Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   M6E97_RS29850 Genome accession   NZ_CP097857
Coordinates   6434636..6435508 (+) Length   290 a.a.
NCBI ID   WP_003116251.1    Uniprot ID   -
Organism   Pseudomonas sp. B111     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 6429636..6440508
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  M6E97_RS29820 (M6E97_29780) - 6429694..6429936 (+) 243 WP_023109353.1 hypothetical protein -
  M6E97_RS29830 (M6E97_29790) - 6430179..6430877 (-) 699 WP_223677410.1 hypothetical protein -
  M6E97_RS29835 (M6E97_29795) - 6430941..6431480 (-) 540 WP_033938465.1 pilin -
  M6E97_RS29840 (M6E97_29800) pilB 6431709..6433412 (+) 1704 WP_003116249.1 type IV-A pilus assembly ATPase PilB Machinery gene
  M6E97_RS29845 (M6E97_29805) pilC 6433416..6434633 (+) 1218 WP_003116250.1 type II secretion system F family protein Machinery gene
  M6E97_RS29850 (M6E97_29810) pilD 6434636..6435508 (+) 873 WP_003116251.1 type IV prepilin peptidase/methyltransferase PilD Machinery gene
  M6E97_RS29855 (M6E97_29815) coaE 6435505..6436116 (+) 612 WP_003094654.1 dephospho-CoA kinase -
  M6E97_RS29860 (M6E97_29820) yacG 6436113..6436313 (+) 201 WP_003094656.1 DNA gyrase inhibitor YacG -
  M6E97_RS29865 (M6E97_29825) - 6436350..6436559 (-) 210 WP_003094660.1 hypothetical protein -
  M6E97_RS29870 (M6E97_29830) - 6436665..6437354 (-) 690 WP_003094662.1 energy-coupling factor ABC transporter permease -
  M6E97_RS29875 (M6E97_29835) - 6437351..6437821 (-) 471 WP_003094664.1 hypothetical protein -
  M6E97_RS29880 (M6E97_29840) - 6437818..6438243 (-) 426 WP_003103865.1 GNAT family N-acetyltransferase -
  M6E97_RS29885 (M6E97_29845) - 6438376..6439005 (+) 630 WP_003094668.1 DUF1780 domain-containing protein -
  M6E97_RS29890 (M6E97_29850) - 6439002..6439451 (+) 450 WP_023100233.1 MOSC domain-containing protein -
  M6E97_RS29895 (M6E97_29855) - 6439477..6439647 (+) 171 WP_003094672.1 DUF3094 family protein -

Sequence

Protein


Download         Length: 290 a.a.        Molecular weight: 31871.89 Da        Isoelectric Point: 7.3454

>NTDB_id=693088 M6E97_RS29850 WP_003116251.1 6434636..6435508(+) (pilD) [Pseudomonas sp. B111]
MELLDYLASHPLAFVLCAILLGLLVGSFLNVVVHRLPKMMERNWKAEAREALGLEPEPKQATYNLVLPNSACPRCGHEIR
PWENIPLVSYLALGGKCSSCKAAIGKRYPLVELATALLSGYVAWHFGFTWQAGAMLLLTWGLLAMSLIDADHQLLPDVLV
LPLLWLGLIANHFGLFASLDDALFGAVFGYLSLWSVFWLFKLVTGKEGMGYGDFKLLAMLGAWGGWQILPLTILLSSLVG
AILGVIMLRLRNAESGTPIPFGPYLAIAGWIALLWGDQITRTYLQFAGFK

Nucleotide


Download         Length: 873 bp        

>NTDB_id=693088 M6E97_RS29850 WP_003116251.1 6434636..6435508(+) (pilD) [Pseudomonas sp. B111]
ATGGAACTCCTCGACTACCTGGCCAGCCATCCGCTGGCCTTTGTCTTGTGCGCCATCCTCCTTGGCCTGCTGGTCGGCAG
CTTCCTCAACGTCGTCGTGCATCGCCTGCCGAAGATGATGGAGCGCAACTGGAAGGCCGAAGCCCGCGAAGCGCTCGGGC
TGGAGCCGGAACCCAAGCAGGCGACCTACAACCTGGTGCTGCCGAATTCGGCGTGCCCGCGCTGCGGCCACGAGATCCGC
CCCTGGGAAAACATCCCGCTGGTCAGCTACCTGGCGCTGGGCGGCAAGTGCTCGTCCTGCAAGGCCGCCATCGGCAAACG
CTACCCCCTGGTGGAACTGGCCACCGCGCTGCTTTCCGGCTACGTCGCCTGGCATTTCGGCTTCACCTGGCAGGCGGGCG
CGATGCTCCTGCTGACCTGGGGTCTGCTGGCGATGAGCCTGATCGATGCCGATCACCAACTGCTGCCGGACGTGCTGGTG
CTGCCGTTGCTCTGGCTGGGCCTGATCGCCAACCATTTCGGCCTCTTCGCCAGCCTCGACGATGCGCTGTTCGGCGCGGT
GTTCGGCTACCTGAGCCTGTGGTCGGTGTTCTGGCTGTTCAAGCTGGTGACCGGCAAGGAGGGCATGGGCTACGGCGACT
TCAAGCTGCTGGCCATGCTCGGTGCCTGGGGCGGCTGGCAGATCCTGCCGCTGACCATCCTGCTGTCGTCGCTGGTCGGG
GCGATCCTCGGGGTGATCATGCTGCGCCTGCGCAACGCCGAAAGCGGCACGCCGATCCCCTTCGGTCCCTATCTGGCGAT
TGCCGGGTGGATTGCTTTGCTCTGGGGTGATCAAATAACCCGGACCTATCTGCAATTCGCCGGATTCAAATGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(137-245)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-126)


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

55.017

99.655

0.548
  pilD Vibrio campbellii strain DS40M4

53.497

98.621

0.528
  pilD Acinetobacter nosocomialis M2

50.352

97.931

0.493
  pilD Acinetobacter baumannii D1279779

50.352

97.931

0.493
  pilD Neisseria gonorrhoeae MS11

49.281

95.862

0.472