Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   I0P84_RS01520 Genome accession   NZ_AP024524
Coordinates   335414..337123 (-) Length   569 a.a.
NCBI ID   WP_175966280.1    Uniprot ID   -
Organism   Acinetobacter variabilis strain RYU24     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 330414..342123
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  I0P84_RS01490 (RYU24_02920) - 330470..330793 (+) 324 WP_004787221.1 pyrimidine/purine nucleoside phosphorylase -
  I0P84_RS01495 (RYU24_02930) rlmB 330936..331685 (+) 750 WP_175966285.1 23S rRNA (guanosine(2251)-2'-O)-methyltransferase RlmB -
  I0P84_RS01500 (RYU24_02940) - 331731..332648 (+) 918 WP_175966283.1 DMT family transporter -
  I0P84_RS01505 (RYU24_02950) coaE 332687..333292 (-) 606 WP_175966282.1 dephospho-CoA kinase -
  I0P84_RS01510 (RYU24_02960) pilD 333294..334154 (-) 861 WP_175966281.1 prepilin peptidase Machinery gene
  I0P84_RS01515 (RYU24_02970) pilC 334154..335383 (-) 1230 WP_004787210.1 type II secretion system F family protein Machinery gene
  I0P84_RS01520 (RYU24_02980) pilB 335414..337123 (-) 1710 WP_175966280.1 type IV-A pilus assembly ATPase PilB Machinery gene
  I0P84_RS01525 (RYU24_02990) tpiA 337403..338194 (+) 792 WP_175966279.1 triose-phosphate isomerase -
  I0P84_RS01530 (RYU24_03000) secG 338208..338537 (+) 330 WP_004787204.1 preprotein translocase subunit SecG -
  I0P84_RS01560 (RYU24_03010) rimP 339502..340026 (+) 525 WP_034169753.1 ribosome maturation factor RimP -
  I0P84_RS01565 (RYU24_03020) nusA 340062..341546 (+) 1485 WP_004787201.1 transcription termination factor NusA -

Sequence

Protein


Download         Length: 569 a.a.        Molecular weight: 63543.60 Da        Isoelectric Point: 4.8353

>NTDB_id=85792 I0P84_RS01520 WP_175966280.1 335414..337123(-) (pilB) [Acinetobacter variabilis strain RYU24]
MTALQGSPRFTGFIRRLVYEGVLSAEDMRTALANAKQEKTDIVAYLVSHHNLSPTTIAETISVEFGEPLFDIGAYDPGQI
LREDIDEKLITKHRILPIYKNSNVLYVATSNPTNIEATDAIRFATKLNIETVIVEHNKLEKLIEQNFTEESTFDFDDDFD
LDVDVDTTDPNKEEDEKDKSEEAPIVKYINKLLIDAIRMGASDLHFEPYEKMYRVRYRVDGVLRQIATPPLQLANRLASR
LKVMSQMDISEKRVPQDGRIKLKLSKNKAIDFRVNSLPTLFGEKLVLRILDPSSAMLGIDALGYEPEQKELFMEALDKPQ
GMLLITGPTGSGKTVSLYTGLNILNREDTNISTAEDPVEINLQGINQVNVNNKVGLTFAAALKSFLRQDPDIVMVGEIRD
LETAEIAIKAAQTGHMVMSTLHTNSAPETLTRLRNMGVPSFNIATSVNLVIAQRLARRLCSQCKKPADIPQQSLLEMGFT
EADLQSPEFQIYEPVGCNECREGYKGRVGIYEVMKVTPEISRIIMEDGNAIEIAEASARAGFNNLRRSGLVKVMQGVTSL
QEVNRVTSE

Nucleotide


Download         Length: 1710 bp        

>NTDB_id=85792 I0P84_RS01520 WP_175966280.1 335414..337123(-) (pilB) [Acinetobacter variabilis strain RYU24]
ATGACAGCATTGCAGGGGTCACCAAGATTTACGGGGTTTATTCGTCGCCTGGTCTATGAAGGGGTATTATCGGCTGAAGA
TATGCGTACAGCTTTAGCCAATGCCAAACAAGAAAAAACGGATATCGTGGCCTATTTGGTCAGTCATCATAATCTTTCCC
CTACCACCATTGCCGAAACGATCTCAGTAGAATTTGGTGAGCCTTTATTTGATATTGGCGCTTATGATCCAGGACAAATC
CTGCGTGAAGATATCGATGAAAAGCTAATTACCAAACATCGAATTTTGCCAATTTATAAGAATTCCAATGTTCTTTATGT
TGCCACGAGCAATCCAACCAATATTGAAGCAACGGATGCCATCCGCTTTGCAACCAAACTGAATATCGAAACTGTTATTG
TTGAACACAATAAACTTGAAAAACTGATTGAGCAAAACTTTACTGAAGAAAGTACTTTTGATTTTGATGATGATTTCGAT
CTGGATGTCGATGTCGACACAACCGATCCAAATAAAGAAGAAGACGAAAAAGACAAAAGTGAAGAAGCCCCGATTGTTAA
ATATATTAATAAATTACTGATTGATGCCATTCGTATGGGGGCATCAGATTTACATTTTGAACCTTATGAAAAAATGTATC
GGGTACGCTATCGTGTTGATGGAGTCTTACGTCAAATTGCAACACCGCCGCTACAACTAGCAAACCGTTTGGCGTCACGT
TTAAAAGTTATGTCGCAAATGGACATTTCTGAGAAACGCGTGCCTCAAGACGGCCGTATTAAATTAAAGCTTTCAAAAAA
CAAAGCTATCGACTTCCGTGTTAACTCACTCCCTACCCTGTTTGGTGAAAAACTGGTTCTACGTATTCTAGATCCGTCTA
GTGCCATGCTGGGAATTGATGCTTTAGGTTATGAACCTGAGCAGAAAGAGTTATTCATGGAAGCCTTAGATAAACCGCAA
GGGATGTTACTGATTACCGGTCCTACTGGTTCCGGTAAAACCGTATCCCTTTATACGGGCTTAAACATCTTAAATCGTGA
AGATACCAATATTTCTACTGCGGAAGATCCGGTCGAGATTAATCTGCAAGGGATTAATCAGGTTAACGTGAATAATAAAG
TTGGCCTGACTTTCGCAGCGGCATTAAAATCCTTCTTGCGTCAGGATCCTGATATTGTCATGGTCGGTGAGATCCGTGAT
CTGGAAACAGCTGAAATTGCAATCAAGGCAGCCCAAACAGGTCATATGGTGATGTCAACCCTGCACACCAACAGTGCTCC
GGAAACTCTGACCCGTTTACGTAATATGGGCGTCCCTTCTTTCAATATCGCGACCTCGGTCAATCTAGTGATTGCGCAGC
GTCTGGCCCGTCGCTTGTGTTCACAATGTAAAAAGCCGGCTGATATTCCTCAGCAAAGTTTGCTAGAAATGGGCTTTACC
GAAGCAGATTTACAAAGCCCTGAATTTCAGATTTATGAGCCAGTCGGCTGTAATGAATGCCGTGAAGGTTATAAGGGCCG
GGTCGGTATTTACGAAGTCATGAAAGTCACACCTGAAATTTCAAGAATTATTATGGAAGATGGCAATGCCATTGAAATTG
CTGAAGCTTCCGCGCGTGCAGGATTTAACAATTTACGCCGATCAGGGTTAGTGAAGGTTATGCAGGGGGTGACTTCTTTA
CAGGAAGTCAATCGTGTAACCAGCGAATGA

Domains

Predicted by InterproScan.

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

(20-150)

Type II/IV secretion system protein (T2SSE)

(191-458)


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

80.702

100

0.808
  pilB Acinetobacter baylyi ADP1

76.667

100

0.768
  pilB Legionella pneumophila strain ERS1305867

50.883

99.473

0.506
  pilF Neisseria gonorrhoeae MS11

49.198

98.594

0.485
  pilB Vibrio parahaemolyticus RIMD 2210633

49.097

97.364

0.478
  pilB Vibrio campbellii strain DS40M4

48.825

97.188

0.475
  pilB Vibrio cholerae strain A1552

50.577

91.388

0.462
  pilF Thermus thermophilus HB27

38.179

100

0.383
  pilB/pilB1 Synechocystis sp. PCC 6803

34.804

100

0.374
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

37.138

97.012

0.36

Multiple sequence alignment