Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilA   Type   Machinery gene
Locus tag   IMX18_RS21105 Genome accession   NZ_CP063456
Coordinates   4574522..4574932 (-) Length   136 a.a.
NCBI ID   WP_047934243.1    Uniprot ID   -
Organism   Pseudomonas shirazica strain A28     
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)
Genomic island 4550936..4574213 4574522..4574932 flank 309


Gene organization within MGE regions


Location: 4550936..4574932
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  IMX18_RS21010 - 4550936..4551643 (+) 708 WP_102083593.1 hypothetical protein -
  IMX18_RS21015 - 4551643..4552350 (+) 708 WP_102083592.1 PP2C family serine/threonine-protein phosphatase -
  IMX18_RS21020 - 4552448..4552885 (+) 438 WP_137138149.1 MFS transporter -
  IMX18_RS21025 - 4552962..4554215 (+) 1254 WP_015268873.1 arsenic transporter -
  IMX18_RS21030 - 4554379..4555269 (-) 891 WP_015268872.1 LysR substrate-binding domain-containing protein -
  IMX18_RS21035 - 4555379..4556917 (+) 1539 WP_217190753.1 MFS transporter -
  IMX18_RS21040 - 4557886..4558113 (-) 228 WP_063911161.1 hypothetical protein -
  IMX18_RS21045 - 4558616..4558885 (+) 270 WP_137108960.1 hypothetical protein -
  IMX18_RS21050 rdrB 4559566..4562391 (-) 2826 WP_217190752.1 antiviral RADAR system adenosine deaminase RdrB -
  IMX18_RS21055 rdrA 4562391..4565069 (-) 2679 WP_217190750.1 antiviral RADAR system adenosine triphosphatase RdrA -
  IMX18_RS21060 - 4565413..4565700 (-) 288 WP_217190749.1 hypothetical protein -
  IMX18_RS21065 - 4565697..4566677 (-) 981 WP_217190747.1 integrase domain-containing protein -
  IMX18_RS21070 - 4568076..4568675 (+) 600 WP_176513884.1 DUF4433 domain-containing protein -
  IMX18_RS21075 - 4568681..4569829 (+) 1149 WP_217190745.1 macro domain-containing protein -
  IMX18_RS21080 - 4569927..4571057 (-) 1131 WP_217190743.1 beta family protein -
  IMX18_RS21085 - 4571068..4572279 (-) 1212 WP_225903911.1 ImmA/IrrE family metallo-endopeptidase -
  IMX18_RS21095 - 4572891..4574213 (-) 1323 WP_217190742.1 integrase arm-type DNA-binding domain-containing protein -
  IMX18_RS21105 pilA 4574522..4574932 (-) 411 WP_047934243.1 pilin Machinery gene

Sequence

Protein


Download         Length: 136 a.a.        Molecular weight: 13783.04 Da        Isoelectric Point: 7.0812

>NTDB_id=495740 IMX18_RS21105 WP_047934243.1 4574522..4574932(-) (pilA) [Pseudomonas shirazica strain A28]
MKGQRGITLIELMIVVAIIGILATIALPMYTNHQSRSKAAAGLLEISALKTAMDLRLNDGKDVPDVAALGGQPATAHCAI
TASGKAADGTGSIVCTLVDAPANALGKALTLTRSASGWACTTDIEEDLAPKGCKAP

Nucleotide


Download         Length: 411 bp        

>NTDB_id=495740 IMX18_RS21105 WP_047934243.1 4574522..4574932(-) (pilA) [Pseudomonas shirazica strain A28]
ATGAAAGGGCAACGCGGTATCACCCTGATCGAACTGATGATCGTCGTCGCGATCATCGGCATTCTGGCGACCATCGCCTT
ACCGATGTACACCAACCACCAGTCACGCTCCAAGGCCGCGGCCGGGTTGCTGGAGATCAGCGCGCTGAAGACCGCGATGG
ACCTGCGGTTGAACGACGGGAAGGATGTGCCGGATGTGGCCGCGTTGGGTGGCCAGCCGGCGACGGCGCACTGTGCGATC
ACGGCTAGCGGCAAGGCGGCGGATGGCACTGGGAGCATCGTTTGTACGCTGGTGGATGCGCCGGCCAATGCGCTGGGCAA
GGCATTGACCCTGACGCGTTCGGCTAGCGGGTGGGCGTGTACGACCGACATCGAGGAAGACCTGGCGCCGAAGGGGTGCA
AGGCGCCTTGA

Domains

Predicted by InterproScan.

Prokaryotic N-terminal methylation motif (N_methyl)

(1-27)

Pilin (bacterial filament) (Pilin)

(35-134)


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