Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilF   Type   Machinery gene
Locus tag   U0034_RS06865 Genome accession   NZ_CP139970
Coordinates   1509594..1510814 (+) Length   406 a.a.
NCBI ID   WP_085223120.1    Uniprot ID   -
Organism   Trinickia caryophylli strain HAMBI_2159     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1504594..1515814
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  U0034_RS06835 (U0034_06830) cgtA 1504760..1505875 (-) 1116 WP_085223131.1 Obg family GTPase CgtA -
  U0034_RS06840 (U0034_06835) rpmA 1506044..1506307 (-) 264 WP_085223129.1 50S ribosomal protein L27 -
  U0034_RS06845 (U0034_06840) rplU 1506336..1506647 (-) 312 WP_085223127.1 50S ribosomal protein L21 -
  U0034_RS06850 (U0034_06845) - 1506889..1507881 (+) 993 WP_085223125.1 polyprenyl synthetase family protein -
  U0034_RS06860 (U0034_06855) - 1508184..1509479 (+) 1296 WP_176072574.1 HlyC/CorC family transporter -
  U0034_RS06865 (U0034_06860) pilF 1509594..1510814 (+) 1221 WP_085223120.1 GspE/PulE family protein Machinery gene
  U0034_RS06870 (U0034_06865) - 1510811..1512055 (+) 1245 WP_085223118.1 type II secretion system F family protein -
  U0034_RS06875 (U0034_06870) - 1512096..1513004 (+) 909 WP_269149713.1 A24 family peptidase -
  U0034_RS06880 (U0034_06875) coaE 1513008..1513634 (+) 627 WP_085223116.1 dephospho-CoA kinase -
  U0034_RS06885 (U0034_06880) zapD 1513828..1514583 (+) 756 WP_085223114.1 cell division protein ZapD -
  U0034_RS06890 (U0034_06885) yacG 1514684..1514878 (+) 195 WP_085223112.1 DNA gyrase inhibitor YacG -
  U0034_RS06895 (U0034_06890) - 1514927..1515364 (-) 438 WP_085223110.1 NUDIX domain-containing protein -

Sequence

Protein


Download         Length: 406 a.a.        Molecular weight: 43493.08 Da        Isoelectric Point: 8.5149

>NTDB_id=912096 U0034_RS06865 WP_085223120.1 1509594..1510814(+) (pilF) [Trinickia caryophylli strain HAMBI_2159]
MSRSLSSPIATLPPADPDDVPAVRLLADTLARASALRASDIHVEPGEGNWRIRLRIDGVLHETAHPPAHLRDGFVTRVKV
LARLDIAERRVPQDGRLRLAVGPGSVEDYRVSSLPTLHGEKLVLRRLDAMPADLSLAGLGFDPPQRLLVEAAIAAPHGLV
IVTGPTGSGKTLSLYSFLQALNAHSRNLCTVEDPAEIQLPGINQVNVREKAGLTFAVALRALLRQDPDVIMVGEIRDGET
ADVALKAAQTGHLVLSTLHTNDAPGAIARLIDIGVAPYNLAAALRLVTAQRLVRRLCPHCRARGAYCSTPLRAAGFADHE
LDGWMPFVAAGCAACHEIGYRGRIGLHQVMPVSARMRELIAKRANTEAIGRQARAEGMQTLRQAALARVRDGSTTLEEAL
GATEPT

Nucleotide


Download         Length: 1221 bp        

>NTDB_id=912096 U0034_RS06865 WP_085223120.1 1509594..1510814(+) (pilF) [Trinickia caryophylli strain HAMBI_2159]
ATGTCCCGCTCTCTTTCCTCTCCGATCGCCACGTTGCCTCCGGCAGATCCGGACGACGTCCCGGCCGTGCGCCTGCTTGC
CGATACGCTCGCGCGCGCATCCGCCCTGCGCGCGTCCGATATTCACGTCGAGCCTGGCGAAGGCAACTGGCGCATCCGGT
TGCGCATCGACGGCGTGCTTCACGAAACCGCGCATCCGCCGGCCCACCTTCGGGACGGCTTCGTGACCCGCGTGAAAGTC
CTGGCCCGGCTCGACATCGCGGAGCGCCGGGTGCCACAGGACGGGCGGCTGCGCCTCGCCGTCGGACCGGGCAGCGTGGA
AGACTATCGCGTGAGCTCGCTGCCCACGCTGCATGGTGAAAAGCTCGTCTTGCGGCGGCTCGATGCCATGCCCGCCGACC
TCTCGCTCGCGGGACTCGGCTTCGATCCACCTCAACGTCTGCTCGTCGAGGCAGCGATCGCCGCGCCGCACGGCCTCGTC
ATCGTCACGGGGCCTACCGGCAGCGGCAAGACGCTCTCGCTCTACAGCTTCCTGCAGGCGCTGAACGCCCATTCACGCAA
CTTGTGCACCGTCGAGGACCCGGCGGAAATCCAGTTGCCCGGCATCAATCAGGTCAACGTCCGCGAGAAAGCCGGCCTCA
CCTTCGCTGTGGCGCTCCGGGCGCTGCTGCGTCAGGACCCCGACGTCATCATGGTCGGCGAAATCCGCGACGGCGAGACA
GCCGACGTGGCGCTCAAGGCGGCCCAGACCGGACACCTCGTGCTTTCGACGCTGCACACGAACGACGCCCCCGGCGCGAT
CGCACGTTTGATCGACATCGGCGTGGCGCCCTACAACCTCGCCGCGGCGCTGCGCCTCGTCACCGCCCAGAGGCTCGTGA
GGCGCCTTTGTCCGCATTGCCGCGCGCGCGGCGCCTATTGCAGCACGCCCCTGCGCGCGGCCGGCTTCGCCGACCATGAA
CTCGACGGCTGGATGCCGTTCGTCGCGGCGGGCTGCGCGGCCTGTCATGAAATCGGCTACCGCGGGCGTATCGGTCTGCA
CCAGGTGATGCCCGTGTCCGCAAGAATGCGCGAGTTGATCGCCAAGCGCGCGAACACCGAAGCCATCGGACGGCAGGCCC
GAGCGGAAGGCATGCAAACGCTGCGCCAAGCGGCGCTGGCGCGCGTGCGCGACGGGTCGACGACGCTCGAAGAAGCGCTC
GGCGCAACGGAGCCGACATGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(32-295)


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

50.639

96.305

0.488
  pilB Vibrio cholerae strain A1552

49.744

96.059

0.478
  pilB Legionella pneumophila strain ERS1305867

49.215

94.089

0.463
  pilB Vibrio campbellii strain DS40M4

47.194

96.552

0.456
  pilB Acinetobacter baumannii D1279779

47.52

94.335

0.448
  pilB Acinetobacter baylyi ADP1

47.632

93.596

0.446
  pilB Vibrio parahaemolyticus RIMD 2210633

46.41

96.059

0.446
  pilB/pilB1 Synechocystis sp. PCC 6803

44.691

99.754

0.446
  pilF Thermus thermophilus HB27

43.846

96.059

0.421
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

43.557

95.567

0.416
  pilB Haemophilus influenzae 86-028NP

41.995

93.842

0.394
  pilB Glaesserella parasuis strain SC1401

45.075

82.512

0.372
  pilB Haemophilus influenzae Rd KW20

45.045

82.02

0.369