Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilA   Type   Machinery gene
Locus tag   NY023_RS03245 Genome accession   NZ_CP103994
Coordinates   714475..714885 (+) Length   136 a.a.
NCBI ID   WP_013970772.1    Uniprot ID   -
Organism   Pseudomonas sp. NBB     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type MGE coordinates Gene coordinates Relative position Distance (bp)
Prophage 715194..735235 714475..714885 flank 309


Gene organization within MGE regions


Location: 714475..735235
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NY023_RS03245 (NY023_03240) pilA 714475..714885 (+) 411 WP_013970772.1 pilin Machinery gene
  NY023_RS03255 (NY023_03250) - 715194..716489 (+) 1296 WP_013970773.1 tyrosine-type recombinase/integrase -
  NY023_RS03260 (NY023_03255) - 716740..717735 (+) 996 WP_013970774.1 hypothetical protein -
  NY023_RS03265 (NY023_03260) - 717782..718051 (+) 270 WP_013970775.1 helix-turn-helix transcriptional regulator -
  NY023_RS03270 (NY023_03265) - 718048..718641 (+) 594 WP_013970776.1 hypothetical protein -
  NY023_RS03275 (NY023_03270) - 719194..719475 (+) 282 WP_044046885.1 hypothetical protein -
  NY023_RS03280 (NY023_03275) - 719472..719756 (+) 285 WP_013970779.1 DUF3077 domain-containing protein -
  NY023_RS03285 (NY023_03280) - 719753..720373 (+) 621 Protein_628 DNA/RNA helicase, superfamily II protein -
  NY023_RS03290 (NY023_03285) istB 720529..721329 (-) 801 WP_013973887.1 IS21-like element helper ATPase IstB -
  NY023_RS03295 (NY023_03290) istA 721322..722821 (-) 1500 WP_169725187.1 IS21 family transposase -
  NY023_RS03300 (NY023_03295) - 723165..724043 (+) 879 WP_013970781.1 hypothetical protein -
  NY023_RS03305 (NY023_03300) - 724148..730651 (-) 6504 WP_238531257.1 NACHT domain-containing protein -
  NY023_RS03310 (NY023_03305) - 731378..732190 (+) 813 WP_049798427.1 DUF2971 domain-containing protein -
  NY023_RS03315 (NY023_03310) - 732719..733162 (+) 444 WP_080563731.1 GFA family protein -
  NY023_RS03320 (NY023_03315) - 733288..734438 (+) 1151 WP_085982912.1 IS3 family transposase -
  NY023_RS03325 (NY023_03320) - 735008..735235 (+) 228 WP_044047208.1 hypothetical protein -

Sequence

Protein


Download         Length: 136 a.a.        Molecular weight: 13769.02 Da        Isoelectric Point: 7.0812

>NTDB_id=726780 NY023_RS03245 WP_013970772.1 714475..714885(+) (pilA) [Pseudomonas sp. NBB]
MKGQRGITLIELMIVVAIIGILATIALPMYTNHQSRSKAAAGLLEISALKTAMDLRLNDGKDVPDVAALGGQPATAHCAI
TASGKAADGTGSIVCTLVDAPANALGKALTLTRSASGWGCTTDIEEDLAPKGCKAP

Nucleotide


Download         Length: 411 bp        

>NTDB_id=726780 NY023_RS03245 WP_013970772.1 714475..714885(+) (pilA) [Pseudomonas sp. NBB]
ATGAAAGGGCAACGCGGTATCACCCTGATCGAACTGATGATCGTCGTCGCGATCATCGGCATTCTGGCGACCATCGCCTT
ACCGATGTACACCAACCACCAGTCACGCTCCAAGGCCGCGGCCGGGTTGCTGGAGATCAGCGCGCTGAAGACCGCGATGG
ACCTGCGGTTGAATGATGGGAAGGATGTGCCGGATGTGGCCGCGCTGGGTGGCCAGCCGGCGACGGCGCACTGTGCGATC
ACGGCTAGCGGCAAGGCGGCGGATGGCACTGGGAGCATCGTTTGCACGCTGGTGGATGCGCCGGCCAATGCGCTGGGCAA
GGCATTGACCCTGACGCGTTCGGCTAGCGGGTGGGGGTGCACGACCGACATTGAAGAAGACCTGGCGCCGAAGGGGTGCA
AGGCGCCTTGA

Domains

Predicted by InterproScan.

Pilin (bacterial filament) (Pilin)

(35-134)

Prokaryotic N-terminal methylation motif (N_methyl)

(1-27)


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
  pilA Pseudomonas aeruginosa PAK

43.137

100

0.485
  pilA Acinetobacter baumannii strain A118

44.604

100

0.456
  pilA/pilA1 Eikenella corrodens VA1

37.58

100

0.434
  comP Acinetobacter baylyi ADP1

39.456

100

0.426
  pilA/pilAII Pseudomonas stutzeri DSM 10701

42.963

99.265

0.426
  pilA/pilAI Pseudomonas stutzeri DSM 10701

42.647

100

0.426
  pilA Vibrio cholerae O1 biovar El Tor strain E7946

37.063

100

0.39
  pilA Vibrio cholerae strain A1552

37.063

100

0.39
  pilA Vibrio cholerae C6706

37.063

100

0.39
  pilA Vibrio parahaemolyticus RIMD 2210633

38.462

95.588

0.368