Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   AKN93_RS04305 Genome accession   NZ_CP012360
Coordinates   879898..881589 (+) Length   563 a.a.
NCBI ID   WP_053105044.1    Uniprot ID   -
Organism   Thiopseudomonas alkaliphila strain C6918     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 874898..886589
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AKN93_RS04265 (AKN93_04275) rpsM 874990..875346 (+) 357 WP_053100995.1 30S ribosomal protein S13 -
  AKN93_RS04270 (AKN93_04280) rpsK 875377..875766 (+) 390 WP_053100996.1 30S ribosomal protein S11 -
  AKN93_RS04275 (AKN93_04285) rpsD 875785..876405 (+) 621 WP_053100997.1 30S ribosomal protein S4 -
  AKN93_RS04280 (AKN93_04290) - 876428..877429 (+) 1002 WP_053100998.1 DNA-directed RNA polymerase subunit alpha -
  AKN93_RS04285 (AKN93_04295) rplQ 877473..877856 (+) 384 WP_053100999.1 50S ribosomal protein L17 -
  AKN93_RS04290 (AKN93_04300) - 877935..878351 (+) 417 WP_053103338.1 PACE efflux transporter -
  AKN93_RS04295 (AKN93_04305) elbB 878394..879047 (+) 654 WP_053105042.1 isoprenoid biosynthesis glyoxalase ElbB -
  AKN93_RS04300 (AKN93_04310) - 879118..879627 (-) 510 WP_053105043.1 pilin -
  AKN93_RS04305 (AKN93_04315) pilB 879898..881589 (+) 1692 WP_053105044.1 type IV-A pilus assembly ATPase PilB Machinery gene
  AKN93_RS04310 (AKN93_04320) pilC 881595..882812 (+) 1218 WP_053105045.1 type II secretion system F family protein Machinery gene
  AKN93_RS04315 (AKN93_04325) pilD 882816..883715 (+) 900 WP_053105046.1 prepilin peptidase Machinery gene
  AKN93_RS04320 (AKN93_04330) - 883923..884204 (-) 282 WP_053105047.1 GIY-YIG nuclease family protein -
  AKN93_RS04325 (AKN93_04335) - 884469..885458 (-) 990 WP_053105048.1 hypothetical protein -

Sequence

Protein


Download         Length: 563 a.a.        Molecular weight: 62480.48 Da        Isoelectric Point: 6.0610

>NTDB_id=153772 AKN93_RS04305 WP_053105044.1 879898..881589(+) (pilB) [Thiopseudomonas alkaliphila strain C6918]
MELSSGLIGLAGQIVKLGLADYKKVLNSVEDARLAGQPIISWLVHNKIVTSREVMTLATSQFGVASFDLSCFKIKLLSKD
LLSERIVRKHRVLPLAKRGNLLYVALADPGDQLVLNEIKFTTGCAVELVVVEQDKLDLLIEQLYDSLLESFESLADEVLE
ESEYIEIQNELIIDAIDEAPIVKFVNSMLLRAIKIGASDLHFEPYENSYRVRFRTDGILHEVSKQPVGLRDRISTRLKVM
ASIDISERRKPQDGRIKLKVSSVKSINFRVNTLPTLWGEKIVLRILDSDSTKLGIDSLGYESAQKKLYLEALDLPQGMIL
VTGPTGSGKSVSLYTGINIINTVERNISTAEDPVEIYLEGINQVNVNFKQGLDFAQALRAFLRQDPDVIMIGEIRDLETA
EIAIKAAQTGHMVMSTLHTNSAADTLTRLRNMGVAAFNLAISINLIIAQRLARRLCNICKSVKKIPVDILLQEGFSLEQV
GTFKVYEAVGCDKCNAGYKGRIGIYEVVKITPTLQAIIMEGGNPIEINQQIRKEGFNDLRTSALEKVIQGVVSLEEVNRV
TKD

Nucleotide


Download         Length: 1692 bp        

>NTDB_id=153772 AKN93_RS04305 WP_053105044.1 879898..881589(+) (pilB) [Thiopseudomonas alkaliphila strain C6918]
ATGGAGTTATCAAGCGGCTTAATAGGTCTGGCAGGACAAATTGTCAAATTAGGTTTGGCAGACTATAAAAAGGTTTTAAA
CTCTGTTGAAGATGCTAGGCTGGCGGGCCAGCCAATTATTTCTTGGCTAGTGCATAATAAAATTGTCACTTCTCGGGAAG
TGATGACATTAGCTACAAGCCAATTTGGAGTAGCTAGTTTTGATTTAAGCTGTTTTAAAATAAAATTACTGAGTAAAGAT
TTACTTAGTGAAAGAATTGTTCGTAAACACCGAGTATTACCTTTAGCTAAGCGAGGCAATCTGCTTTATGTTGCCTTGGC
AGACCCTGGAGATCAGCTTGTACTTAATGAAATAAAATTTACGACTGGCTGTGCTGTTGAGCTAGTCGTAGTAGAGCAAG
ATAAATTGGATCTGCTTATTGAGCAACTTTATGACAGCTTGCTTGAGAGTTTTGAAAGTCTGGCTGATGAAGTCTTAGAA
GAGTCTGAGTATATTGAAATACAAAATGAGCTAATAATAGATGCTATAGATGAGGCTCCTATAGTTAAATTTGTAAATAG
TATGTTATTGCGTGCTATTAAAATAGGTGCTTCAGATTTACATTTTGAACCCTATGAAAATAGTTATAGAGTTCGCTTTC
GTACTGATGGGATATTGCATGAAGTAAGCAAGCAGCCTGTAGGTTTACGTGATCGGATCTCTACACGGCTCAAGGTTATG
GCTAGCATTGATATTTCTGAGCGTCGTAAACCACAAGACGGAAGAATTAAACTAAAGGTATCATCGGTAAAGTCTATAAA
TTTTCGAGTTAATACTTTACCTACTTTATGGGGTGAAAAAATTGTGCTAAGGATTTTAGATTCTGATAGTACAAAACTAG
GAATTGACTCGTTAGGCTATGAGTCAGCACAAAAAAAGCTTTATTTAGAAGCTTTAGATTTACCCCAAGGTATGATTTTA
GTGACTGGGCCTACTGGCTCGGGTAAAAGTGTATCTTTATATACAGGAATCAATATTATCAACACTGTAGAACGTAACAT
TTCTACTGCAGAAGATCCTGTGGAAATCTATTTGGAAGGGATTAATCAAGTTAATGTTAACTTCAAGCAAGGACTGGATT
TTGCACAAGCTTTGCGTGCTTTTTTACGACAGGATCCTGATGTAATAATGATTGGAGAAATTCGTGACTTAGAAACTGCA
GAAATTGCAATTAAGGCGGCACAAACTGGACACATGGTAATGTCAACTTTACATACAAATAGTGCTGCAGACACTCTTAC
ACGTCTACGTAATATGGGAGTAGCAGCCTTTAATTTAGCTATTTCGATTAATTTAATCATTGCCCAACGGTTAGCTAGAC
GTTTATGTAATATATGTAAGTCTGTTAAGAAAATACCAGTTGATATTTTATTGCAGGAGGGTTTTAGCTTAGAGCAAGTA
GGCACTTTTAAGGTATATGAGGCTGTTGGCTGTGATAAGTGTAATGCGGGATATAAAGGGCGAATTGGAATTTATGAAGT
GGTGAAAATTACACCTACATTACAAGCTATTATTATGGAAGGGGGGAATCCTATTGAAATTAACCAACAAATACGTAAAG
AAGGTTTTAATGATCTACGCACTTCAGCGTTAGAGAAGGTAATTCAGGGAGTTGTTAGTTTAGAAGAGGTGAATCGAGTA
ACTAAGGATTAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(187-454)

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

(43-146)


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 baylyi ADP1

54.383

99.29

0.54
  pilB Acinetobacter baumannii D1279779

55.393

97.158

0.538
  pilB Legionella pneumophila strain ERS1305867

52.72

94.671

0.499
  pilB Vibrio parahaemolyticus RIMD 2210633

47.473

98.401

0.467
  pilF Neisseria gonorrhoeae MS11

48.972

95.027

0.465
  pilB Vibrio campbellii strain DS40M4

46.263

99.822

0.462
  pilB Vibrio cholerae strain A1552

47.932

94.494

0.453
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

37.091

97.691

0.362

Multiple sequence alignment