Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilB   Type   Machinery gene
Locus tag   GYK50_RS12395 Genome accession   NZ_CP048752
Coordinates   2923846..2925561 (+) Length   571 a.a.
NCBI ID   WP_093069698.1    Uniprot ID   -
Organism   Psychrobacter pacificensis strain WSY-P01     
Function   power the assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2918846..2930561
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GYK50_RS12365 (GYK50_12365) nusA 2918849..2920333 (-) 1485 WP_186475309.1 transcription termination factor NusA -
  GYK50_RS12370 (GYK50_12370) rimP 2920471..2920971 (-) 501 WP_212564038.1 ribosome maturation factor RimP -
  GYK50_RS12385 (GYK50_12385) secG 2921842..2922150 (-) 309 WP_021814138.1 preprotein translocase subunit SecG -
  GYK50_RS12390 (GYK50_12390) tpiA 2922366..2923178 (-) 813 WP_093069701.1 triose-phosphate isomerase -
  GYK50_RS12395 (GYK50_12395) pilB 2923846..2925561 (+) 1716 WP_093069698.1 type IV-A pilus assembly ATPase PilB Machinery gene
  GYK50_RS12400 (GYK50_12400) pilC 2926062..2927285 (+) 1224 WP_093069696.1 type II secretion system F family protein Machinery gene
  GYK50_RS12405 (GYK50_12405) pilD 2927293..2928195 (+) 903 WP_093069694.1 A24 family peptidase Machinery gene
  GYK50_RS12410 (GYK50_12410) coaE 2928299..2928985 (+) 687 WP_212564039.1 dephospho-CoA kinase -
  GYK50_RS12415 (GYK50_12415) rlmB 2928948..2929718 (-) 771 WP_093069689.1 23S rRNA (guanosine(2251)-2'-O)-methyltransferase RlmB -
  GYK50_RS12420 (GYK50_12420) - 2929965..2930300 (-) 336 WP_058023616.1 pyrimidine/purine nucleoside phosphorylase -

Sequence

Protein


Download         Length: 571 a.a.        Molecular weight: 62932.24 Da        Isoelectric Point: 5.0619

>NTDB_id=422632 GYK50_RS12395 WP_093069698.1 2923846..2925561(+) (pilB) [Psychrobacter pacificensis strain WSY-P01]
MSITTSKYGGLAQQLISDGVVSEANMKTAQIESQEQKIGLVPYLVDNKLADSYHLAQMLSQAFGDPLFDLDALSTDVIPK
DLVDEKIVRKFNALPLFKRGQRLFVALSDPTRVDAIDAIAFNSRLSIETIVVEENKLKKRIESVYADTMQSFDSFSDSDL
NVGFEDGDDDQDEGTTKLNDGVDEAPVVKFVNKMLVDAIRMGASDLHFEPYEKSFRVRFRVDGVMQKIASPPVQLAGKIA
ARLKVMSQMDISERRIPQDGRIKLKISKTKAIDFRVNSLPTLFGEKIVLRILDPSSAMLGIDALGYEPDQQEMFLEALHK
PQGMLLITGPTGSGKTVSLYTGINILNTGATNISTAEDPVEINLEGINQVNVNAKVGLTFANALKSFLRQDPDIVMVGEI
RDLETAEIAIKAAQTGHMVLSTLHTNSAPETLTRLRNMGVASFNIATSVNLVIAQRLARRLCKNCKKPINIPRQSLLEIG
FTDADLDNPDNVIYEPVGCNECREGYKGRVGIYEVMKVSPDISRIIMEDGNAIDIKDAALKNGFRDLRRSGVLKVLQGVT
SIQEMMRVTSE

Nucleotide


Download         Length: 1716 bp        

>NTDB_id=422632 GYK50_RS12395 WP_093069698.1 2923846..2925561(+) (pilB) [Psychrobacter pacificensis strain WSY-P01]
ATGTCTATTACAACCAGTAAATATGGTGGTCTAGCGCAGCAGCTCATCAGTGATGGTGTCGTTAGCGAAGCAAATATGAA
AACGGCACAGATTGAGTCGCAGGAGCAGAAAATCGGATTGGTGCCGTACCTTGTAGACAATAAACTGGCTGATTCTTATC
ACCTTGCTCAAATGTTATCACAAGCCTTTGGCGATCCCTTGTTCGATCTCGATGCGCTCAGCACTGATGTCATTCCAAAG
GACTTAGTCGATGAAAAAATCGTCCGTAAGTTTAATGCATTGCCATTATTCAAGCGCGGCCAACGCTTATTTGTAGCGCT
TAGTGATCCAACTCGTGTTGATGCTATTGATGCTATTGCCTTTAATTCTCGCTTGTCTATCGAAACGATTGTTGTTGAAG
AAAACAAGCTAAAAAAGCGTATCGAAAGCGTTTACGCTGATACGATGCAGAGCTTTGACAGCTTCTCTGACAGTGACTTA
AATGTTGGTTTTGAAGATGGTGATGACGATCAGGACGAAGGGACAACCAAACTTAATGATGGGGTCGATGAAGCACCTGT
TGTAAAATTCGTCAATAAAATGTTGGTCGATGCTATTCGCATGGGTGCCTCTGATTTGCACTTTGAGCCTTACGAAAAAT
CTTTCCGAGTACGTTTTCGTGTTGATGGCGTGATGCAAAAAATAGCCAGTCCGCCAGTCCAGCTCGCTGGTAAAATTGCG
GCTCGTCTAAAAGTCATGTCACAGATGGATATCTCAGAGCGCAGAATACCACAAGATGGTCGTATCAAGCTCAAAATCTC
TAAGACCAAAGCCATCGATTTCCGGGTAAACTCATTACCAACCTTATTCGGTGAAAAAATCGTTTTGCGTATCCTAGATC
CTTCATCAGCCATGCTTGGTATTGATGCGCTAGGGTATGAACCTGATCAGCAGGAGATGTTTTTAGAAGCGCTGCACAAA
CCACAAGGTATGCTACTGATTACTGGCCCTACTGGTTCTGGTAAGACAGTCTCTCTTTACACAGGTATCAATATCTTAAA
CACTGGTGCCACCAATATTTCAACCGCCGAAGACCCTGTGGAGATTAACCTTGAAGGTATCAATCAGGTCAATGTCAACG
CTAAGGTCGGCCTAACCTTTGCTAATGCGCTCAAGTCTTTTTTGCGTCAAGATCCTGATATTGTCATGGTTGGTGAGATT
CGTGACTTGGAAACTGCCGAGATCGCTATTAAAGCGGCACAAACAGGGCATATGGTACTCTCCACCCTACATACCAATTC
AGCACCTGAGACATTAACGCGTTTGCGTAATATGGGAGTGGCGTCTTTTAACATTGCAACGTCAGTCAACTTAGTCATTG
CGCAACGTTTGGCGCGGCGACTGTGTAAGAACTGTAAAAAACCGATCAATATCCCTCGTCAAAGTTTGCTAGAGATTGGT
TTTACTGATGCAGATTTGGATAATCCAGACAACGTGATTTATGAGCCAGTGGGCTGCAATGAGTGCCGTGAAGGTTATAA
AGGCCGTGTAGGTATTTATGAGGTGATGAAGGTCAGCCCCGACATCTCACGTATCATTATGGAAGACGGCAATGCCATAG
ATATCAAAGATGCGGCGCTCAAAAATGGTTTTCGAGATCTACGCCGTTCTGGGGTTTTAAAAGTTCTGCAAGGTGTCACT
AGTATTCAAGAAATGATGCGCGTTACTTCTGAATAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(193-460)

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

(44-148)


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

67.657

100

0.678
  pilB Acinetobacter baylyi ADP1

65.202

99.65

0.65
  pilB Legionella pneumophila strain ERS1305867

50.871

100

0.511
  pilF Neisseria gonorrhoeae MS11

50.268

97.898

0.492
  pilB Vibrio parahaemolyticus RIMD 2210633

49.074

94.571

0.464
  pilB Vibrio cholerae strain A1552

49.718

92.995

0.462
  pilB Vibrio campbellii strain DS40M4

48.79

94.046

0.459
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

35.846

100

0.375

Multiple sequence alignment