Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   S7S_RS04900 Genome accession   NZ_CP004387
Coordinates   1039783..1040655 (-) Length   290 a.a.
NCBI ID   WP_008739563.1    Uniprot ID   -
Organism   Isoalcanivorax pacificus W11-5     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1034783..1045655
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  S7S_RS04880 (S7S_04865) argJ 1036693..1037892 (+) 1200 WP_008739559.1 bifunctional glutamate N-acetyltransferase/amino-acid acetyltransferase ArgJ -
  S7S_RS04885 (S7S_04870) - 1037923..1038834 (+) 912 WP_008739560.1 Nudix family hydrolase -
  S7S_RS04890 (S7S_04875) yacG 1038883..1039065 (-) 183 WP_008739561.1 DNA gyrase inhibitor YacG -
  S7S_RS04895 (S7S_04880) coaE 1039070..1039684 (-) 615 WP_008739562.1 dephospho-CoA kinase -
  S7S_RS04900 (S7S_04885) pilD 1039783..1040655 (-) 873 WP_008739563.1 prepilin peptidase Machinery gene
  S7S_RS04905 (S7S_04890) pilC 1040668..1041897 (-) 1230 WP_008739564.1 type II secretion system F family protein Machinery gene
  S7S_RS04910 (S7S_04895) pilB 1041900..1043606 (-) 1707 WP_035205748.1 type IV-A pilus assembly ATPase PilB Machinery gene
  S7S_RS20170 - 1044093..1044210 (+) 118 Protein_985 pilin -
  S7S_RS04915 (S7S_04900) - 1044222..1044560 (+) 339 WP_420795643.1 pilin -

Sequence

Protein


Download         Length: 290 a.a.        Molecular weight: 31663.75 Da        Isoelectric Point: 6.9289

>NTDB_id=112321 S7S_RS04900 WP_008739563.1 1039783..1040655(-) (pilD) [Isoalcanivorax pacificus W11-5]
MTLTDLLQTSPVLLTVLVFILGLLVGSFINVVVYRLPRMMETAWQAEARAMLDLPEEPAGPRFNLVVPRSRCPHCNHQIR
WYENVPVLSWLFLRGKCSQCDNGIAMRYPVVELCAGLLGALAAWHFGYGPWLAAMLFALWTLLALALIDFDTTLLPDSLN
YPLLWAGLLAAWAGISPVPLHDAVAGAVLGYMTLWCLYWAFKLLTGKEGMGYGDFKLLAALGAWLGWQLLPLVILLSSLV
GAVVGGILLATGTIRHGQGIPFGPYLAGAGLIALLWGNQIIDAYLGLMKF

Nucleotide


Download         Length: 873 bp        

>NTDB_id=112321 S7S_RS04900 WP_008739563.1 1039783..1040655(-) (pilD) [Isoalcanivorax pacificus W11-5]
ATGACCTTGACGGATCTGCTGCAGACCAGCCCGGTACTGCTCACTGTACTGGTATTTATTCTCGGCCTGCTCGTGGGCAG
CTTTATCAATGTGGTGGTGTACCGCCTGCCACGCATGATGGAAACCGCCTGGCAGGCAGAGGCCCGTGCCATGCTGGATC
TGCCGGAGGAACCCGCAGGCCCGCGTTTCAATCTGGTCGTCCCCCGCTCGCGTTGCCCGCACTGCAATCATCAGATTCGC
TGGTACGAAAACGTGCCCGTCCTGAGCTGGCTGTTTCTGCGCGGCAAGTGCAGCCAGTGCGACAACGGTATTGCCATGCG
TTACCCGGTGGTGGAGCTGTGCGCGGGCCTGCTCGGCGCCCTGGCCGCCTGGCATTTTGGTTACGGCCCCTGGCTGGCCG
CGATGCTGTTCGCGCTCTGGACCCTGCTGGCGCTGGCACTGATCGACTTCGACACGACCCTGCTGCCCGACTCACTCAAC
TATCCGCTGCTGTGGGCCGGCCTGCTGGCCGCCTGGGCAGGCATCTCGCCCGTCCCGCTGCATGACGCCGTGGCCGGTGC
CGTGCTCGGCTATATGACGCTGTGGTGCCTTTACTGGGCCTTCAAGCTGCTGACAGGCAAGGAAGGCATGGGTTACGGCG
ACTTCAAACTGCTCGCTGCACTCGGTGCCTGGCTGGGTTGGCAGTTGCTGCCACTGGTGATTCTGCTATCGTCCCTCGTC
GGCGCCGTGGTAGGCGGCATCCTGCTCGCCACGGGCACGATCCGCCACGGTCAGGGCATCCCGTTTGGCCCTTATCTGGC
GGGTGCCGGCCTGATTGCCCTGCTCTGGGGCAACCAGATCATCGATGCCTACCTTGGCCTGATGAAGTTTTGA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-126)

Type IV leader peptidase family (Peptidase_A24)

(137-245)


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
  pilD Vibrio cholerae strain A1552

53.873

97.931

0.528
  pilD Vibrio campbellii strain DS40M4

51.773

97.241

0.503
  pilD Acinetobacter baumannii D1279779

48.727

94.828

0.462
  pilD Acinetobacter nosocomialis M2

48.364

94.828

0.459
  pilD Neisseria gonorrhoeae MS11

46.237

96.207

0.445

Multiple sequence alignment