Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   VEA_RS05015 Genome accession   NC_013456
Coordinates   1032056..1033741 (-) Length   561 a.a.
NCBI ID   WP_006743172.1    Uniprot ID   -
Organism   Vibrio antiquarius     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1027056..1038741
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VEA_RS04985 (VEA_002539) rplS 1027128..1027481 (+) 354 WP_005379971.1 50S ribosomal protein L19 -
  VEA_RS04990 (VEA_002540) yacG 1028150..1028344 (-) 195 WP_005396692.1 DNA gyrase inhibitor YacG -
  VEA_RS04995 (VEA_002541) zapD 1028492..1029232 (-) 741 WP_012841416.1 cell division protein ZapD -
  VEA_RS05000 (VEA_002542) coaE 1029260..1029874 (-) 615 WP_012841417.1 dephospho-CoA kinase -
  VEA_RS05005 (VEA_002543) pilD 1029875..1030744 (-) 870 WP_012841418.1 A24 family peptidase Machinery gene
  VEA_RS05010 (VEA_002544) pilC 1030809..1032032 (-) 1224 WP_006743173.1 type II secretion system F family protein Machinery gene
  VEA_RS05015 (VEA_002545) pilB 1032056..1033741 (-) 1686 WP_006743172.1 type IV-A pilus assembly ATPase PilB Machinery gene
  VEA_RS05020 (VEA_002546) pilA 1033747..1034220 (-) 474 WP_012841419.1 prepilin-type N-terminal cleavage/methylation domain-containing protein Machinery gene
  VEA_RS05025 (VEA_002547) nadC 1034482..1035369 (-) 888 WP_012841420.1 carboxylating nicotinate-nucleotide diphosphorylase -
  VEA_RS05030 (VEA_002548) ampD 1035462..1036013 (+) 552 WP_012841421.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  VEA_RS05035 (VEA_002549) pdhR 1036419..1037186 (+) 768 WP_005396680.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62127.03 Da        Isoelectric Point: 5.4104

>NTDB_id=35642 VEA_RS05015 WP_006743172.1 1032056..1033741(-) (pilB) [Vibrio antiquarius]
MLTNLSTALRQKGLLTFSQEESLIEQVKASGISMPEALLSSGLLTSSELAEHLSSLFSLSQPELSQYEYASLCQQLGLRE
LITRHNALPLQRTPSTLLLAVADPTNQQTEDDFRFATGLQVELVLADFRQLSAAIRRLYGRSLSHEKSGLKEINQEELAN
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPSHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLDALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETVIRLSNMGVESFNLASSLSLIIAQRLARKLCSVCKQPQELTVQLQHLGIQASDN
IFKANPDGCNECTHGYSGRTGIYEVMRFDEFLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=35642 VEA_RS05015 WP_006743172.1 1032056..1033741(-) (pilB) [Vibrio antiquarius]
ATGTTGACCAACCTATCCACGGCTCTTCGCCAAAAAGGGTTACTGACCTTTTCCCAAGAAGAATCGTTAATAGAGCAAGT
CAAAGCTTCTGGCATTTCGATGCCAGAGGCTTTACTCAGTTCTGGATTATTGACATCAAGCGAACTCGCTGAGCACTTAA
GTTCTCTCTTTAGTTTGAGTCAGCCCGAGTTATCTCAGTATGAGTACGCTTCGCTTTGTCAACAACTCGGTCTACGTGAA
TTAATCACTCGACATAACGCACTCCCACTCCAGCGTACGCCTTCAACTTTGTTATTAGCCGTTGCCGACCCGACGAACCA
ACAAACAGAAGATGACTTTCGTTTTGCGACAGGGTTACAGGTTGAACTAGTCTTGGCGGATTTTCGTCAACTCAGCGCGG
CAATTCGACGCTTGTATGGTCGTTCATTGAGTCATGAGAAGTCTGGATTAAAAGAGATCAACCAAGAAGAGTTAGCCAAT
CTGGTTGACGTGGGCGCAGATGAAATCGATAACATTGAAGACTTGAGCCAAGATGAGTCTCCTGTTAGCCGTTACATAAA
CCAAATTCTGTTGGACGCTGTGCGCAAAGGCGCATCCGATATCCACTTTGAACCTTATGAAAAGATGTACCGCGTTCGCC
TACGCTGTGATGGCATCTTAATTGAAACACAGCAGCCACCAAGCCACTTAAGTCGCCGCTTATCCGCTCGTATCAAAATC
CTCTCTAAGCTTGATATTGCAGAGCGACGTTTACCACAAGATGGGCGTATTAAGCTCAAGTTGAATCAAGACACCGCGAT
TGATATGCGTGTATCCACGCTACCGACTCTATTCGGAGAGAAAATTGTATTACGACTGCTCGACAGCAGCTCTGCGTCAC
TGGATATCGACAAGCTTGGTTATAGCGAACAACAAAAACAATTGTACTTGGATGCGCTGCGTCGCCCACAAGGCATGATT
CTGATGACAGGCCCTACCGGGAGCGGAAAAACCGTTTCTCTGTACACTGGGCTGAGTATTCTCAATAAGCCAGAAATCAA
CATTTCCACAGCAGAAGATCCGGTAGAAATTAACTTATCGGGCATTAACCAAGTACAAGTACAACCCAAGATCGGCTTTG
GCTTCGCAGAGGCATTGCGCTCTTTTCTTCGTCAAGACCCCGATGTGGTAATGGTCGGTGAGATTCGTGACTTAGACACT
GCGGAAATCGCCATAAAAGCATCGCAAACCGGTCACTTAGTACTTTCAACCTTACATACCAATTCTGCGGCTGAAACGGT
GATTCGTTTATCAAACATGGGAGTAGAAAGCTTTAACTTGGCCTCCTCTCTTAGTTTGATTATTGCCCAGCGCTTAGCCC
GTAAACTGTGCTCGGTCTGCAAGCAACCACAAGAGCTTACCGTTCAGTTGCAACATCTCGGTATTCAAGCAAGCGACAAC
ATTTTTAAAGCCAATCCCGACGGATGCAATGAATGTACTCATGGTTACTCCGGCCGAACGGGGATTTATGAAGTGATGCG
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)

(38-144)


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

95.9

100

0.959
  pilB Vibrio campbellii strain DS40M4

90.018

100

0.9
  pilB Vibrio cholerae strain A1552

73.843

100

0.74
  pilB Acinetobacter baumannii D1279779

51.81

93.583

0.485
  pilB Legionella pneumophila strain ERS1305867

49.353

96.435

0.476
  pilB Acinetobacter baylyi ADP1

47.397

99.287

0.471
  pilF Neisseria gonorrhoeae MS11

45.213

100

0.455
  pilB/pilB1 Synechocystis sp. PCC 6803

37.248

100

0.396
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.508

100

0.369
  pilF Thermus thermophilus HB27

36.794

97.861

0.36

Multiple sequence alignment