Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   QMK58_RS25530 Genome accession   NZ_CP125377
Coordinates   5700399..5701271 (+) Length   290 a.a.
NCBI ID   WP_053162482.1    Uniprot ID   -
Organism   Pseudomonas sp. P8_241     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 5695399..5706271
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  QMK58_RS25515 (QMK58_25515) - 5697759..5698115 (-) 357 WP_320395594.1 BON domain-containing protein -
  QMK58_RS25520 (QMK58_25520) - 5698517..5698939 (-) 423 WP_320395595.1 pilin -
  QMK58_RS25525 (QMK58_25525) pilC 5699180..5700397 (+) 1218 WP_053162480.1 type II secretion system F family protein Machinery gene
  QMK58_RS25530 (QMK58_25530) pilD 5700399..5701271 (+) 873 WP_053162482.1 prepilin peptidase Machinery gene
  QMK58_RS25535 (QMK58_25535) coaE 5701268..5701891 (+) 624 WP_053162484.1 dephospho-CoA kinase -
  QMK58_RS25540 (QMK58_25540) yacG 5701888..5702088 (+) 201 WP_007970539.1 DNA gyrase inhibitor YacG -
  QMK58_RS25545 (QMK58_25545) - 5702124..5702813 (-) 690 WP_053162486.1 energy-coupling factor ABC transporter permease -
  QMK58_RS25550 (QMK58_25550) - 5702885..5703817 (-) 933 WP_053162488.1 LysR family transcriptional regulator -
  QMK58_RS25555 (QMK58_25555) - 5703940..5704182 (+) 243 WP_053162490.1 DUF2790 domain-containing protein -
  QMK58_RS25560 (QMK58_25560) - 5704191..5705459 (-) 1269 WP_320395596.1 OprD family porin -

Sequence

Protein


Download         Length: 290 a.a.        Molecular weight: 32182.67 Da        Isoelectric Point: 8.5052

>NTDB_id=831597 QMK58_RS25530 WP_053162482.1 5700399..5701271(+) (pilD) [Pseudomonas sp. P8_241]
MPLNEILMLHPLAFVVIAGVIGLLVGSFLNVLIWRLPKMLERDWRLQAHDILGLPAETPLRTYNLMLPHSECPHCGHRIR
AWENIPVLSFVFLRGRCSACTTPISKRYPLTELACGLLSAFIAWHFGFGWAACLVLILTWGLLAMSLIDAGHQILPDVLV
LPLMWLGLIVNSFGLFVPLQEALWGAIAGYTALWVVFWLFKLITGKDGMGHGDFKLLAMLGAWGGWQILPLTILLSSLVG
AIIGLVSLRLRHAKTSTPIPFGPYLAIAGWIALLWGGQITDFYWQFVGLK

Nucleotide


Download         Length: 873 bp        

>NTDB_id=831597 QMK58_RS25530 WP_053162482.1 5700399..5701271(+) (pilD) [Pseudomonas sp. P8_241]
ATGCCCTTGAACGAAATTCTGATGCTCCATCCGCTGGCTTTTGTCGTCATCGCCGGGGTGATCGGCCTGTTGGTCGGCAG
CTTCCTCAATGTGTTGATCTGGCGCTTGCCTAAAATGCTCGAACGCGACTGGCGCCTGCAAGCCCATGACATTCTCGGGC
TCCCCGCCGAAACACCGTTGCGGACCTACAACCTGATGCTGCCGCATTCCGAGTGTCCGCACTGCGGTCACCGGATCCGT
GCCTGGGAAAACATTCCTGTGCTCAGTTTTGTATTTCTGCGCGGACGCTGCTCCGCCTGCACGACACCGATCAGCAAGCG
CTATCCACTCACCGAACTGGCTTGCGGCCTGTTGTCGGCCTTCATTGCCTGGCACTTTGGTTTTGGTTGGGCGGCCTGCC
TGGTGCTGATCCTGACCTGGGGCTTGCTGGCGATGAGCCTGATCGACGCCGGGCATCAGATTTTGCCGGACGTGCTGGTG
CTGCCATTGATGTGGCTGGGATTGATCGTCAACAGCTTCGGCCTGTTCGTGCCCTTACAAGAAGCCCTGTGGGGCGCAAT
CGCTGGCTACACAGCGCTGTGGGTGGTGTTCTGGCTGTTCAAGCTGATCACGGGCAAGGACGGCATGGGTCACGGCGATT
TCAAGCTGTTGGCCATGCTGGGCGCTTGGGGAGGCTGGCAAATCCTGCCGTTGACCATCCTGTTGTCGTCACTGGTGGGG
GCCATCATCGGGTTGGTCAGCCTGCGTCTGCGCCACGCAAAAACCTCAACTCCGATCCCTTTCGGCCCCTATCTGGCAAT
TGCCGGCTGGATTGCCTTGCTCTGGGGTGGTCAAATAACCGACTTCTATTGGCAGTTTGTCGGTTTGAAATGA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-126)

Type IV leader peptidase family (Peptidase_A24)

(136-245)


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 campbellii strain DS40M4

51.418

97.241

0.5
  pilD Vibrio cholerae strain A1552

51.418

97.241

0.5
  pilD Neisseria gonorrhoeae MS11

50.741

93.103

0.472
  pilD Acinetobacter baumannii D1279779

47.81

94.483

0.452
  pilD Acinetobacter nosocomialis M2

47.08

94.483

0.445