Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilA   Type   Machinery gene
Locus tag   LRK53_RS06015 Genome accession   NZ_CP088923
Coordinates   1388325..1388768 (-) Length   147 a.a.
NCBI ID   WP_027493017.1    Uniprot ID   -
Organism   Rhodanobacter thiooxydans strain FW510-R12     
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 1374734..1397082 1388325..1388768 within 0


Gene organization within MGE regions


Location: 1374734..1397082
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LRK53_RS05945 (LRK53_05945) - 1374734..1374976 (+) 243 WP_027493027.1 AbrB/MazE/SpoVT family DNA-binding domain-containing protein -
  LRK53_RS05950 (LRK53_05950) - 1374973..1375368 (+) 396 WP_027493026.1 type II toxin-antitoxin system VapC family toxin -
  LRK53_RS05955 (LRK53_05955) - 1375524..1375850 (-) 327 WP_051257590.1 DUF86 domain-containing protein -
  LRK53_RS05960 (LRK53_05960) - 1375889..1376179 (-) 291 WP_027493024.1 nucleotidyltransferase family protein -
  LRK53_RS05965 (LRK53_05965) - 1376511..1377365 (+) 855 WP_027493023.1 glycosyltransferase family 2 protein -
  LRK53_RS05970 (LRK53_05970) - 1377358..1378518 (+) 1161 WP_027493022.1 glycosyltransferase family 4 protein -
  LRK53_RS05975 (LRK53_05975) - 1378511..1379281 (+) 771 WP_081666625.1 class I SAM-dependent methyltransferase -
  LRK53_RS05980 (LRK53_05980) - 1379278..1380345 (+) 1068 WP_081666624.1 glycosyltransferase family 4 protein -
  LRK53_RS05985 (LRK53_05985) - 1380357..1381358 (+) 1002 WP_037089869.1 class I SAM-dependent methyltransferase -
  LRK53_RS05990 (LRK53_05990) - 1381358..1382209 (+) 852 WP_185754653.1 glycosyltransferase -
  LRK53_RS05995 (LRK53_05995) - 1382206..1383456 (-) 1251 WP_051257587.1 oligosaccharide flippase family protein -
  LRK53_RS06000 (LRK53_06000) - 1383453..1385438 (-) 1986 WP_051257586.1 hypothetical protein -
  LRK53_RS06005 (LRK53_06005) - 1385438..1387453 (-) 2016 WP_235642652.1 tetratricopeptide repeat protein -
  LRK53_RS06010 (LRK53_06010) pilE 1387525..1387980 (-) 456 WP_027493018.1 pilin Machinery gene
  LRK53_RS06015 (LRK53_06015) pilA 1388325..1388768 (-) 444 WP_027493017.1 pilin Machinery gene
  LRK53_RS06020 (LRK53_06020) - 1388922..1389239 (-) 318 WP_185754656.1 DUF86 domain-containing protein -
  LRK53_RS06025 (LRK53_06025) - 1389308..1389544 (-) 237 WP_235642561.1 nucleotidyltransferase domain-containing protein -
  LRK53_RS06030 (LRK53_06030) - 1389569..1390297 (-) 729 WP_051257585.1 nucleotidyl transferase AbiEii/AbiGii toxin family protein -
  LRK53_RS06035 (LRK53_06035) - 1390290..1390760 (-) 471 WP_235642562.1 helix-turn-helix domain-containing protein -
  LRK53_RS06040 (LRK53_06040) - 1390866..1391105 (-) 240 WP_051257583.1 HigA family addiction module antitoxin -
  LRK53_RS06045 (LRK53_06045) - 1391176..1391316 (-) 141 Protein_1204 type II toxin-antitoxin system RelE/ParE family toxin -
  LRK53_RS06050 (LRK53_06050) - 1391480..1391866 (-) 387 WP_037089861.1 nucleotidyltransferase domain-containing protein -
  LRK53_RS06055 (LRK53_06055) - 1392134..1392748 (+) 615 WP_027493013.1 type IV toxin-antitoxin system AbiEi family antitoxin domain-containing protein -
  LRK53_RS06060 (LRK53_06060) - 1392773..1393636 (+) 864 WP_037089858.1 nucleotidyl transferase AbiEii/AbiGii toxin family protein -
  LRK53_RS06065 (LRK53_06065) - 1393835..1395964 (+) 2130 WP_027493012.1 S9 family peptidase -
  LRK53_RS06070 (LRK53_06070) - 1396666..1397082 (+) 417 WP_235642563.1 nucleotidyltransferase family protein -

Sequence

Protein


Download         Length: 147 a.a.        Molecular weight: 15407.69 Da        Isoelectric Point: 8.9982

>NTDB_id=634018 LRK53_RS06015 WP_027493017.1 1388325..1388768(-) (pilA) [Rhodanobacter thiooxydans strain FW510-R12]
MLRQRISAGFTLIELMVVVAIIAILAAIAIPAYQDYLIRAQVTEGMSLADGAKSAVWDFVSNTGRFPSNNQSAGLAKNTS
IGGSYVSNVDVTGGAIKVLYQGTKANTHINGGGIYLLLSPVTHAGSIAWSCSASTLDPKYLPSSCRQ

Nucleotide


Download         Length: 444 bp        

>NTDB_id=634018 LRK53_RS06015 WP_027493017.1 1388325..1388768(-) (pilA) [Rhodanobacter thiooxydans strain FW510-R12]
ATGTTGCGCCAGCGCATTTCCGCCGGTTTTACCTTGATCGAACTGATGGTCGTCGTGGCGATCATCGCGATCCTTGCTGC
CATCGCCATCCCCGCGTATCAGGACTACCTGATCCGGGCGCAGGTCACCGAGGGCATGAGCCTGGCGGACGGAGCCAAGT
CCGCGGTATGGGATTTCGTCTCCAACACCGGGCGGTTCCCATCAAACAACCAGTCTGCAGGCCTCGCCAAAAATACATCG
ATTGGGGGCAGTTATGTATCCAACGTAGACGTGACGGGTGGCGCCATCAAGGTGCTCTATCAGGGAACCAAAGCCAACAC
CCATATCAACGGCGGCGGCATATACCTGCTGCTTTCACCCGTCACCCACGCCGGCAGCATCGCCTGGTCTTGCTCAGCCA
GTACGCTGGATCCGAAGTACCTACCCTCTTCCTGCCGCCAGTAG

Domains

Predicted by InterproScan.

Pilin (bacterial filament) (Pilin)

(39-146)

Prokaryotic N-terminal methylation motif (N_methyl)

(6-29)


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 Ralstonia pseudosolanacearum GMI1000

40

100

0.49
  pilE Neisseria gonorrhoeae MS11

41.509

100

0.449
  pilE Neisseria gonorrhoeae strain FA1090

40.764

100

0.435
  pilA2 Legionella pneumophila str. Paris

43.151

99.32

0.429
  pilA2 Legionella pneumophila strain ERS1305867

43.151

99.32

0.429
  pilE Neisseria elongata subsp. glycolytica ATCC 29315

32.086

100

0.408
  comP Acinetobacter baylyi ADP1

39.865

100

0.401
  pilA/pilA1 Eikenella corrodens VA1

36.025

100

0.395
  pilA/pilAI Pseudomonas stutzeri DSM 10701

36.424

100

0.374
  pilA Acinetobacter baumannii strain A118

38.129

94.558

0.361