Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   PWS06_RS04290 Genome accession   NZ_CP118532
Coordinates   879116..880801 (-) Length   561 a.a.
NCBI ID   WP_017189132.1    Uniprot ID   -
Organism   Vibrio harveyi strain 160-19     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 874116..885801
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PWS06_RS04260 rplS 874557..874910 (+) 354 WP_005379971.1 50S ribosomal protein L19 -
  PWS06_RS04265 yacG 875277..875477 (-) 201 WP_026000212.1 DNA gyrase inhibitor YacG -
  PWS06_RS04270 zapD 875534..876274 (-) 741 WP_005446251.1 cell division protein ZapD -
  PWS06_RS04275 coaE 876302..876916 (-) 615 WP_274790538.1 dephospho-CoA kinase -
  PWS06_RS04280 pilD 876917..877786 (-) 870 WP_045488712.1 A24 family peptidase Machinery gene
  PWS06_RS04285 pilC 877859..879082 (-) 1224 WP_005446256.1 type II secretion system F family protein Machinery gene
  PWS06_RS04290 pilB 879116..880801 (-) 1686 WP_017189132.1 type IV-A pilus assembly ATPase PilB Machinery gene
  PWS06_RS04295 pilA 880807..881268 (-) 462 WP_050940736.1 pilin Machinery gene
  PWS06_RS04300 nadC 881533..882420 (-) 888 WP_045393857.1 carboxylating nicotinate-nucleotide diphosphorylase -
  PWS06_RS04305 ampD 882513..883064 (+) 552 WP_050936250.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  PWS06_RS04310 pdhR 883469..884236 (+) 768 WP_005446261.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62014.83 Da        Isoelectric Point: 5.2849

>NTDB_id=792983 PWS06_RS04290 WP_017189132.1 879116..880801(-) (pilB) [Vibrio harveyi strain 160-19]
MLTNLSTVLRQAGILTFSQEESLLEQAKASGISMPEALLSSGFFQSHELTEHLSSIFGLSCTSLSQYEYSSLCQKLGLRD
LITRHNALPLNRTSSTLILAVADPTNLQAEDDFRFATGLQVELVLADFKELTAAIRRLYGRALGQEKSGLKEINQDELAG
LVDIGEDEIENIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYENMYRVRLRCDGILIEIQQPPSHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSAALDINKLGYSDHQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNKTEINISTAEDPVEINLPGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETVIRLSNMGVESFNLASSLSLIIAQRLARKLCPHCRLPQEPNSQLQHIGITSTED
IFQANPDGCNECTQGYSGRTGIYEVMKFDESLSNALIKGASVHELEKLAIANGMQTLQMSGIEKLKQGVTSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=792983 PWS06_RS04290 WP_017189132.1 879116..880801(-) (pilB) [Vibrio harveyi strain 160-19]
ATGCTAACCAACCTTTCAACGGTTCTTCGCCAAGCTGGAATACTGACCTTTTCCCAAGAAGAATCGTTACTTGAGCAAGC
AAAAGCTTCTGGTATTTCGATGCCGGAGGCTTTACTCAGTTCTGGCTTTTTCCAATCACATGAATTGACTGAGCACCTTA
GCTCCATCTTTGGGCTTTCCTGCACATCACTCAGTCAGTATGAGTACTCGTCGCTGTGCCAAAAGCTTGGCTTACGCGAT
CTGATCACTCGACATAATGCCTTGCCACTCAATCGCACATCTTCGACATTAATACTCGCGGTTGCAGACCCAACTAACTT
ACAAGCGGAAGATGACTTTCGTTTTGCTACCGGTTTACAAGTCGAGCTAGTTCTGGCGGACTTTAAAGAACTCACCGCAG
CCATTCGTCGTTTATATGGTCGTGCACTCGGTCAAGAAAAGTCCGGTCTTAAAGAAATCAACCAAGATGAACTGGCAGGT
CTCGTTGATATTGGTGAGGACGAAATTGAGAACATTGAAGATCTCAGCCAAGATGAATCGCCTGTTAGTCGTTATATTAA
CCAAATTCTGCTCGATGCCGTTCGTAAAGGGGCTTCTGATATTCACTTCGAGCCCTATGAAAACATGTATCGAGTGCGTT
TGCGTTGCGATGGCATCTTGATCGAAATTCAACAGCCTCCGAGCCATTTAAGCCGTCGCCTCTCAGCCCGAATAAAGATC
CTATCTAAGCTTGATATCGCTGAGCGCCGTTTACCACAGGATGGTCGCATCAAGCTCAAATTAAACCAAGACACCGCGAT
TGACATGCGAGTCTCCACGCTGCCAACTCTGTTTGGGGAGAAAATCGTACTGCGTTTGCTCGACAGCAGTTCTGCAGCAT
TAGATATCAATAAACTCGGATACAGCGATCATCAAAAGCAATTGTATTTAGAAGCACTGCGCCGCCCACAAGGCATGATC
CTAATGACAGGACCAACGGGCAGCGGCAAAACGGTTTCTCTTTACACTGGTTTGAGCATTCTCAATAAAACCGAGATCAA
CATTTCCACCGCTGAAGACCCCGTTGAGATCAACTTACCCGGCATTAACCAAGTTCAAGTTCAACCTAAGATCGGCTTTG
GCTTTGCAGAAGCGCTTCGCTCTTTCTTACGTCAAGATCCCGATGTGGTCATGGTGGGTGAGATCCGAGATCTCGACACG
GCAGAAATCGCGATCAAAGCGTCACAAACCGGGCACTTAGTCCTTTCTACCCTGCATACCAACTCCGCCGCCGAGACGGT
TATTCGCTTATCAAATATGGGGGTAGAAAGCTTTAACCTCGCATCCTCTCTTAGTTTGATCATCGCTCAGCGTTTAGCTC
GAAAACTTTGTCCACATTGCAGACTACCTCAAGAACCTAACAGCCAACTTCAACATATTGGAATTACCAGCACTGAAGAT
ATCTTCCAAGCGAATCCTGATGGTTGTAACGAATGCACCCAAGGATACTCTGGTCGCACTGGCATTTACGAAGTGATGAA
GTTTGATGAATCCCTGTCAAATGCGCTCATCAAAGGCGCTTCAGTACATGAATTAGAAAAGCTAGCGATTGCCAATGGTA
TGCAGACTCTACAAATGTCCGGCATTGAAAAGCTCAAACAAGGCGTCACCAGCTTTAGTGAGCTGCAACGCGTTCTCTAT
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 campbellii strain DS40M4

96.435

100

0.964
  pilB Vibrio parahaemolyticus RIMD 2210633

89.483

100

0.895
  pilB Vibrio cholerae strain A1552

73.132

100

0.733
  pilB Acinetobacter baylyi ADP1

48.294

99.287

0.479
  pilB Acinetobacter baumannii D1279779

51.838

92.157

0.478
  pilB Legionella pneumophila strain ERS1305867

48.155

96.613

0.465
  pilF Neisseria gonorrhoeae MS11

43.06

100

0.431
  pilB/pilB1 Synechocystis sp. PCC 6803

37.037

100

0.392
  pilF Thermus thermophilus HB27

36.477

100

0.365
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.738

99.465

0.365