Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   OO778_RS02985 Genome accession   NZ_AP026765
Coordinates   613738..615423 (-) Length   561 a.a.
NCBI ID   WP_258614054.1    Uniprot ID   -
Organism   Vibrio sp. STUT-A16     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 608738..620423
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  OO778_RS02955 (VspSTUT16_05000) rplS 609007..609360 (+) 354 WP_005379971.1 50S ribosomal protein L19 -
  OO778_RS02960 (VspSTUT16_05010) yacG 609827..610027 (-) 201 WP_264910666.1 DNA gyrase inhibitor YacG -
  OO778_RS02965 (VspSTUT16_05020) zapD 610174..610914 (-) 741 WP_012841416.1 cell division protein ZapD -
  OO778_RS02970 (VspSTUT16_05030) coaE 610942..611556 (-) 615 WP_047008979.1 dephospho-CoA kinase -
  OO778_RS02975 (VspSTUT16_05040) pilD 611557..612426 (-) 870 WP_258614053.1 A24 family peptidase Machinery gene
  OO778_RS02980 (VspSTUT16_05050) pilC 612491..613714 (-) 1224 WP_248381230.1 type II secretion system F family protein Machinery gene
  OO778_RS02985 (VspSTUT16_05060) pilB 613738..615423 (-) 1686 WP_258614054.1 type IV-A pilus assembly ATPase PilB Machinery gene
  OO778_RS02990 (VspSTUT16_05070) - 615426..615911 (-) 486 WP_025768185.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  OO778_RS02995 (VspSTUT16_05080) nadC 616174..617061 (-) 888 WP_258614056.1 carboxylating nicotinate-nucleotide diphosphorylase -
  OO778_RS03000 (VspSTUT16_05090) ampD 617154..617705 (+) 552 WP_005396682.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  OO778_RS03005 (VspSTUT16_05100) pdhR 618111..618878 (+) 768 WP_005396680.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62092.92 Da        Isoelectric Point: 5.5353

>NTDB_id=96849 OO778_RS02985 WP_258614054.1 613738..615423(-) (pilB) [Vibrio sp. STUT-A16]
MLTNLSTVLRQAGILSFSQEESLLEQAKASGISMPEALLSCGFFQSHELTEHLSSIFGLSCTSLSQYEYSSLCQKLGLRD
LITRHNALPLNRTSSTLTLAVADPTNLQAEDDFRFATGLQVELVLADFRELTAAIRRLYGRALGQEKSGLKEINQEELAS
LVDVGADEIDNIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYEKMYRVRLRCDGILIETQQPPSHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSASLDIDKLGYSEQQKQLYLDALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNKPEINISTAEDPVEINLSGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLNT
AEIAIKASQTGHLVLSTLHTNSAAETVIRLSNMGVESFNLASSLSLIIAQRLARKLCSHCKQSQELTVQLQHLGIQESDN
IFKANPDGCNECTHGYSGRTGIYEVMRFDEFLSEALIKGASVHELEKLAIANGMSTLQMSGIEKLKQGITSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=96849 OO778_RS02985 WP_258614054.1 613738..615423(-) (pilB) [Vibrio sp. STUT-A16]
ATGCTAACCAACCTCTCAACGGTTCTTCGTCAAGCGGGAATACTGTCTTTTTCCCAAGAAGAATCGTTACTTGAGCAAGC
TAAAGCTTCTGGCATTTCGATGCCGGAGGCTTTGCTCAGTTGTGGCTTTTTCCAATCACATGAGCTGACTGAGCACCTTA
GCTCTATCTTTGGACTTTCCTGCACATCACTCAGTCAGTATGAGTACTCGTCGCTGTGCCAAAAGCTTGGCTTGCGCGAT
CTGATCACTCGACATAATGCCTTGCCACTCAATCGCACATCTTCCACATTAACACTCGCGGTTGCAGACCCAACTAACTT
ACAAGCGGAAGATGACTTTCGTTTTGCGACAGGGTTGCAAGTAGAGCTTGTTCTCGCTGATTTTCGCGAGCTGACCGCTG
CGATTCGGCGCTTATATGGCCGAGCACTTGGGCAAGAAAAGTCTGGATTAAAAGAGATCAACCAAGAAGAGTTAGCCAGT
CTGGTTGACGTGGGCGCAGATGAAATCGACAACATTGAAGACTTGAGCCAAGATGAGTCTCCTGTTAGCCGCTACATAAA
CCAAATTCTGTTGGACGCTGTGCGCAAAGGCGCATCCGATATCCACTTTGAGCCTTATGAAAAGATGTACCGCGTTCGCC
TACGCTGTGATGGCATCTTAATTGAAACACAGCAGCCACCAAGCCACTTAAGTCGCCGCTTATCCGCTCGTATCAAAATC
CTCTCTAAGCTTGATATTGCCGAAAGGCGCTTACCACAAGATGGGCGTATTAAGCTCAAGTTGAATCAAGACACCGCAAT
TGATATGCGTGTATCCACGCTGCCTACTCTATTTGGAGAGAAAATTGTATTACGACTGCTCGACAGCAGCTCTGCGTCAC
TGGATATCGACAAGCTTGGTTATAGCGAACAACAAAAACAATTGTACTTGGATGCGCTGCGTCGCCCACAAGGCATGATT
CTGATGACAGGCCCAACTGGGAGCGGGAAAACCGTTTCTCTGTACACTGGGCTGAGTATTCTCAATAAACCAGAAATCAA
CATTTCCACGGCAGAAGACCCAGTAGAAATTAACTTATCGGGCATTAACCAAGTTCAAGTTCAGCCTAAGATTGGTTTTG
GTTTTGCCGAAGCCCTGCGCTCTTTCTTACGTCAAGACCCCGATGTAGTAATGGTCGGTGAGATTCGTGACTTAAACACT
GCGGAAATCGCCATAAAAGCATCGCAAACCGGTCACTTAGTACTTTCAACCTTACATACCAATTCTGCGGCTGAAACGGT
TATTCGTTTATCAAACATGGGCGTAGAAAGCTTTAACTTGGCCTCCTCTCTTAGTTTGATTATTGCCCAGCGCTTGGCCC
GTAAACTGTGCTCGCACTGCAAACAATCACAAGAGCTTACCGTTCAGCTACAACATCTCGGAATTCAAGAAAGCGACAAC
ATTTTTAAAGCCAATCCCGATGGATGCAATGAGTGTACCCATGGTTATTCCGGCCGAACGGGGATTTATGAAGTAATGCG
CTTTGATGAATTTCTTTCCGAAGCGCTTATTAAAGGCGCCTCGGTACATGAACTAGAAAAACTCGCCATCGCAAATGGTA
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

92.87

100

0.929
  pilB Vibrio campbellii strain DS40M4

92.692

100

0.927
  pilB Vibrio cholerae strain A1552

74.199

100

0.743
  pilB Acinetobacter baumannii D1279779

51.823

92.87

0.481
  pilB Legionella pneumophila strain ERS1305867

48.987

96.791

0.474
  pilB Acinetobacter baylyi ADP1

47.67

99.465

0.474
  pilF Neisseria gonorrhoeae MS11

43.972

100

0.442
  pilB/pilB1 Synechocystis sp. PCC 6803

36.469

100

0.394
  pilF Thermus thermophilus HB27

36.348

100

0.365
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.673

99.643

0.365

Multiple sequence alignment