Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   LRK52_RS04545 Genome accession   NZ_CP088980
Coordinates   1018407..1019678 (-) Length   423 a.a.
NCBI ID   WP_027490752.1    Uniprot ID   -
Organism   Rhodanobacter denitrificans strain FW104-R5     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1013407..1024678
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LRK52_RS04515 (LRK52_04515) - 1014409..1015203 (+) 795 WP_027490756.1 thymidylate synthase -
  LRK52_RS04520 (LRK52_04520) - 1015330..1015818 (+) 489 WP_015447031.1 dihydrofolate reductase -
  LRK52_RS04525 (LRK52_04525) - 1015818..1016234 (+) 417 WP_027490755.1 NUDIX domain-containing protein -
  LRK52_RS04530 (LRK52_04530) coaE 1016371..1016991 (-) 621 WP_027490754.1 dephospho-CoA kinase -
  LRK52_RS04535 (LRK52_04535) pilD 1016988..1017845 (-) 858 WP_027490753.1 A24 family peptidase Machinery gene
  LRK52_RS04540 (LRK52_04540) - 1017860..1018258 (-) 399 WP_008438584.1 endonuclease domain-containing protein -
  LRK52_RS04545 (LRK52_04545) pilC 1018407..1019678 (-) 1272 WP_027490752.1 type II secretion system F family protein Machinery gene
  LRK52_RS04550 (LRK52_04550) pilB 1019821..1021545 (-) 1725 WP_235645798.1 type IV-A pilus assembly ATPase PilB Machinery gene
  LRK52_RS04555 (LRK52_04555) - 1022179..1022421 (+) 243 WP_007513924.1 AbrB/MazE/SpoVT family DNA-binding domain-containing protein -
  LRK52_RS04560 (LRK52_04560) - 1022418..1022813 (+) 396 WP_007513922.1 type II toxin-antitoxin system VapC family toxin -
  LRK52_RS04565 (LRK52_04565) - 1023105..1023959 (+) 855 WP_027490750.1 glycosyltransferase family 2 protein -

Sequence

Protein


Download         Length: 423 a.a.        Molecular weight: 46016.23 Da        Isoelectric Point: 9.8580

>NTDB_id=634380 LRK52_RS04545 WP_027490752.1 1018407..1019678(-) (pilC) [Rhodanobacter denitrificans strain FW104-R5]
MATATATNINKARELGAQRAEVSKLTTYEWVALDKRGKRMKGDMPAKNASLVKAELRRQGMNPQTVRERAKPLFGATGST
VKPGDVAVFSRQIATMMASGVPMVQSFDIIADGQKNIRFKNILLDVKQNIEGGAALHEALARYPVQFDELYCNLVHAGET
SGVLDTVLDTVATYKERTEAIKKKIKKALFYPMMVLVVVFLVCLIMLLFVVPVFAKTFQDAGAQLPAPTQLLVSASEFMQ
SYWLLVVGVTVGGVVALVVAKKRSVKFAHFLDRMALKMPVMGNIVRNSAIARFARTLGVTFRAGVPLVEALDAVAGATGS
VVYGDAVKQMREDISVGHQLQLAMKQTNLFPNMVVQMTAIGEESGSLDNMLFKVAEFYEEEVSNAVDTLSTLLEPIIMVV
LGTLVGGMVIALYLPIFKLAGTF

Nucleotide


Download         Length: 1272 bp        

>NTDB_id=634380 LRK52_RS04545 WP_027490752.1 1018407..1019678(-) (pilC) [Rhodanobacter denitrificans strain FW104-R5]
ATGGCCACGGCTACCGCAACGAACATCAACAAGGCGCGCGAGCTCGGGGCCCAGCGCGCCGAAGTCAGCAAGCTGACCAC
CTACGAGTGGGTGGCGCTGGACAAGCGCGGCAAGCGCATGAAAGGCGACATGCCGGCGAAGAACGCCTCGCTGGTCAAGG
CCGAACTGCGCCGCCAGGGCATGAACCCGCAGACCGTGCGCGAGCGCGCCAAGCCGCTGTTCGGCGCCACCGGCAGCACG
GTCAAGCCGGGCGACGTGGCCGTGTTCAGCCGCCAGATCGCCACCATGATGGCCTCCGGCGTGCCGATGGTGCAGTCCTT
CGACATCATCGCCGACGGCCAGAAGAACATCCGTTTCAAGAACATCCTGCTCGACGTGAAGCAGAACATCGAGGGCGGCG
CGGCGCTGCACGAGGCGCTGGCGCGCTACCCGGTGCAGTTCGACGAGCTGTATTGCAACCTGGTGCACGCCGGCGAGACC
TCCGGCGTGCTGGATACCGTGCTGGACACCGTGGCCACCTACAAGGAGCGCACGGAAGCGATCAAGAAGAAGATCAAGAA
GGCGCTGTTCTACCCGATGATGGTGCTGGTGGTGGTGTTCCTGGTCTGCCTGATCATGCTGTTGTTCGTGGTGCCGGTGT
TCGCCAAGACCTTCCAGGATGCCGGCGCGCAGCTGCCGGCGCCGACCCAGTTGCTGGTCAGTGCCTCGGAGTTCATGCAG
AGCTACTGGCTGTTGGTGGTCGGCGTGACCGTGGGCGGCGTGGTCGCGCTGGTCGTCGCCAAGAAGCGCTCGGTGAAGTT
CGCCCACTTCCTCGACCGCATGGCGCTGAAGATGCCGGTGATGGGCAACATCGTGCGCAACTCGGCGATCGCCCGCTTCG
CCCGCACCCTGGGCGTGACGTTCCGCGCCGGCGTGCCGCTGGTCGAGGCGCTGGACGCGGTGGCCGGCGCCACCGGCAGC
GTGGTCTACGGCGATGCCGTGAAGCAGATGCGCGAGGACATCTCGGTCGGCCACCAGCTGCAGCTGGCGATGAAACAGAC
CAACCTGTTCCCGAACATGGTGGTGCAGATGACCGCGATCGGCGAAGAATCCGGCTCGCTGGACAACATGTTGTTCAAGG
TTGCCGAGTTCTACGAGGAGGAAGTCAGCAACGCCGTCGACACCCTGTCCACCCTGCTCGAACCGATCATCATGGTGGTG
CTGGGCACCCTGGTCGGCGGCATGGTGATCGCGCTGTACCTGCCGATCTTCAAGCTCGCCGGCACGTTCTGA

Domains

Predicted by InterproScan.

Type II secretion system (T2SS), protein F (T2SSF)

(293-415)

Type II secretion system (T2SS), protein F (T2SSF)

(89-212)


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
  pilC Legionella pneumophila strain ERS1305867

53.924

93.381

0.504
  pilC Pseudomonas stutzeri DSM 10701

51.889

93.853

0.487
  pilC Acinetobacter baylyi ADP1

48.522

95.981

0.466
  pilC Acinetobacter baumannii D1279779

48.866

93.853

0.459
  pilG Neisseria gonorrhoeae MS11

41.86

91.489

0.383
  pilG Neisseria meningitidis 44/76-A

41.146

90.78

0.374