Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   VARPA_RS24110 Genome accession   NC_014931
Coordinates   5249645..5250877 (+) Length   410 a.a.
NCBI ID   WP_013543202.1    Uniprot ID   A0AAW8CZ58
Organism   Variovorax paradoxus EPS     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 5244645..5255877
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  VARPA_RS24080 (Varpa_4828) cgtA 5244728..5245804 (-) 1077 WP_013543197.1 Obg family GTPase CgtA -
  VARPA_RS24085 (Varpa_4829) rpmA 5245876..5246136 (-) 261 WP_013543198.1 50S ribosomal protein L27 -
  VARPA_RS24090 (Varpa_4830) rplU 5246158..5246469 (-) 312 WP_013543199.1 50S ribosomal protein L21 -
  VARPA_RS24095 (Varpa_4831) - 5246653..5247645 (+) 993 WP_013543200.1 polyprenyl synthetase family protein -
  VARPA_RS24105 (Varpa_4832) pilB 5247887..5249620 (+) 1734 WP_013543201.1 type IV-A pilus assembly ATPase PilB Machinery gene
  VARPA_RS24110 (Varpa_4833) pilC 5249645..5250877 (+) 1233 WP_013543202.1 type II secretion system F family protein Machinery gene
  VARPA_RS24115 (Varpa_4834) - 5250877..5251842 (+) 966 WP_013543203.1 prepilin peptidase -
  VARPA_RS24120 (Varpa_4835) coaE 5251853..5252461 (+) 609 WP_013543204.1 dephospho-CoA kinase -
  VARPA_RS24125 (Varpa_4836) - 5252535..5254028 (+) 1494 WP_013543205.1 MBOAT family O-acyltransferase -
  VARPA_RS24130 (Varpa_4837) - 5254041..5255054 (+) 1014 WP_234974826.1 hypothetical protein -
  VARPA_RS24135 (Varpa_4838) zapD 5255091..5255846 (+) 756 WP_013543207.1 cell division protein ZapD -

Sequence

Protein


Download         Length: 410 a.a.        Molecular weight: 44784.52 Da        Isoelectric Point: 9.5343

>NTDB_id=39549 VARPA_RS24110 WP_013543202.1 5249645..5250877(+) (pilC) [Variovorax paradoxus EPS]
MATVASSRSSQVTHKEFVFEWEGKDRNGKLVRGELRAAGENQVQAALRRQGVLASKIKKRRMRSGKAIKPKDIAIFTRQL
ATMMKAGVPLLQSFDIVGRGNANASVAKLLNDIRSDVETGTSLSAAFRKFPKYFDNLYCNLVEAGEAAGILEDLLDRLAT
YMEKTEAIKSKIKSALMYPTSVVVVAFVVVAIIMIFVIPVFKEVFTSFGADLPAPTLFVMAMSEFFVSYWWLIFGALGGG
IYFFMQAWKRNERLQKAMDRLLLRIPIFGVLIEKSCVARWTRTLATMFAAGVPLVEALDSVGGASGNSVYGDATAKIQQE
VSTGTSLTAAMTNVNLFPSMVIQMTAIGEESGSIDHMLGKAADFYESEVDDMVAGLSSLMEPIIIVFLGVIIGGIVVSMY
LPIFKLGQVV

Nucleotide


Download         Length: 1233 bp        

>NTDB_id=39549 VARPA_RS24110 WP_013543202.1 5249645..5250877(+) (pilC) [Variovorax paradoxus EPS]
ATGGCAACAGTGGCATCCTCCCGCTCCTCCCAGGTCACGCACAAGGAATTTGTCTTCGAGTGGGAAGGCAAGGACCGAAA
CGGCAAGCTGGTGCGCGGCGAACTTCGGGCCGCAGGCGAAAACCAGGTGCAGGCCGCGCTGCGACGTCAGGGGGTGCTCG
CGAGCAAGATCAAGAAGCGCCGCATGCGCTCGGGCAAGGCCATCAAGCCCAAGGACATCGCGATCTTCACGCGCCAATTG
GCGACGATGATGAAGGCTGGCGTGCCGTTGCTTCAATCCTTCGACATCGTTGGACGCGGCAATGCGAATGCCAGCGTTGC
GAAGTTGCTCAACGACATCCGCAGCGATGTGGAAACCGGCACATCGCTTTCGGCAGCTTTCCGCAAGTTCCCGAAGTATT
TCGATAACCTGTACTGCAATCTGGTGGAGGCGGGCGAGGCAGCGGGCATCTTGGAGGATCTGCTGGACCGCCTTGCCACT
TACATGGAAAAGACCGAGGCGATCAAATCCAAGATCAAGTCGGCATTGATGTATCCGACTTCCGTTGTCGTTGTCGCGTT
CGTGGTGGTCGCGATCATCATGATCTTTGTGATTCCAGTCTTCAAAGAAGTCTTCACTTCATTCGGCGCTGACCTGCCGG
CACCAACGCTGTTCGTGATGGCCATGAGCGAGTTCTTCGTCTCATACTGGTGGCTGATCTTTGGTGCTCTCGGTGGCGGA
ATCTACTTTTTCATGCAAGCTTGGAAGCGCAACGAGCGCCTGCAAAAGGCCATGGATCGCCTGTTGCTGCGCATTCCGAT
TTTTGGCGTACTGATCGAGAAGTCTTGCGTAGCGCGTTGGACGCGAACGCTGGCGACGATGTTTGCGGCCGGCGTCCCCT
TGGTCGAAGCTCTGGATTCCGTGGGCGGCGCCTCGGGCAACTCCGTCTACGGCGATGCCACGGCCAAGATCCAGCAGGAA
GTCTCGACCGGCACCAGCCTCACCGCGGCCATGACCAACGTCAATCTCTTCCCCTCGATGGTGATCCAGATGACCGCGAT
CGGCGAGGAATCCGGCTCCATCGACCACATGCTGGGCAAGGCTGCGGACTTCTACGAATCCGAAGTGGACGACATGGTCG
CTGGCCTCTCCAGCCTGATGGAACCCATCATCATCGTGTTCCTCGGCGTGATCATCGGCGGAATCGTGGTGTCGATGTAC
CTGCCCATCTTCAAGCTCGGCCAAGTCGTCTGA

Domains

Predicted by InterproScan.

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

(76-199)

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

(280-402)


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 Pseudomonas stutzeri DSM 10701

53.465

98.537

0.527
  pilG Neisseria gonorrhoeae MS11

52.645

96.829

0.51
  pilG Neisseria meningitidis 44/76-A

52.393

96.829

0.507
  pilC Acinetobacter baylyi ADP1

51.508

97.073

0.5
  pilC Acinetobacter baumannii D1279779

50.126

96.829

0.485
  pilC Legionella pneumophila strain ERS1305867

50

97.073

0.485
  pilC Vibrio cholerae strain A1552

40.955

97.073

0.398
  pilC Thermus thermophilus HB27

37.947

100

0.388
  pilC Vibrio campbellii strain DS40M4

39.303

98.049

0.385

Multiple sequence alignment