Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   AKN89_RS04990 Genome accession   NZ_CP012364
Coordinates   1062126..1063817 (-) Length   563 a.a.
NCBI ID   WP_053108120.1    Uniprot ID   -
Organism   Thiopseudomonas alkaliphila strain E1148     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1057126..1068817
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AKN89_RS04970 (AKN89_04970) - 1058402..1059391 (+) 990 WP_053108117.1 hypothetical protein -
  AKN89_RS04975 (AKN89_04975) - 1059611..1059892 (+) 282 WP_053101006.1 GIY-YIG nuclease family protein -
  AKN89_RS04980 (AKN89_04980) pilD 1060003..1060899 (-) 897 WP_053108118.1 prepilin peptidase Machinery gene
  AKN89_RS04985 (AKN89_04985) pilC 1060903..1062120 (-) 1218 WP_053108119.1 type II secretion system F family protein Machinery gene
  AKN89_RS04990 (AKN89_04990) pilB 1062126..1063817 (-) 1692 WP_053108120.1 type IV-A pilus assembly ATPase PilB Machinery gene
  AKN89_RS04995 (AKN89_04995) - 1064087..1064596 (+) 510 WP_053108121.1 pilin -
  AKN89_RS05000 (AKN89_05000) elbB 1064667..1065320 (-) 654 WP_053106023.1 isoprenoid biosynthesis glyoxalase ElbB -
  AKN89_RS05005 (AKN89_05005) - 1065363..1065779 (-) 417 WP_053106024.1 PACE efflux transporter -
  AKN89_RS05010 (AKN89_05010) rplQ 1065858..1066241 (-) 384 WP_053100999.1 50S ribosomal protein L17 -
  AKN89_RS05015 (AKN89_05015) - 1066285..1067286 (-) 1002 WP_053100998.1 DNA-directed RNA polymerase subunit alpha -
  AKN89_RS05020 (AKN89_05020) rpsD 1067309..1067929 (-) 621 WP_053100997.1 30S ribosomal protein S4 -
  AKN89_RS05025 (AKN89_05025) rpsK 1067948..1068337 (-) 390 WP_053100996.1 30S ribosomal protein S11 -
  AKN89_RS05030 (AKN89_05030) rpsM 1068368..1068724 (-) 357 WP_053100995.1 30S ribosomal protein S13 -

Sequence

Protein


Download         Length: 563 a.a.        Molecular weight: 62377.47 Da        Isoelectric Point: 6.5180

>NTDB_id=153829 AKN89_RS04990 WP_053108120.1 1062126..1063817(-) (pilB) [Thiopseudomonas alkaliphila strain E1148]
MELSSGLIGLAGQIVKLGLADYKKVLNSVADARLAGQPIISWLVHNKIVTSREVMTLATSQFGVASFDLSCFKIKLLSKD
LLSERIVRKHRVLPLAKRGNLLYVALADPGDQLVLNEIKFTTGCAVELVVVEQDKLDLLIEQLYDSLLESFESLADEVLE
ESEYIEIQNELIIDAVDEAPIVKFVNNMLLRAIKIGASDLHFEPYENSYRVRFRTDGILHEVSKQPVGLRDRISTRLKVM
ASIDISERRKPQDGRIKLKVSSIKSINFRVNTLPTLWGEKIVLRILDSDSTKLGIDSLGYESAQKKLYLEALDLPQGMIL
VTGPTGSGKSVSLYTGINIINTVERNISTAEDPVEIYLEGINQVNVNFKQGMDFAQALRAFLRQDPDVIMIGEIRDLETA
EIAIKAAQTGHMVMSTLHTNSAADTLTRLRNMGVAAFNLAISINLIIAQRLARRLCNICKAVKKIPIDILLQEGFSLEQV
GTFKVYEAVGCDKCNAGYKGRIGIYEVVKITPALQAIIMAGGNPIEINQQIRKEGFNDLRTSALEKVIQGVVSLEEVNRV
TKD

Nucleotide


Download         Length: 1692 bp        

>NTDB_id=153829 AKN89_RS04990 WP_053108120.1 1062126..1063817(-) (pilB) [Thiopseudomonas alkaliphila strain E1148]
ATGGAGTTATCAAGCGGCTTAATAGGTCTGGCAGGACAAATTGTCAAATTAGGTTTAGCAGATTATAAAAAGGTTTTAAA
CTCTGTTGCAGATGCTAGGCTGGCGGGCCAGCCAATTATTTCTTGGCTAGTGCATAATAAAATTGTCACTTCTCGGGAAG
TGATGACATTAGCTACAAGCCAATTTGGAGTAGCTAGTTTTGATTTAAGCTGTTTTAAAATAAAATTACTGAGTAAAGAT
TTACTTAGTGAAAGAATTGTTCGTAAACACCGAGTATTACCTTTAGCTAAGCGAGGCAATCTGCTTTATGTTGCCTTGGC
AGACCCTGGAGATCAGCTTGTACTTAATGAAATAAAATTTACGACTGGCTGTGCTGTTGAGCTAGTCGTAGTAGAGCAAG
ATAAATTGGATCTGCTTATTGAGCAACTTTATGACAGCTTGCTTGAGAGTTTTGAAAGTCTGGCTGATGAAGTCTTAGAA
GAGTCTGAGTATATTGAAATACAAAATGAGCTAATAATAGATGCTGTAGATGAGGCTCCTATAGTTAAGTTTGTAAATAA
TATGTTATTGCGTGCTATTAAAATAGGTGCTTCAGATTTACATTTTGAACCCTATGAAAATAGTTATAGAGTTCGCTTTC
GTACTGATGGGATATTGCATGAAGTAAGCAAGCAGCCTGTAGGTTTACGTGATCGGATCTCTACACGGCTCAAGGTCATG
GCTAGCATTGACATTTCTGAGCGTCGTAAACCACAAGACGGAAGAATTAAACTAAAGGTATCATCGATAAAGTCTATAAA
TTTTCGAGTTAATACTTTACCTACTTTATGGGGTGAAAAAATTGTACTAAGGATTTTAGATTCTGATAGTACAAAACTAG
GAATTGACTCGTTAGGCTATGAGTCAGCACAAAAAAAGCTTTATTTAGAAGCTTTAGATTTACCCCAAGGTATGATTTTA
GTGACTGGGCCTACTGGCTCGGGTAAAAGTGTATCTTTATATACAGGAATCAATATTATCAACACTGTAGAACGTAACAT
TTCTACTGCAGAAGATCCTGTGGAAATCTATTTGGAAGGGATTAATCAAGTTAATGTTAACTTCAAGCAAGGAATGGATT
TTGCACAAGCTTTGCGTGCTTTTTTACGACAGGATCCTGATGTAATAATGATTGGAGAAATTCGTGACTTAGAAACTGCA
GAAATTGCAATTAAGGCGGCACAAACTGGACACATGGTAATGTCAACTTTACATACAAATAGTGCTGCAGACACTCTTAC
ACGTCTACGTAATATGGGAGTAGCAGCCTTTAATTTAGCTATTTCGATTAATTTAATCATTGCCCAACGGTTAGCTAGAC
GTTTATGTAACATATGTAAGGCTGTTAAGAAAATACCAATTGATATTTTATTGCAGGAGGGTTTTAGTTTAGAGCAAGTA
GGCACTTTTAAGGTATATGAGGCTGTTGGCTGTGATAAGTGTAATGCGGGATATAAAGGGCGAATTGGAATTTATGAAGT
GGTGAAAATTACACCTGCATTACAAGCTATTATTATGGCAGGGGGGAATCCTATTGAAATTAACCAACAAATACGTAAAG
AAGGTTTTAATGATCTACGCACTTCAGCGTTAGAGAAGGTAATTCAGGGAGTTGTTAGTTTAGAAGAGGTGAATCGAGTA
ACTAAGGATTAA

Domains

Predicted by InterproScan.

Type II secretion system (T2SS), protein E, N-terminal domain (MshEN)

(43-146)

Type II/IV secretion system protein (T2SSE)

(187-454)


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 Acinetobacter baumannii D1279779

55.433

96.448

0.535
  pilB Acinetobacter baylyi ADP1

53.846

99.29

0.535
  pilB Legionella pneumophila strain ERS1305867

52.72

94.671

0.499
  pilB Vibrio parahaemolyticus RIMD 2210633

47.112

98.401

0.464
  pilF Neisseria gonorrhoeae MS11

48.785

95.027

0.464
  pilB Vibrio campbellii strain DS40M4

46.085

99.822

0.46
  pilB Vibrio cholerae strain A1552

48.218

94.671

0.456
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

37.455

97.691

0.366

Multiple sequence alignment