Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilF   Type   Machinery gene
Locus tag   PFX98_RS12970 Genome accession   NZ_CP116346
Coordinates   2795619..2797340 (-) Length   573 a.a.
NCBI ID   WP_285230923.1    Uniprot ID   A0AA95NA08
Organism   Paucibacter sediminis strain S2-9     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2790619..2802340
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PFX98_RS12940 (PFX98_12940) - 2791105..2791719 (+) 615 WP_285230917.1 HAD family phosphatase -
  PFX98_RS12945 (PFX98_12945) - 2791728..2791922 (-) 195 WP_285230918.1 DNA gyrase inhibitor YacG -
  PFX98_RS12950 (PFX98_12950) zapD 2791934..2792689 (-) 756 WP_285230919.1 cell division protein ZapD -
  PFX98_RS12955 (PFX98_12955) coaE 2792804..2793409 (-) 606 WP_285230920.1 dephospho-CoA kinase -
  PFX98_RS12960 (PFX98_12960) - 2793409..2794344 (-) 936 WP_285230921.1 A24 family peptidase -
  PFX98_RS12965 (PFX98_12965) pilC 2794348..2795568 (-) 1221 WP_285230922.1 type II secretion system F family protein Machinery gene
  PFX98_RS12970 (PFX98_12970) pilF 2795619..2797340 (-) 1722 WP_285230923.1 type IV-A pilus assembly ATPase PilB Machinery gene
  PFX98_RS12980 (PFX98_12980) - 2797677..2798606 (-) 930 WP_285235587.1 polyprenyl synthetase family protein -
  PFX98_RS12985 (PFX98_12985) rplU 2798888..2799199 (+) 312 WP_195797624.1 50S ribosomal protein L21 -
  PFX98_RS12990 (PFX98_12990) rpmA 2799234..2799491 (+) 258 WP_285230924.1 50S ribosomal protein L27 -
  PFX98_RS12995 (PFX98_12995) obgE 2799655..2800731 (+) 1077 WP_285230925.1 GTPase ObgE -
  PFX98_RS13000 (PFX98_13000) proB 2800728..2801849 (+) 1122 WP_285230926.1 glutamate 5-kinase -

Sequence

Protein


Download         Length: 573 a.a.        Molecular weight: 62410.70 Da        Isoelectric Point: 5.6063

>NTDB_id=776795 PFX98_RS12970 WP_285230923.1 2795619..2797340(-) (pilF) [Paucibacter sediminis strain S2-9]
MDTTLADPPHSALSGVARVLVHAGKLQAKAAEDLVRQSKEKKSSFVSAVIASGAISSADLAHTLATALAVPLMDLNAVDA
QRLPQNIIDNKLAQQYQVLVLGRRGNRLFIGGADPTEPEVVERIKFATQLSPEWVIVEYDKITKILQGSATSAAEALESI
AGGDFDFDIAEEEGPTQQEAQDMADVEDAPVVRFLQKMLVDAINLRASDLHFEPYEYHYRVRFRVDGELREITQPPIAIK
DKLASRIKVLSRLDIAERRVPQDGRMKLKFGAKAIDFRISTLPTLFGEKIVIRILDPSSAKLGIEALGYEKIEKERLLAC
ISRPYGMVLVTGPTGSGKTVSLYTCLNILNQPGVNISTVEDPAEINLPGINQVNVNDKAGLTFAAALKSFLRQDPDIIMV
GEIRDLETADIAIKAAQTGHMVMSTLHTNDAPTTLTRLLNMGVAPFNIASSVLLITAQRLARRLCENCKTLAEFPREALL
RAGFAETDLDGSWKPYRAVGCSSCNNGYRGRVGLYQVMPITEAIQRIILSEGTSMDIAVQAQSEGVRDLRQSGLVKVRAG
VTTLEEVLAATNE

Nucleotide


Download         Length: 1722 bp        

>NTDB_id=776795 PFX98_RS12970 WP_285230923.1 2795619..2797340(-) (pilF) [Paucibacter sediminis strain S2-9]
GTGGATACAACCCTGGCTGACCCGCCCCATTCCGCCCTCTCGGGGGTGGCTCGCGTGTTGGTGCACGCGGGCAAGCTGCA
GGCCAAGGCCGCAGAGGATCTGGTACGGCAATCCAAGGAGAAGAAGTCCAGCTTCGTGAGCGCCGTGATCGCGTCGGGCG
CGATCTCCTCGGCTGACTTGGCGCATACGCTGGCGACGGCGCTGGCTGTGCCACTGATGGACTTGAATGCGGTAGATGCC
CAGCGCCTGCCGCAGAACATCATCGACAACAAGCTGGCTCAGCAATACCAGGTTCTGGTGCTCGGCCGCCGCGGCAACCG
CCTTTTCATCGGCGGTGCCGACCCGACCGAACCCGAAGTCGTCGAGCGCATCAAGTTCGCCACCCAGCTGTCGCCCGAAT
GGGTGATCGTCGAGTACGACAAGATCACCAAGATTCTGCAAGGCTCGGCGACCAGTGCCGCGGAGGCCCTGGAGAGCATT
GCTGGCGGCGATTTCGACTTCGACATCGCCGAAGAGGAAGGCCCGACGCAACAAGAAGCGCAGGACATGGCCGACGTGGA
GGACGCACCGGTGGTGCGCTTCCTACAGAAAATGCTGGTGGATGCCATCAATCTGCGCGCCTCGGACTTGCACTTCGAGC
CCTATGAGTACCACTACCGGGTGCGGTTCCGCGTGGACGGTGAATTGCGCGAGATCACGCAGCCGCCCATTGCGATCAAG
GACAAGCTGGCCTCGCGCATCAAGGTGCTGTCGAGGCTGGACATTGCCGAGCGCCGCGTGCCGCAAGACGGGCGCATGAA
GCTGAAGTTCGGTGCCAAGGCGATCGACTTCCGCATCAGCACGCTGCCCACCTTGTTCGGCGAGAAGATCGTGATCCGGA
TTCTGGATCCGTCCTCGGCCAAGTTGGGCATCGAGGCGCTGGGCTACGAGAAGATCGAGAAGGAGCGGCTGCTGGCCTGC
ATCTCGCGCCCCTATGGCATGGTGCTGGTCACCGGCCCGACGGGTTCGGGCAAGACGGTCTCGCTCTACACCTGCCTGAA
CATCCTGAACCAGCCGGGCGTGAACATCTCGACGGTCGAGGATCCTGCCGAAATCAACCTGCCCGGCATCAACCAGGTGA
ACGTGAACGACAAGGCCGGACTGACCTTCGCAGCAGCGCTAAAGTCCTTCCTGCGCCAGGATCCCGACATCATCATGGTG
GGCGAGATCCGCGATCTTGAGACCGCCGACATTGCCATCAAGGCGGCGCAAACGGGCCATATGGTGATGTCCACCCTGCA
CACCAACGACGCGCCGACCACGCTCACGCGCTTGCTCAATATGGGTGTGGCCCCCTTCAACATCGCCTCCAGCGTGCTGC
TCATCACCGCACAGCGCCTGGCCAGGCGCTTGTGCGAGAACTGCAAGACCTTGGCGGAGTTCCCGCGCGAGGCGCTGCTG
CGTGCCGGCTTCGCCGAGACCGATCTGGATGGCAGCTGGAAGCCCTATCGCGCGGTCGGCTGCTCGAGTTGCAACAACGG
CTACCGCGGCCGCGTCGGCCTCTACCAGGTGATGCCCATCACCGAGGCCATCCAGCGCATCATCCTCTCGGAAGGCACCT
CCATGGACATCGCCGTGCAGGCGCAATCCGAGGGCGTGCGCGACCTGCGCCAGTCCGGCCTCGTAAAGGTACGCGCCGGC
GTCACGACGCTCGAAGAGGTGCTGGCGGCAACCAATGAATAA

Domains

Predicted by InterproScan.

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

(51-147)

Type II/IV secretion system protein (T2SSE)

(197-463)


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

53.641

98.255

0.527
  pilB Acinetobacter baumannii D1279779

53.369

98.429

0.525
  pilB Acinetobacter baylyi ADP1

51.309

100

0.513
  pilB Legionella pneumophila strain ERS1305867

49.823

98.429

0.49
  pilB Vibrio campbellii strain DS40M4

45.552

98.08

0.447
  pilB Vibrio cholerae strain A1552

45.053

98.778

0.445
  pilB Vibrio parahaemolyticus RIMD 2210633

44.425

100

0.445
  pilF Thermus thermophilus HB27

37.633

98.778

0.372
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

39.925

92.67

0.37