Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   QMK55_RS08935 Genome accession   NZ_CP125378
Coordinates   1988844..1989716 (+) Length   290 a.a.
NCBI ID   WP_102356467.1    Uniprot ID   A0A2N7R9Z2
Organism   Pseudomonas sp. P8_229     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1983844..1994716
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  QMK55_RS08910 (QMK55_08905) - 1984039..1984335 (+) 297 WP_102356462.1 DUF2845 domain-containing protein -
  QMK55_RS08915 (QMK55_08910) - 1984607..1984963 (-) 357 WP_320329061.1 BON domain-containing protein -
  QMK55_RS08920 (QMK55_08915) pilA 1985256..1985696 (-) 441 WP_102356464.1 pilin Machinery gene
  QMK55_RS08925 (QMK55_08920) pilB 1985922..1987622 (+) 1701 WP_320329062.1 type IV-A pilus assembly ATPase PilB Machinery gene
  QMK55_RS08930 (QMK55_08925) pilC 1987625..1988842 (+) 1218 WP_102356466.1 type II secretion system F family protein Machinery gene
  QMK55_RS08935 (QMK55_08930) pilD 1988844..1989716 (+) 873 WP_102356467.1 prepilin peptidase Machinery gene
  QMK55_RS08940 (QMK55_08935) coaE 1989713..1990336 (+) 624 WP_102356468.1 dephospho-CoA kinase -
  QMK55_RS08945 (QMK55_08940) yacG 1990333..1990533 (+) 201 WP_102356469.1 DNA gyrase inhibitor YacG -
  QMK55_RS08950 (QMK55_08945) - 1990540..1990755 (-) 216 WP_007909901.1 hypothetical protein -
  QMK55_RS08955 (QMK55_08950) - 1990821..1991510 (-) 690 WP_320329063.1 energy-coupling factor ABC transporter permease -
  QMK55_RS08960 (QMK55_08955) - 1991629..1992255 (+) 627 WP_003228301.1 DUF1780 domain-containing protein -
  QMK55_RS08965 (QMK55_08960) - 1992252..1992779 (+) 528 WP_320329064.1 MOSC domain-containing protein -
  QMK55_RS08970 (QMK55_08965) - 1992831..1993004 (+) 174 WP_102356472.1 DUF3094 domain-containing protein -
  QMK55_RS08975 (QMK55_08970) - 1993068..1994366 (+) 1299 WP_320329065.1 NAD(P)/FAD-dependent oxidoreductase -

Sequence

Protein


Download         Length: 290 a.a.        Molecular weight: 32169.40 Da        Isoelectric Point: 7.7104

>NTDB_id=831615 QMK55_RS08935 WP_102356467.1 1988844..1989716(+) (pilD) [Pseudomonas sp. P8_229]
MPIDELFSLYPLAFVFTALLLGLVVGSFLNVLVWRLPKMLERDWRQQAQDVLGLPSDTPLPTYNLILPHSECPQCGHRIR
VWENIPLLSYLFLRGRCSACAAPISKRYPLTELACGLLSAFIAWHLGFGWPAGLLIVLTWGLLAMSLIDTEHQLLPDVLV
LPLLWLGLIVNSFAVFVSLHAALWGAVAGYMALWSVFWLFKLLTGKDGIGHGDFKLLALLGAWGGWQILPLTILLSSLVG
AVVGVIVLRLREQKTSTPIPFGPYLAIAGWIALLWGGQITDFYWQFVGLK

Nucleotide


Download         Length: 873 bp        

>NTDB_id=831615 QMK55_RS08935 WP_102356467.1 1988844..1989716(+) (pilD) [Pseudomonas sp. P8_229]
ATGCCTATCGACGAACTTTTCAGTCTGTATCCGCTGGCCTTCGTTTTCACTGCACTGCTGCTGGGTCTGGTGGTCGGCAG
TTTTCTCAACGTGCTGGTCTGGCGTCTGCCGAAAATGCTCGAGCGCGATTGGCGCCAGCAGGCTCAGGACGTCCTCGGCC
TGCCGAGTGATACGCCACTGCCGACTTACAACCTGATACTGCCGCACTCCGAATGCCCGCAATGCGGCCACCGAATTCGT
GTATGGGAGAACATCCCGCTGCTCAGCTACCTGTTCCTGCGCGGACGCTGTTCTGCGTGTGCCGCCCCGATCAGCAAGCG
CTATCCCCTGACTGAACTGGCCTGCGGTCTGCTCTCGGCGTTCATCGCCTGGCATCTGGGTTTTGGCTGGCCGGCCGGTC
TGTTGATCGTCCTCACCTGGGGGCTGCTGGCGATGAGCCTGATCGATACCGAACATCAACTGCTGCCCGATGTGCTGGTG
CTGCCGTTGCTGTGGCTGGGGTTGATCGTCAACAGCTTCGCAGTGTTCGTCTCGCTGCACGCGGCACTATGGGGCGCGGT
GGCCGGTTACATGGCGCTGTGGTCGGTGTTCTGGCTGTTCAAGCTGCTGACCGGCAAAGACGGCATCGGTCATGGTGATT
TCAAGCTGCTGGCGCTGCTCGGGGCCTGGGGTGGCTGGCAGATTCTGCCGCTGACGATCCTGTTGTCATCGCTGGTGGGG
GCCGTTGTCGGGGTGATTGTGCTGCGTCTGCGCGAACAGAAAACCTCGACGCCGATCCCCTTCGGCCCGTATCTGGCAAT
TGCCGGCTGGATTGCCTTGCTCTGGGGTGGTCAAATAACCGACTTCTATTGGCAGTTTGTCGGTTTGAAATGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(136-245)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-125)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB A0A2N7R9Z2

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

53.546

97.241

0.521
  pilD Vibrio campbellii strain DS40M4

51.773

97.241

0.503
  pilD Acinetobacter baumannii D1279779

47.985

94.138

0.452
  pilD Acinetobacter nosocomialis M2

47.985

94.138

0.452
  pilD Neisseria gonorrhoeae MS11

47.778

93.103

0.445