Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   PWW23_RS15875 Genome accession   NZ_CP118586
Coordinates   3389604..3391289 (+) Length   561 a.a.
NCBI ID   WP_005446257.1    Uniprot ID   -
Organism   Vibrio harveyi strain fish6     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3384604..3396289
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PWW23_RS15855 pdhR 3386169..3386936 (-) 768 WP_009699648.1 pyruvate dehydrogenase complex transcriptional repressor PdhR -
  PWW23_RS15860 ampD 3387341..3387892 (-) 552 WP_154203416.1 1,6-anhydro-N-acetylmuramyl-L-alanine amidase AmpD -
  PWW23_RS15865 nadC 3387985..3388872 (+) 888 WP_199449848.1 carboxylating nicotinate-nucleotide diphosphorylase -
  PWW23_RS15870 - 3389137..3389604 (+) 468 WP_050933475.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  PWW23_RS15875 pilB 3389604..3391289 (+) 1686 WP_005446257.1 type IV-A pilus assembly ATPase PilB Machinery gene
  PWW23_RS15880 pilC 3391323..3392546 (+) 1224 WP_005446256.1 type II secretion system F family protein Machinery gene
  PWW23_RS15885 pilD 3392619..3393488 (+) 870 WP_045488712.1 A24 family peptidase Machinery gene
  PWW23_RS15890 coaE 3393489..3394103 (+) 615 WP_050922069.1 dephospho-CoA kinase -
  PWW23_RS15895 zapD 3394131..3394871 (+) 741 WP_038897986.1 cell division protein ZapD -
  PWW23_RS15900 yacG 3394928..3395128 (+) 201 WP_026000212.1 DNA gyrase inhibitor YacG -
  PWW23_RS15905 rplS 3395694..3396047 (-) 354 WP_005379971.1 50S ribosomal protein L19 -

Sequence

Protein


Download         Length: 561 a.a.        Molecular weight: 62029.80 Da        Isoelectric Point: 5.2849

>NTDB_id=793714 PWW23_RS15875 WP_005446257.1 3389604..3391289(+) (pilB) [Vibrio harveyi strain fish6]
MLTNLSTVLRQAGILTFSQEESLLEQAKASGISMPEALLSSGFFQSHELTEHLSSIFGLSCTSLSQYEYSSLCQKLGLRD
LITRHNALPLNRTSSTLILAVADPTNLQAEDDFRFATGLQVELVLADFKELTAAIRRLYGRALGQEKSGLKEINQDELAG
LVDIGEDEIENIEDLSQDESPVSRYINQILLDAVRKGASDIHFEPYENMYRVRLRCDGILIEIQQPPSHLSRRLSARIKI
LSKLDIAERRLPQDGRIKLKLNQDTAIDMRVSTLPTLFGEKIVLRLLDSSSAALDINKLGYSDHQKQLYLEALRRPQGMI
LMTGPTGSGKTVSLYTGLSILNKTEINISTAEDPVEINLPGINQVQVQPKIGFGFAEALRSFLRQDPDVVMVGEIRDLDT
AEIAIKASQTGHLVLSTLHTNSAAETVIRLSNMGVESFNLASSLSLIIAQRLARKLCPHCRQPQEPNSQLQHIGITSTED
IFQANPDGCNECTQGYSGRTGIYEVMKFDESLSNALIKGASVHELEKLAIANGMQTLQMSGIEKLKQGVTSFSELQRVLY
F

Nucleotide


Download         Length: 1686 bp        

>NTDB_id=793714 PWW23_RS15875 WP_005446257.1 3389604..3391289(+) (pilB) [Vibrio harveyi strain fish6]
ATGTTAACCAACCTCTCAACGGTTCTTCGTCAAGCGGGAATACTGACCTTTTCCCAAGAAGAATCGTTACTTGAGCAAGC
TAAAGCTTCTGGCATTTCGATGCCGGAGGCTTTACTCAGTTCTGGCTTTTTTCAATCTCACGAGTTGACTGAGCACCTTA
GCTCCATCTTTGGGCTTTCCTGCACATCACTCAGTCAGTATGAGTACTCGTCGCTGTGCCAAAAGCTTGGCTTACGCGAT
CTGATCACTCGACATAATGCCTTGCCACTCAATCGCACATCTTCGACATTAATACTCGCGGTTGCAGACCCAACTAACTT
ACAAGCGGAAGATGACTTTCGTTTTGCTACCGGTTTACAAGTCGAGCTAGTTCTGGCGGACTTTAAAGAACTCACCGCAG
CCATTCGTCGTTTATATGGTCGTGCACTCGGTCAAGAAAAGTCCGGTCTTAAAGAAATCAACCAAGATGAACTGGCAGGT
CTCGTTGATATTGGTGAGGACGAAATTGAGAACATTGAAGATCTCAGCCAAGATGAATCGCCTGTTAGTCGTTATATTAA
CCAAATTCTGCTCGATGCCGTTCGTAAAGGGGCTTCTGATATTCACTTCGAGCCCTATGAAAACATGTATCGAGTGCGTT
TGCGTTGCGATGGCATCTTGATCGAAATTCAACAGCCTCCGAGCCATTTAAGCCGTCGCCTCTCAGCCCGAATAAAGATC
CTATCTAAGCTTGATATCGCTGAGCGCCGTTTACCACAGGATGGTCGCATCAAGCTCAAATTAAACCAAGACACCGCGAT
TGATATGCGCGTTTCTACACTGCCAACTCTGTTTGGGGAGAAAATCGTACTGCGTTTGCTCGACAGCAGTTCTGCAGCAT
TAGATATCAATAAACTCGGATACAGCGATCATCAAAAGCAATTGTATTTAGAAGCACTGCGCCGCCCACAAGGCATGATC
CTAATGACAGGACCAACGGGCAGCGGCAAAACGGTTTCTCTTTACACTGGTTTGAGCATTCTCAATAAAACCGAGATCAA
TATTTCCACCGCTGAAGACCCCGTTGAGATCAACTTACCTGGCATTAACCAAGTTCAAGTTCAACCTAAGATCGGCTTTG
GCTTTGCAGAAGCGCTTCGCTCTTTCTTACGTCAAGATCCCGATGTAGTCATGGTGGGTGAGATCCGAGATCTCGACACG
GCAGAAATCGCGATCAAAGCGTCACAAACCGGACACTTAGTCCTTTCTACCCTGCATACCAACTCCGCTGCCGAGACGGT
CATTCGCTTATCAAATATGGGGGTAGAAAGCTTTAACCTCGCATCCTCTCTTAGCTTGATCATCGCTCAGCGTTTAGCAC
GAAAGCTTTGTCCACATTGCAGACAACCTCAAGAACCTAACAGCCAACTTCAACATATTGGAATTACCAGCACTGAAGAT
ATCTTCCAAGCGAATCCTGATGGTTGTAACGAATGCACCCAAGGATACTCTGGTCGCACTGGCATTTACGAAGTGATGAA
GTTTGATGAATCCCTGTCAAATGCGCTCATCAAAGGCGCTTCAGTACATGAATTAGAAAAGCTAGCGATTGCCAATGGTA
TGCAGACTCTACAAATGTCCGGCATTGAAAAGCTCAAACAAGGCGTCACCAGCTTTAGTGAGCTGCAACGTGTTCTCTAT
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

96.613

100

0.966
  pilB Vibrio parahaemolyticus RIMD 2210633

89.661

100

0.897
  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

43.594

100

0.437
  pilB/pilB1 Synechocystis sp. PCC 6803

37.037

100

0.392
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

36.918

99.465

0.367
  pilF Thermus thermophilus HB27

36.477

100

0.365