTGTATCCACGCTGCCTACTCTATTTGGAGAGAAAATTGTACTACGACTGCTCGACAGCAGCTCTGCGTCAT
TGGATATCGACAAGCTTGGTTATAGCGAACAACAAAAACAATTGTACTTGGATGCGCTGCGTCGCCCACAAGGCATGATT
CTGATGACAGGCCCAACTGGAAGCGGGAAAACCGTTTCTCTGTACACTGGGCTGAGTATTCTCAATAAACCAGAAATCAA
CATTTCCACGGCAGAAGACCCAGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTTCAGCCTAAGATTGGTTTTG
GTTTTGCCGAAGCCCTGCGCTCTTTTCTTCGTCAAGACCCCGATGTGGTCATGGTCGGTGAGATTCGTGACTTAGACACT
GCGGAAATCGCCATAAAAGCATCGCAAACCGGTCACTTAGTACTTTCAACCTTGCATACCAATTCTGCGGCTGAAACGGT
TATTCGTTTATCAAACATGGGCGTAGAAAGCTTTAACTTGGCCTCATCTCTTAGTTTGATTATTGCCCAGCGCTTAGCCC
GTAAACTGTGCTCGCACTGCAAACAATCACAAGAGCTTACCGTTCAGCTACAACATCTCGGAATTCAAGCAAGCGACAAC
ATTTTTAAAGCCAATCCCGATGGATGCAATGAGTGTACCCATGGTTATTCCGGCCGAACGGGGATTTATGAAGTGATGCG
CTTTGATGAATTTCTTTCCGAAGCGCTTATTAAAGGCGCGTCGGTACATGAACTAGAAAAACTCGCCATCGCAAATGGTA
TGAGCACGTTACAAATGTCGGGCATAGAAAAACTCAAACAAGGGATCACAAGTTTTAGTGAACTACAGCGCGTACTTTAT
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)

(38-142)


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

95.009

100

0.95
  pilB Vibrio campbellii strain DS40M4

91.444

100

0.914
  pilB Vibrio cholerae strain A1552

74.377

100

0.745
  pilB Acinetobacter baumannii D1279779

51.619

93.583

0.483
  pilB Legionella pneumophila strain ERS1305867

49.168

96.435

0.474
  pilB Acinetobacter baylyi ADP1

50.29

92.157

0.463
  pilF Neisseria gonorrhoeae MS11

44.326

100

0.446
  pilB/pilB1 Synechocystis sp. PCC 6803

37.838

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