Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilA   Type   Machinery gene
Locus tag   ICJ04_RS04560 Genome accession   NZ_CP061204
Coordinates   1090654..1091058 (+) Length   134 a.a.
NCBI ID   WP_188326365.1    Uniprot ID   A0A7H1AP66
Organism   Stenotrophomonas sp. 169     
Function   type IV pilus biogenesis and function (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 1078761..1103181 1090654..1091058 within 0


Gene organization within MGE regions


Location: 1078761..1103181
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  ICJ04_RS04510 (ICJ04_04510) - 1078761..1082015 (-) 3255 WP_188326355.1 transporter substrate-binding domain-containing protein -
  ICJ04_RS04515 (ICJ04_04515) rimK 1082309..1083187 (+) 879 WP_188326356.1 30S ribosomal protein S6--L-glutamate ligase -
  ICJ04_RS04520 (ICJ04_04520) - 1083537..1084031 (+) 495 WP_188326357.1 hypothetical protein -
  ICJ04_RS04525 (ICJ04_04525) - 1084178..1084855 (+) 678 WP_188326358.1 response regulator transcription factor -
  ICJ04_RS04530 (ICJ04_04530) - 1084848..1086191 (+) 1344 WP_188326359.1 HAMP domain-containing sensor histidine kinase -
  ICJ04_RS04535 (ICJ04_04535) - 1086301..1086714 (-) 414 WP_188326360.1 hypothetical protein -
  ICJ04_RS04540 (ICJ04_04540) - 1087158..1087508 (+) 351 WP_188326361.1 transcriptional regulator -
  ICJ04_RS04545 (ICJ04_04545) coaE 1087558..1088175 (-) 618 WP_188326362.1 dephospho-CoA kinase -
  ICJ04_RS04550 (ICJ04_04550) - 1088172..1089035 (-) 864 WP_188326363.1 A24 family peptidase -
  ICJ04_RS04555 (ICJ04_04555) pilC 1089039..1090298 (-) 1260 WP_188326364.1 type II secretion system F family protein Machinery gene
  ICJ04_RS04560 (ICJ04_04560) pilA 1090654..1091058 (+) 405 WP_188326365.1 pilin Machinery gene
  ICJ04_RS04565 (ICJ04_04565) - 1091336..1094383 (+) 3048 WP_188326366.1 fused MFS/spermidine synthase -
  ICJ04_RS04570 (ICJ04_04570) pilB 1095069..1096793 (+) 1725 WP_188326367.1 type IV-A pilus assembly ATPase PilB Machinery gene
  ICJ04_RS04575 (ICJ04_04575) - 1096960..1097667 (+) 708 WP_188326368.1 YitT family protein -
  ICJ04_RS04580 (ICJ04_04580) - 1097797..1098333 (-) 537 WP_188326369.1 DNA-3-methyladenine glycosylase I -
  ICJ04_RS04585 (ICJ04_04585) - 1098330..1100126 (-) 1797 WP_188326370.1 DUF4153 domain-containing protein -
  ICJ04_RS04590 (ICJ04_04590) - 1100208..1100774 (+) 567 WP_188326371.1 YqgE/AlgH family protein -
  ICJ04_RS04595 (ICJ04_04595) ruvX 1100767..1101234 (+) 468 WP_188326372.1 Holliday junction resolvase RuvX -
  ICJ04_RS04600 (ICJ04_04600) - 1101251..1102201 (+) 951 WP_188326373.1 aspartate carbamoyltransferase catalytic subunit -
  ICJ04_RS04605 (ICJ04_04605) - 1102237..1103181 (-) 945 WP_188326374.1 hypothetical protein -

Sequence

Protein


Download         Length: 134 a.a.        Molecular weight: 14089.08 Da        Isoelectric Point: 4.3575

>NTDB_id=481330 ICJ04_RS04560 WP_188326365.1 1090654..1091058(+) (pilA) [Stenotrophomonas sp. 169]
MKNQKGFTLIELMIVVAIIAILAAIALPAYQDYTIRSRVSEMAVLASGAKATIGENIASENAINDNACRGVATFDTPTTN
TASLECAAGVVTVTGTEKAAEVVLTYTPDLVDAGTRWTCASESEPKYLPAECRS

Nucleotide


Download         Length: 405 bp        

>NTDB_id=481330 ICJ04_RS04560 WP_188326365.1 1090654..1091058(+) (pilA) [Stenotrophomonas sp. 169]
ATGAAGAACCAGAAGGGCTTTACCCTCATCGAACTGATGATCGTTGTTGCGATCATCGCAATCCTGGCTGCTATCGCTCT
GCCGGCGTATCAGGACTACACCATCCGCTCGCGTGTCTCCGAAATGGCCGTGCTCGCTTCGGGCGCGAAGGCGACGATTG
GTGAAAACATCGCTAGCGAGAATGCGATTAATGACAATGCCTGCCGCGGCGTTGCTACCTTCGACACCCCCACCACTAAC
ACTGCCTCGCTTGAATGTGCAGCTGGCGTTGTGACCGTCACGGGTACCGAGAAGGCGGCCGAAGTCGTTCTGACCTACAC
CCCTGACCTGGTCGATGCGGGTACGCGTTGGACCTGCGCTTCCGAGAGTGAACCAAAGTACCTGCCGGCTGAGTGCCGCA
GCTAA

Domains

Predicted by InterproScan.

Pilin (bacterial filament) (Pilin)

(36-133)

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
  AlphaFold DB A0A7H1AP66

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 Ralstonia pseudosolanacearum GMI1000

46.626

100

0.567
  comP Acinetobacter baylyi ADP1

46.575

100

0.507
  pilA2 Legionella pneumophila str. Paris

49.63

100

0.5
  pilA2 Legionella pneumophila strain ERS1305867

48.889

100

0.493
  pilE Neisseria gonorrhoeae strain FA1090

38.961

100

0.448
  pilA/pilAI Pseudomonas stutzeri DSM 10701

41.379

100

0.448
  pilA/pilA1 Eikenella corrodens VA1

38.411

100

0.433
  pilA Acinetobacter baumannii strain A118

38.667

100

0.433
  pilA Pseudomonas aeruginosa PAK

35.762

100

0.403
  pilA Vibrio parahaemolyticus RIMD 2210633

41.6

93.284

0.388
  pilA/pilAII Pseudomonas stutzeri DSM 10701

34.752

100

0.366
  pilA Haemophilus influenzae Rd KW20

40.164

91.045

0.366