Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   HY57_RS07990 Genome accession   NZ_CP008884
Coordinates   1936574..1937431 (-) Length   285 a.a.
NCBI ID   WP_019467311.1    Uniprot ID   -
Organism   Dyella japonica A8     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1931574..1942431
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  HY57_RS07965 (HY57_08120) lgt 1932657..1933547 (+) 891 WP_019467306.1 prolipoprotein diacylglyceryl transferase -
  HY57_RS07970 (HY57_08125) - 1933551..1934345 (+) 795 WP_019467307.1 thymidylate synthase -
  HY57_RS07975 (HY57_08130) - 1934498..1934986 (+) 489 WP_019467308.1 dihydrofolate reductase -
  HY57_RS07980 (HY57_08135) - 1934999..1935952 (+) 954 WP_019467309.1 Nudix family hydrolase -
  HY57_RS07985 (HY57_08140) coaE 1935954..1936577 (-) 624 WP_019467310.1 dephospho-CoA kinase -
  HY57_RS07990 (HY57_08145) pilD 1936574..1937431 (-) 858 WP_019467311.1 A24 family peptidase Machinery gene
  HY57_RS07995 (HY57_08150) pilC 1937499..1938761 (-) 1263 WP_019467312.1 type II secretion system F family protein Machinery gene
  HY57_RS08000 (HY57_08155) pilB 1938922..1940643 (-) 1722 WP_026034290.1 type IV-A pilus assembly ATPase PilB Machinery gene
  HY57_RS08005 (HY57_08160) - 1940895..1942043 (+) 1149 WP_019467314.1 DegT/DnrJ/EryC1/StrS family aminotransferase -

Sequence

Protein


Download         Length: 285 a.a.        Molecular weight: 31046.33 Da        Isoelectric Point: 8.4734

>NTDB_id=125436 HY57_RS07990 WP_019467311.1 1936574..1937431(-) (pilD) [Dyella japonica A8]
MLALPPWAWIVVAGVLGLLVGSFLNVVILRLPARLMAQWRLDAFDTLEMEPDSTSLPPGIVKEASHCPHCKHPLAARDNI
PLFGWLLLGGRCRYCKAPISIQYPLVELLSGLASAAIVWKFGPNLVAVAGLVFTWMLIALAGIDFRTQYLPDQLTFPLLW
LGLLLSLLPMFVLPSPAILGAAIGYLSLWSVYWLFKLLTGKEGMGYGDFKLLAALGAWMGPTALLPVILLSSFIGAVIGG
AMIALRKHGRDIPMPFGPFIAAAGWVWFVAGDWLLQQYSQLMGLP

Nucleotide


Download         Length: 858 bp        

>NTDB_id=125436 HY57_RS07990 WP_019467311.1 1936574..1937431(-) (pilD) [Dyella japonica A8]
ATGCTCGCACTCCCCCCCTGGGCCTGGATCGTTGTTGCCGGCGTGCTCGGCCTCCTGGTCGGCAGCTTTCTGAATGTCGT
GATCCTCCGGCTGCCGGCGCGCCTGATGGCGCAGTGGCGGCTGGACGCCTTCGATACGCTGGAGATGGAGCCCGACAGCA
CCTCGCTGCCCCCCGGCATCGTCAAGGAGGCCTCGCACTGCCCCCACTGCAAGCACCCGCTGGCGGCTCGCGACAACATT
CCGCTGTTCGGCTGGCTGCTGCTGGGCGGCCGCTGCCGCTACTGCAAGGCGCCGATTTCCATCCAGTACCCGCTGGTCGA
ATTGCTCAGTGGCCTGGCCAGTGCGGCGATTGTCTGGAAGTTCGGCCCGAACCTCGTTGCCGTGGCCGGCCTGGTCTTCA
CCTGGATGCTCATTGCCCTCGCCGGCATCGATTTCCGCACGCAGTACCTGCCCGACCAGCTGACCTTCCCACTGCTGTGG
CTCGGCCTGTTGCTCAGCCTGCTGCCGATGTTCGTGCTGCCCAGTCCGGCGATCCTCGGTGCGGCCATCGGCTACCTCAG
CCTGTGGAGCGTGTACTGGCTGTTCAAGCTGCTGACCGGCAAGGAGGGCATGGGCTATGGCGACTTCAAGCTGCTGGCCG
CACTGGGCGCATGGATGGGCCCCACGGCCTTGTTGCCGGTGATCCTGCTCTCTTCGTTCATCGGCGCCGTGATCGGCGGC
GCGATGATTGCGCTGCGCAAGCACGGCCGCGACATCCCCATGCCCTTCGGCCCCTTCATCGCGGCGGCAGGCTGGGTGTG
GTTCGTGGCCGGCGATTGGCTGCTGCAGCAGTACTCGCAGCTGATGGGGCTGCCGTGA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(15-121)

Type IV leader peptidase family (Peptidase_A24)

(131-239)


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

51.264

97.193

0.498
  pilD Vibrio campbellii strain DS40M4

49.097

97.193

0.477
  pilD Acinetobacter nosocomialis M2

48.897

95.439

0.467
  pilD Acinetobacter baumannii D1279779

48.708

95.088

0.463
  pilD Neisseria gonorrhoeae MS11

46.667

94.737

0.442

Multiple sequence alignment