Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilF   Type   Machinery gene
Locus tag   LRM40_RS14205 Genome accession   NZ_CP088081
Coordinates   3070329..3072050 (+) Length   573 a.a.
NCBI ID   WP_151124675.1    Uniprot ID   A0A643FAD1
Organism   Ideonella dechloratans strain CCUG 30977     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3065329..3077050
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LRM40_RS14180 (LRM40_14180) - 3065704..3066570 (+) 867 WP_151124680.1 hypothetical protein -
  LRM40_RS14185 (LRM40_14185) - 3066589..3067347 (-) 759 WP_151124679.1 helix-turn-helix transcriptional regulator -
  LRM40_RS14190 (LRM40_14190) - 3067365..3067880 (-) 516 WP_151124678.1 hypothetical protein -
  LRM40_RS14195 (LRM40_14195) - 3068107..3068430 (+) 324 WP_151124677.1 helix-turn-helix domain-containing protein -
  LRM40_RS14200 (LRM40_14200) - 3068441..3069799 (+) 1359 WP_151124676.1 HipA domain-containing protein -
  LRM40_RS14205 (LRM40_14205) pilF 3070329..3072050 (+) 1722 WP_151124675.1 type IV-A pilus assembly ATPase PilB Machinery gene
  LRM40_RS14210 (LRM40_14210) pilC 3072115..3073335 (+) 1221 WP_151124674.1 type II secretion system F family protein Machinery gene
  LRM40_RS14215 (LRM40_14215) - 3073339..3074268 (+) 930 WP_151124673.1 A24 family peptidase -
  LRM40_RS14220 (LRM40_14220) coaE 3074265..3074894 (+) 630 WP_151124672.1 dephospho-CoA kinase -
  LRM40_RS14225 (LRM40_14225) zapD 3074935..3075690 (+) 756 WP_151124671.1 cell division protein ZapD -
  LRM40_RS14230 (LRM40_14230) - 3075659..3075901 (+) 243 WP_151124670.1 DNA gyrase inhibitor YacG -
  LRM40_RS14235 (LRM40_14235) - 3075898..3076551 (+) 654 WP_151124669.1 hypothetical protein -
  LRM40_RS14240 (LRM40_14240) groES 3076747..3077037 (+) 291 WP_022980493.1 co-chaperone GroES -

Sequence

Protein


Download         Length: 573 a.a.        Molecular weight: 62566.72 Da        Isoelectric Point: 6.0956

>NTDB_id=632605 LRM40_RS14205 WP_151124675.1 3070329..3072050(+) (pilF) [Ideonella dechloratans strain CCUG 30977]
MDTITDVSKPTLSGVARVLVHGGKLAAARAEELVRSAKEKKVSFISELMSSGELSPAQLAHALSSALAIPLLDLDAVDVQ
RLPKNIIDAKLVGQYHVLPLNKRGSRLFLACVDPTDQEASERIKFATQLSPEWVVVEHDKLSKLIEGQTGSANQALEAIS
AADFDFEVTEEDTSSSAPPADVVSEVEDAPVVRFLQKMLVDAINMRASDLHFEPYEFNYRVRFRVDGELREITQPPLAIK
DKLASRIKVISRLDISEKRVPQDGRMKLRFGSKSIDFRVSTLPTLFGEKIVIRILDSSSAKLGIEALGYEPAEKERLLHA
VHRPYGMVLVTGPTGSGKTVSLYTCLNILNQPGVNICTVEDPAEINLPGINQVNVNDKAGLTFASALKSFLRQDPDVIMV
GEIRDLETADIAIKAAQTGHLVLSTLHTNDAPSTLTRLLNMGVAPFNIASSVLLITAQRLVRRLCETCKQPADYPRDALI
RAGYEESDLDGSWRPYRAVGCSACNNGYRGRVGVYQAMPITEAIQRLILTNGSAVDLAEQARREGVRDLRQSGLVKVKLG
VTTLEEVIAATND

Nucleotide


Download         Length: 1722 bp        

>NTDB_id=632605 LRM40_RS14205 WP_151124675.1 3070329..3072050(+) (pilF) [Ideonella dechloratans strain CCUG 30977]
GTGGACACTATCACTGATGTTTCCAAGCCCACGCTTTCCGGCGTGGCGCGCGTGCTTGTTCATGGCGGCAAGCTGGCAGC
GGCCCGCGCCGAGGAACTGGTGCGCAGCGCGAAGGAGAAGAAGGTCTCCTTCATCAGCGAACTGATGAGCTCGGGCGAAC
TCAGCCCGGCCCAGTTGGCACACGCCCTCTCCTCAGCCCTGGCCATCCCACTGCTGGATCTGGACGCGGTGGATGTCCAG
CGCCTGCCCAAGAACATCATCGATGCCAAGCTGGTGGGGCAGTACCACGTCCTGCCTCTGAACAAGCGCGGCAGCCGTCT
GTTTCTGGCCTGTGTCGATCCGACCGACCAGGAAGCCAGCGAGCGCATCAAGTTCGCCACCCAGTTGTCGCCCGAGTGGG
TGGTTGTCGAGCACGACAAGCTCAGCAAGCTCATCGAGGGGCAGACAGGATCGGCAAACCAGGCGCTGGAAGCCATCAGT
GCGGCCGACTTCGACTTCGAGGTCACGGAGGAGGACACCAGCTCGAGCGCACCGCCGGCCGACGTGGTGTCCGAAGTGGA
GGATGCACCGGTGGTGCGCTTCCTGCAGAAGATGCTGGTGGACGCGATCAACATGCGCGCCTCCGACCTGCACTTCGAGC
CCTACGAGTTCAATTACCGGGTGCGTTTCCGGGTCGACGGCGAGCTGCGCGAGATCACCCAGCCCCCGCTGGCGATCAAG
GACAAGCTGGCCTCGCGCATCAAGGTCATCTCGCGCCTGGACATCTCGGAGAAGCGCGTCCCCCAGGACGGGCGGATGAA
GTTGCGCTTCGGCAGCAAGTCGATCGACTTCCGGGTCAGCACCCTGCCCACGCTGTTCGGCGAGAAGATCGTGATCCGTA
TCCTCGATTCCTCCAGCGCCAAGCTGGGCATCGAGGCCCTGGGCTACGAACCTGCCGAAAAGGAACGCCTGCTGCACGCC
GTGCACCGCCCCTACGGCATGGTGCTGGTGACCGGCCCGACCGGCTCGGGCAAGACGGTGTCCCTGTACACCTGCCTGAA
CATCCTGAACCAGCCAGGCGTGAACATCTGCACGGTGGAAGACCCGGCCGAAATCAACCTGCCAGGCATCAATCAGGTCA
ATGTCAACGACAAGGCCGGCCTGACCTTCGCCAGCGCCCTGAAGTCCTTCCTGCGGCAGGATCCGGACGTGATCATGGTG
GGCGAAATCCGGGACCTGGAAACCGCCGACATCGCGATCAAGGCCGCGCAGACCGGCCACCTGGTGCTGTCCACCCTGCA
CACCAATGACGCACCGTCCACCCTCACTCGCCTGCTGAACATGGGCGTGGCCCCGTTCAACATCGCCTCGAGCGTGCTGC
TGATCACCGCGCAGCGCCTGGTGCGCCGCCTGTGTGAAACCTGCAAGCAGCCGGCCGACTATCCGCGCGATGCATTGATC
CGAGCCGGCTACGAAGAGAGCGATCTGGACGGCAGCTGGCGCCCGTACAGGGCTGTCGGCTGCTCGGCCTGCAACAATGG
CTACCGCGGCCGGGTCGGTGTCTACCAGGCCATGCCGATCACCGAGGCCATCCAGCGCCTGATTCTCACCAACGGCTCGG
CCGTGGATCTGGCGGAGCAGGCGCGACGAGAAGGCGTGCGCGACCTTCGACAGTCCGGCTTGGTGAAGGTCAAGCTGGGC
GTCACCACCCTCGAAGAGGTGATTGCGGCCACCAACGACTGA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(197-463)

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

(48-146)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB A0A643FAD1

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

54.61

98.429

0.538
  pilB Acinetobacter baumannii D1279779

52.88

100

0.529
  pilB Acinetobacter baylyi ADP1

52.113

99.127

0.517
  pilB Legionella pneumophila strain ERS1305867

50.707

98.778

0.501
  pilB Vibrio parahaemolyticus RIMD 2210633

46.549

98.604

0.459
  pilB Vibrio cholerae strain A1552

46.208

98.953

0.457
  pilB Vibrio campbellii strain DS40M4

45.745

98.429

0.45
  pilF Thermus thermophilus HB27

38.947

99.476

0.387
  pilB/pilB1 Synechocystis sp. PCC 6803

35.809

100

0.379
  pilB Deinococcus radiodurans R1 = ATCC 13939 = DSM 20539

40

92.496

0.37