Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilF   Type   Machinery gene
Locus tag   NDR89_RS12420 Genome accession   NZ_CP098736
Coordinates   589722..591044 (-) Length   440 a.a.
NCBI ID   WP_420869256.1    Uniprot ID   -
Organism   Cupriavidus gilardii strain QJ1     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 584722..596044
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NDR89_RS12390 (NDR89_12390) - 585340..585744 (+) 405 WP_053822561.1 NUDIX domain-containing protein -
  NDR89_RS12395 (NDR89_12395) - 585772..585960 (-) 189 WP_053822560.1 DNA gyrase inhibitor YacG -
  NDR89_RS12400 (NDR89_12400) zapD 585967..586725 (-) 759 WP_006578256.1 cell division protein ZapD -
  NDR89_RS12405 (NDR89_12405) coaE 586976..587608 (-) 633 WP_252253411.1 dephospho-CoA kinase -
  NDR89_RS12410 (NDR89_12410) - 587621..588562 (-) 942 WP_276512689.1 prepilin peptidase -
  NDR89_RS12415 (NDR89_12415) - 588564..589688 (-) 1125 WP_252253412.1 type II secretion system F family protein -
  NDR89_RS12420 (NDR89_12420) pilF 589722..591044 (-) 1323 WP_420869256.1 GspE/PulE family protein Machinery gene
  NDR89_RS12430 (NDR89_12430) ispB 591243..592172 (-) 930 WP_053822557.1 octaprenyl diphosphate synthase -
  NDR89_RS12435 (NDR89_12435) rplU 592717..593028 (+) 312 WP_006576525.1 50S ribosomal protein L21 -
  NDR89_RS12440 (NDR89_12440) rpmA 593092..593352 (+) 261 WP_053822556.1 50S ribosomal protein L27 -
  NDR89_RS12445 (NDR89_12445) obgE 593490..594587 (+) 1098 WP_053822555.1 GTPase ObgE -
  NDR89_RS12450 (NDR89_12450) proB 594650..595774 (+) 1125 WP_053822554.1 glutamate 5-kinase -

Sequence

Protein


Download         Length: 440 a.a.        Molecular weight: 47333.79 Da        Isoelectric Point: 8.3207

>NTDB_id=697497 NDR89_RS12420 WP_420869256.1 589722..591044(-) (pilF) [Cupriavidus gilardii strain QJ1]
MPVPAGASHTGPLPHCVPPAMIAMTAPSDAPIEYDPAMPSADDAPVVRFVQTLLAEACRRGASDLHFEPYEGFYRVRFRI
DGQLHEVARPPLDIRDRIATRIKVLARLDIAEKRVPQDGRMRFVVPRRDGEATPDGAAGRAVDLRVSTLPTLFGEKIVLR
MLAASSVRLDMDSLGLEPTQLAVLLERLRRPHGMVLVTGPTGSGKTVSLYAFLNLLNQHERNISTAEDPAEIQLAGINQV
NIHDKIGLNFPTVLRALLRQDPDVIMVGEIRDAETADVAVKAAQTGHLVLSTLHTNDAPGTLTRLAQLGVAPFHLAASVL
VITAQRLARMLCACKRPVPVPLSALREAGFADTLLDGDWQPCQPVGCAACRGSGYRGRCGIHQVMPVSDAMQGIILSRGS
ARALAQQARREGVLSLREAGLLKVRAGTTSLAEVLATTNP

Nucleotide


Download         Length: 1323 bp        

>NTDB_id=697497 NDR89_RS12420 WP_420869256.1 589722..591044(-) (pilF) [Cupriavidus gilardii strain QJ1]
ATTCCCGTTCCCGCCGGCGCATCGCACACTGGGCCACTCCCGCACTGCGTCCCGCCCGCCATGATCGCCATGACCGCCCC
GTCCGATGCGCCGATCGAATACGACCCCGCCATGCCATCGGCCGACGACGCGCCGGTCGTGCGCTTCGTCCAGACGCTGC
TGGCCGAGGCCTGCCGGCGCGGCGCCTCGGACCTGCACTTCGAGCCGTACGAAGGCTTCTATCGCGTGCGCTTTCGCATC
GATGGGCAGCTGCACGAGGTCGCCCGTCCGCCGCTGGACATTCGCGATCGCATCGCGACGCGGATCAAGGTGCTGGCGCG
GCTGGACATCGCCGAGAAGCGTGTACCGCAGGATGGCCGCATGCGGTTCGTGGTGCCGCGGCGCGACGGCGAGGCGACGC
CTGACGGGGCCGCCGGCCGCGCGGTCGATCTGCGCGTATCGACGCTGCCGACGCTGTTCGGCGAAAAGATCGTGCTGCGC
ATGCTGGCCGCGTCCAGCGTGCGGCTCGATATGGACAGCCTGGGCCTCGAGCCGACGCAGCTGGCCGTGCTGCTCGAGCG
GCTGCGCCGTCCGCACGGCATGGTGCTGGTCACCGGTCCGACCGGCAGCGGCAAGACCGTTTCGCTGTACGCCTTCCTGA
ATCTGCTGAACCAGCACGAGCGCAATATCTCGACGGCCGAGGACCCGGCCGAGATCCAGCTGGCCGGCATCAACCAGGTC
AATATCCACGACAAGATCGGCCTGAACTTCCCCACCGTGCTGCGAGCGTTGCTGCGGCAGGACCCGGACGTGATCATGGT
CGGCGAGATCCGCGATGCCGAAACCGCCGATGTCGCGGTCAAGGCGGCGCAGACCGGCCATCTGGTCCTGTCGACGCTGC
ACACCAACGATGCGCCGGGCACGCTGACACGGCTCGCGCAGCTTGGCGTCGCGCCCTTTCACCTGGCCGCCAGCGTGCTG
GTGATCACCGCGCAGCGGCTGGCCCGCATGCTGTGCGCCTGCAAACGTCCGGTCCCGGTGCCGCTGTCCGCGCTGCGCGA
GGCCGGTTTCGCGGACACGCTGCTCGACGGCGACTGGCAGCCCTGCCAGCCGGTCGGCTGCGCCGCCTGCCGCGGCAGCG
GTTATCGCGGGCGTTGCGGCATCCATCAGGTGATGCCGGTCTCCGACGCGATGCAGGGCATCATCCTGTCGCGGGGCAGT
GCCCGTGCGCTGGCCCAGCAGGCGCGCCGCGAGGGCGTGCTATCGTTGCGCGAGGCGGGGCTGCTCAAGGTCAGGGCGGG
CACGACCTCGCTGGCCGAGGTGCTGGCGACGACCAATCCATAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(53-330)


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
  pilF Neisseria gonorrhoeae MS11

57.107

91.136

0.52
  pilB Acinetobacter baumannii D1279779

53.465

91.818

0.491
  pilB Acinetobacter baylyi ADP1

54.198

89.318

0.484
  pilB Vibrio cholerae strain A1552

52.736

91.364

0.482
  pilB Legionella pneumophila strain ERS1305867

49.635

93.409

0.464
  pilB Vibrio parahaemolyticus RIMD 2210633

51.01

90

0.459
  pilB Vibrio campbellii strain DS40M4

50.758

90

0.457
  pilB/pilB1 Synechocystis sp. PCC 6803

42.584

95

0.405
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

42.68

91.591

0.391
  pilF Thermus thermophilus HB27

41.96

90.455

0.38
  pilB Glaesserella parasuis strain SC1401

38.249

98.636

0.377
  pilB Haemophilus influenzae 86-028NP

38.018

98.636

0.375
  pilB Haemophilus influenzae Rd KW20

37.788

98.636

0.373