Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilF   Type   Machinery gene
Locus tag   DK842_RS04305 Genome accession   NZ_CP029495
Coordinates   863136..864842 (-) Length   568 a.a.
NCBI ID   WP_114060251.1    Uniprot ID   -
Organism   Chromobacterium phragmitis strain IIBBL 112-1     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 858136..869842
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  DK842_RS04280 (DK842_04280) yacG 859363..859554 (-) 192 WP_114063600.1 DNA gyrase inhibitor YacG -
  DK842_RS04285 (DK842_04285) zapD 859560..860318 (-) 759 WP_168191805.1 cell division protein ZapD -
  DK842_RS04290 (DK842_04290) coaE 860355..861001 (-) 647 Protein_837 dephospho-CoA kinase -
  DK842_RS04295 (DK842_04295) pilD 860953..861873 (-) 921 WP_114060249.1 A24 family peptidase Machinery gene
  DK842_RS04300 (DK842_04300) pilC 861873..863096 (-) 1224 WP_114060250.1 type II secretion system F family protein Machinery gene
  DK842_RS04305 (DK842_04305) pilF 863136..864842 (-) 1707 WP_114060251.1 type IV-A pilus assembly ATPase PilB Machinery gene
  DK842_RS04310 (DK842_04310) - 865011..866135 (-) 1125 WP_114060252.1 porin -
  DK842_RS04315 (DK842_04315) comE 866532..866852 (-) 321 WP_114060253.1 helix-hairpin-helix domain-containing protein Machinery gene
  DK842_RS04320 (DK842_04320) - 866907..867728 (-) 822 WP_114060254.1 inner membrane protein YpjD -
  DK842_RS04325 (DK842_04325) ffh 867840..869195 (+) 1356 WP_114060255.1 signal recognition particle protein -

Sequence

Protein


Download         Length: 568 a.a.        Molecular weight: 62237.85 Da        Isoelectric Point: 5.5555

>NTDB_id=293292 DK842_RS04305 WP_114060251.1 863136..864842(-) (pilF) [Chromobacterium phragmitis strain IIBBL 112-1]
MEATAGISGLGRALVQHNMLLQQDADAILKHAAVSHISFVEQLILSKKMTAREVAVFASRVFGYPLLDLASLDMDQLPKG
LVDEEVIASRRLLPLLKRGNKLYVGTSDPTQTSAYHAITFKTGLTVEIVVVEDDKLGRTVGRYQDSSTAALKELESEDLG
DLEFADPEAQVDSGPQVEVDDAPVVKFIHKMLLDAIGVGASDIHFEPYEKYYRIRYRVDGVLKEVAQPPLILKEKIASRI
KVISKLDISEKRLPQDGRLKLVISKTRAIDFRVSTLPTLFGEKIVMRILDSSGASLDVDQLGFEAEQKEHLLKSIARPYG
MVLVTGPTGSGKTVSLYTCLNILNKPDTNISTAEDPVEINLPGINQVNVNEKAGLTFASALKAFLRQDPDVIMVGEIRDF
ETADIAIKAAQTGHMVFSTLHTNDAPATLTRMLNMGVAPFNIASSVLLIMAQRLARKLCNHCKQPVEIPEEALLRAGFSK
DDLAEGWHPYGPVGCEECRNTGYKGRVGIFEVMPISDAMMRLIMKNGTSVDISDLAREEGMVDLRRAGLLKVMRGVTSLA
EVEAVTND

Nucleotide


Download         Length: 1707 bp        

>NTDB_id=293292 DK842_RS04305 WP_114060251.1 863136..864842(-) (pilF) [Chromobacterium phragmitis strain IIBBL 112-1]
ATGGAAGCTACGGCGGGGATTTCCGGCCTGGGCAGAGCCCTGGTTCAGCACAATATGCTGCTGCAGCAGGATGCGGACGC
CATTCTGAAACATGCGGCGGTTTCCCATATCAGCTTTGTCGAGCAGCTTATCCTCAGCAAGAAAATGACGGCCAGGGAAG
TGGCGGTATTCGCTTCCCGCGTTTTCGGCTATCCGTTGCTGGACCTGGCTTCGCTCGACATGGACCAATTGCCCAAGGGG
CTGGTGGACGAGGAGGTGATCGCTAGCCGCAGACTGCTGCCCTTGCTCAAGCGCGGCAACAAGCTATATGTCGGCACTTC
GGACCCAACCCAGACTTCCGCCTACCACGCGATCACCTTCAAGACCGGGCTGACCGTAGAGATCGTCGTGGTGGAGGACG
ACAAGCTGGGGAGGACGGTCGGGCGTTATCAGGATAGTTCCACTGCGGCGCTGAAGGAGCTGGAAAGCGAAGATTTGGGC
GATCTCGAGTTTGCCGATCCCGAAGCGCAGGTGGATAGCGGGCCGCAGGTCGAAGTGGATGACGCCCCTGTGGTCAAGTT
CATCCACAAGATGTTGCTGGACGCGATAGGCGTCGGCGCGTCCGACATCCACTTCGAGCCGTATGAGAAGTATTACCGCA
TCCGCTACCGGGTGGATGGGGTGCTGAAGGAGGTGGCGCAACCGCCGTTGATCCTGAAGGAAAAGATCGCTTCGCGCATC
AAGGTGATTTCCAAGCTGGATATCTCGGAAAAGCGGTTGCCGCAGGATGGGCGGCTGAAGCTGGTGATTTCCAAGACCCG
GGCGATAGATTTTCGCGTCAGCACGCTGCCCACGCTGTTCGGCGAGAAGATCGTGATGCGTATTCTGGACTCCTCGGGCG
CGTCGCTGGATGTCGACCAGCTTGGCTTCGAGGCGGAGCAGAAAGAGCATTTGCTGAAGTCGATCGCCCGCCCTTACGGC
ATGGTGCTGGTCACCGGCCCCACCGGCAGCGGCAAGACGGTGTCGCTGTACACTTGTCTCAACATCCTTAATAAACCGGA
TACCAATATCTCCACCGCGGAGGACCCGGTGGAAATCAATTTGCCCGGCATCAATCAGGTCAACGTCAATGAAAAGGCTG
GACTGACTTTCGCATCGGCGCTGAAGGCTTTCCTGAGACAGGACCCGGACGTGATCATGGTGGGGGAAATCCGCGACTTT
GAAACCGCCGACATCGCGATCAAGGCGGCGCAGACGGGGCACATGGTGTTTTCCACGCTGCATACCAACGACGCGCCCGC
CACGCTGACCCGGATGTTGAACATGGGCGTGGCGCCGTTCAATATCGCCAGTTCGGTTTTGCTGATCATGGCGCAGCGCC
TGGCGCGCAAGCTGTGCAATCATTGCAAGCAGCCGGTGGAGATTCCGGAGGAGGCCTTGCTGCGCGCCGGGTTTTCCAAG
GACGACCTGGCGGAGGGATGGCATCCCTATGGTCCTGTCGGCTGTGAGGAGTGCCGCAATACCGGGTACAAGGGACGGGT
CGGCATATTCGAAGTGATGCCCATCAGCGATGCGATGATGCGGCTGATCATGAAGAACGGGACCTCGGTGGATATCTCCG
ACTTGGCGCGGGAGGAAGGCATGGTCGACTTGCGCCGCGCCGGCTTGCTGAAAGTGATGCGCGGCGTGACCTCGCTGGCC
GAGGTCGAGGCGGTGACCAACGACTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(190-457)

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

(50-148)


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
  pilF Neisseria gonorrhoeae MS11

57.699

99.472

0.574
  pilB Acinetobacter baumannii D1279779

53.78

100

0.551
  pilB Acinetobacter baylyi ADP1

54.174

99.12

0.537
  pilB Legionella pneumophila strain ERS1305867

53.345

100

0.533
  pilB Vibrio cholerae strain A1552

49.551

98.063

0.486
  pilB Vibrio parahaemolyticus RIMD 2210633

48.668

99.12

0.482
  pilB Vibrio campbellii strain DS40M4

47.069

99.12

0.467
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

38.393

98.592

0.379
  pilF Thermus thermophilus HB27

37.9

98.944

0.375

Multiple sequence alignment