Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   LDN84_RS04410 Genome accession   NZ_AP024238
Coordinates   938662..939879 (-) Length   405 a.a.
NCBI ID   WP_223909001.1    Uniprot ID   -
Organism   Rhodoferax lithotrophicus strain MIZ03     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 933662..944879
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LDN84_RS04380 (MIZ03_0927) - 933751..935130 (-) 1380 WP_223908953.1 ribulose-bisphosphate carboxylase -
  LDN84_RS04385 (MIZ03_0928) - 935354..936121 (+) 768 WP_223908958.1 ParA family protein -
  LDN84_RS04390 (MIZ03_0929) - 936197..936421 (-) 225 WP_223908966.1 DNA gyrase inhibitor YacG -
  LDN84_RS04395 (MIZ03_0930) zapD 936418..937173 (-) 756 WP_223908969.1 cell division protein ZapD -
  LDN84_RS04400 (MIZ03_0931) coaE 937197..937814 (-) 618 WP_223908976.1 dephospho-CoA kinase -
  LDN84_RS04405 (MIZ03_0932) - 937817..938659 (-) 843 WP_223908986.1 A24 family peptidase -
  LDN84_RS04410 (MIZ03_0933) pilC 938662..939879 (-) 1218 WP_223909001.1 type II secretion system F family protein Machinery gene
  LDN84_RS04415 (MIZ03_0934) pilB 939912..941645 (-) 1734 WP_223909009.1 type IV-A pilus assembly ATPase PilB Machinery gene
  LDN84_RS04420 (MIZ03_0935) greB 941777..942337 (+) 561 WP_223909015.1 transcription elongation factor GreB -
  LDN84_RS04425 (MIZ03_0936) - 942327..944582 (-) 2256 WP_223909018.1 bifunctional (p)ppGpp synthetase/guanosine-3',5'-bis(diphosphate) 3'-pyrophosphohydrolase -
  LDN84_RS04430 (MIZ03_0937) rpoZ 944673..944876 (-) 204 WP_223909024.1 DNA-directed RNA polymerase subunit omega -

Sequence

Protein


Download         Length: 405 a.a.        Molecular weight: 44537.52 Da        Isoelectric Point: 9.3516

>NTDB_id=84220 LDN84_RS04410 WP_223909001.1 938662..939879(-) (pilC) [Rhodoferax lithotrophicus strain MIZ03]
MATVQSKISKEFVFEWEGKDRNGKLVRGEMRAGGEHQVQASLRRQGVLPSKIKKRRMSSGKAIKPKDMAIFTRQLATMMK
AGVPLLQAFDIVGRGNPNPSVTRLLNDIRTDVETGTSLSVAFRKYPLYFDNLYCNLVEAGESAGILDQLLDRLAVYMEKT
EAMKSKIKSALMYPISVLIVAFVVTAVIMIFVVPAFKEVFSNFGADLPGPTLAVIAMSEIFVKYWWLIFGGIGGGLYFFM
QAWKRNQKMQQFMDRLLLKMPIFGILIDKSCTARWTRTLSTMFAAGVPLVEALDSVGGAAGNWVYESATLKIQQEVSTGT
ALTTAMTNVNLFPSMVLQMCAIGEESGSIDHMLGKAADFYEAEVDDMVAGISSLMEPIIIVILGTVIGGIVVAMYLPIFK
LGQVV

Nucleotide


Download         Length: 1218 bp        

>NTDB_id=84220 LDN84_RS04410 WP_223909001.1 938662..939879(-) (pilC) [Rhodoferax lithotrophicus strain MIZ03]
ATGGCGACTGTCCAATCCAAAATCAGCAAGGAATTTGTCTTTGAATGGGAAGGCAAAGACCGCAATGGCAAACTGGTACG
CGGCGAAATGCGTGCTGGTGGTGAGCATCAGGTACAAGCCTCATTACGCCGTCAGGGGGTGCTGCCATCGAAGATCAAAA
AGCGCCGGATGAGCTCAGGCAAGGCCATCAAACCCAAGGACATGGCTATTTTTACCCGCCAACTGGCCACCATGATGAAA
GCTGGCGTACCCTTGCTGCAAGCCTTTGACATTGTGGGCAGGGGCAATCCGAACCCCAGTGTTACCCGCCTGCTCAATGA
CATTCGCACCGATGTGGAAACCGGCACCTCACTGAGTGTGGCGTTTCGCAAATATCCGCTGTACTTTGACAACCTGTATT
GCAACCTGGTGGAGGCCGGTGAATCGGCAGGTATCCTGGATCAATTACTTGATCGACTGGCCGTCTACATGGAAAAGACC
GAGGCCATGAAGTCCAAGATCAAATCGGCGCTGATGTACCCGATTTCAGTGTTGATCGTGGCCTTTGTCGTGACCGCCGT
GATCATGATTTTTGTGGTACCTGCGTTCAAGGAGGTGTTTTCCAACTTTGGAGCCGACTTACCCGGTCCCACGTTGGCCG
TGATTGCCATGAGCGAGATTTTTGTCAAGTACTGGTGGCTAATTTTCGGCGGCATTGGTGGTGGCTTGTATTTCTTCATG
CAGGCCTGGAAACGCAACCAAAAGATGCAGCAATTCATGGATCGCTTGCTGCTGAAAATGCCCATTTTTGGCATTCTGAT
CGACAAATCGTGTACCGCACGCTGGACACGCACGCTCTCCACCATGTTTGCGGCCGGTGTACCTCTGGTCGAAGCACTCG
ACTCGGTTGGCGGTGCTGCGGGCAATTGGGTGTATGAATCCGCCACGCTCAAAATCCAGCAGGAGGTTTCCACCGGCACA
GCGCTCACCACCGCCATGACCAACGTCAACCTGTTTCCCTCGATGGTGCTGCAAATGTGTGCCATTGGTGAAGAATCCGG
CTCCATTGATCACATGCTGGGTAAAGCCGCTGATTTTTACGAGGCGGAGGTGGATGACATGGTGGCGGGTATCTCCAGCC
TGATGGAGCCCATCATCATTGTGATTCTGGGTACTGTGATCGGGGGTATCGTGGTCGCCATGTACCTGCCCATCTTCAAA
TTGGGACAGGTGGTGTGA

Domains

Predicted by InterproScan.

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

(275-397)

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

(71-194)


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

53.731

99.259

0.533
  pilG Neisseria gonorrhoeae MS11

52.75

98.765

0.521
  pilG Neisseria meningitidis 44/76-A

52.25

98.765

0.516
  pilC Legionella pneumophila strain ERS1305867

50.505

97.778

0.494
  pilC Acinetobacter baylyi ADP1

50.251

98.272

0.494
  pilC Acinetobacter baumannii D1279779

49.118

98.025

0.481
  pilC Vibrio cholerae strain A1552

40.806

98.025

0.4
  pilC Thermus thermophilus HB27

38.971

100

0.393
  pilC Vibrio campbellii strain DS40M4

38.424

100

0.385

Multiple sequence alignment