Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilC   Type   Machinery gene
Locus tag   RAM80_RS12945 Genome accession   NZ_CP133165
Coordinates   2794701..2795924 (+) Length   407 a.a.
NCBI ID   WP_416426931.1    Uniprot ID   -
Organism   Pseudomonas sp. App30     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2789701..2800924
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  RAM80_RS12910 (RAM80_12890) - 2789873..2790136 (+) 264 WP_416426925.1 hypothetical protein -
  RAM80_RS12915 (RAM80_12895) - 2790231..2791007 (-) 777 WP_416426926.1 EAL domain-containing protein -
  RAM80_RS12920 (RAM80_12900) - 2791297..2791686 (+) 390 WP_416426927.1 hypothetical protein -
  RAM80_RS12930 (RAM80_12910) - 2791866..2792291 (-) 426 WP_416426928.1 pilin -
  RAM80_RS12935 (RAM80_12915) - 2792349..2792768 (-) 420 WP_416426929.1 pilin -
  RAM80_RS12940 (RAM80_12920) pilB 2792997..2794697 (+) 1701 WP_416426930.1 type IV-A pilus assembly ATPase PilB Machinery gene
  RAM80_RS12945 (RAM80_12925) pilC 2794701..2795924 (+) 1224 WP_416426931.1 type II secretion system F family protein Machinery gene
  RAM80_RS12950 (RAM80_12930) pilD 2795926..2796795 (+) 870 WP_416426932.1 prepilin peptidase Machinery gene
  RAM80_RS12955 (RAM80_12935) coaE 2796795..2797418 (+) 624 WP_416426933.1 dephospho-CoA kinase -
  RAM80_RS12960 (RAM80_12940) yacG 2797415..2797618 (+) 204 WP_416426934.1 DNA gyrase inhibitor YacG -
  RAM80_RS12965 (RAM80_12945) - 2797748..2798425 (-) 678 WP_416426935.1 energy-coupling factor ABC transporter permease -
  RAM80_RS12970 (RAM80_12950) - 2798422..2798889 (-) 468 WP_008371544.1 hypothetical protein -
  RAM80_RS12975 (RAM80_12955) - 2799001..2799630 (+) 630 WP_416426936.1 DUF1780 domain-containing protein -
  RAM80_RS12980 (RAM80_12960) - 2799806..2799979 (+) 174 WP_416426937.1 DUF3094 domain-containing protein -

Sequence

Protein


Download         Length: 407 a.a.        Molecular weight: 44537.44 Da        Isoelectric Point: 10.0028

>NTDB_id=872246 RAM80_RS12945 WP_416426931.1 2794701..2795924(+) (pilC) [Pseudomonas sp. App30]
MAAKPATAKVSTYAWEGVDRKGTKVTGELTGTNLALVKAQLRKQGINPSKVRKKSASLFGRGKKIKPMDIALFTRQMATM
MRAGVPLLQSFEIIGEGFDNPNMRKLVDELKQEVAAGNSFATSLRQKPQYFDDLYCNLVHAGEQAGALETLLDRVATYKE
KTEALKSKIRKAMNYPIAVVVVALIVSSILLIKVVPQFQIVFQGFGAQLPAFTLMVIGLSEIMQSYWWMVLLGLIAAIFA
FKQAHKKSQRFRDFLDRAVLKLPVVGDILYKSAVARYARTLSTTFAAGVPLVEALDSVSGATGNIVFKNAVNKVKSDVST
GMQLNFSMRSTGVFPTMAIQMTAIGEESGALDEMLDKVATYYETEVDNMVDSLTSLMEPLIMCFLGIIVGGLVVAMYLPI
FQLGNVV

Nucleotide


Download         Length: 1224 bp        

>NTDB_id=872246 RAM80_RS12945 WP_416426931.1 2794701..2795924(+) (pilC) [Pseudomonas sp. App30]
ATGGCGGCAAAACCAGCAACAGCAAAAGTCAGCACCTATGCGTGGGAAGGCGTGGACCGCAAGGGTACCAAAGTGACGGG
CGAACTGACCGGGACCAATTTGGCATTGGTCAAGGCTCAACTACGCAAGCAGGGTATCAACCCCAGTAAAGTGCGGAAAA
AGTCAGCATCGCTGTTCGGGCGCGGCAAGAAAATCAAGCCCATGGACATCGCGCTTTTTACCCGGCAAATGGCAACCATG
ATGCGAGCTGGTGTCCCTTTATTGCAGTCCTTCGAGATTATCGGCGAAGGGTTCGACAACCCCAACATGCGAAAATTGGT
GGATGAACTGAAGCAAGAGGTCGCGGCCGGCAACAGTTTTGCTACTTCACTTCGGCAAAAACCGCAGTATTTTGATGACC
TCTATTGCAACCTTGTTCATGCCGGCGAACAAGCCGGCGCGCTTGAGACCCTACTCGACCGGGTAGCCACGTATAAAGAA
AAGACCGAAGCGCTCAAGTCCAAAATCCGCAAGGCAATGAACTACCCTATTGCCGTCGTGGTGGTGGCACTTATTGTTTC
GTCGATTCTCTTGATAAAAGTAGTACCTCAGTTCCAAATCGTATTTCAGGGCTTTGGCGCGCAACTGCCTGCCTTCACCT
TGATGGTGATCGGGCTCTCGGAAATCATGCAATCCTACTGGTGGATGGTACTGTTGGGGTTGATTGCTGCCATCTTCGCC
TTTAAACAGGCCCATAAAAAAAGCCAACGTTTCAGGGATTTTCTCGATCGTGCGGTCCTAAAACTGCCCGTTGTCGGCGA
CATTCTCTACAAATCCGCAGTTGCGCGATACGCTCGCACCCTTTCAACAACTTTCGCCGCCGGCGTCCCCCTAGTAGAAG
CGCTGGACTCGGTCTCTGGCGCCACGGGCAACATCGTTTTCAAGAACGCGGTCAATAAGGTCAAATCTGACGTTTCAACC
GGCATGCAGCTCAACTTCTCCATGCGCTCCACGGGTGTATTCCCGACCATGGCCATCCAGATGACGGCTATCGGCGAAGA
GTCCGGGGCCCTGGATGAGATGCTCGACAAGGTTGCCACGTACTACGAAACCGAAGTGGACAACATGGTCGACAGCCTGA
CCAGCCTGATGGAGCCGTTGATCATGTGCTTCCTCGGCATCATCGTTGGCGGCCTCGTCGTTGCCATGTACCTCCCCATC
TTCCAACTCGGCAACGTCGTCTAA

Domains

Predicted by InterproScan.

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

(73-196)

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

(278-399)


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

78.446

98.034

0.769
  pilC Acinetobacter baylyi ADP1

61.858

100

0.622
  pilC Acinetobacter baumannii D1279779

59.169

100

0.595
  pilC Legionella pneumophila strain ERS1305867

53.904

97.543

0.526
  pilG Neisseria meningitidis 44/76-A

43.641

98.526

0.43
  pilG Neisseria gonorrhoeae MS11

43.392

98.526

0.428
  pilC Vibrio cholerae strain A1552

43.035

98.771

0.425
  pilC Vibrio campbellii strain DS40M4

40.494

99.509

0.403
  pilC Thermus thermophilus HB27

38.75

98.28

0.381