Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   B224_RS00435 Genome accession   NZ_CP007567
Coordinates   82877..83749 (-) Length   290 a.a.
NCBI ID   WP_005332122.1    Uniprot ID   -
Organism   Aeromonas media WS     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 77877..88749
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  B224_RS00410 (B224_0104) secA 77924..80644 (+) 2721 WP_005332117.1 preprotein translocase subunit SecA -
  B224_RS00415 (B224_0106) mutT 80800..81204 (+) 405 WP_005332118.1 8-oxo-dGTP diphosphatase MutT -
  B224_RS00420 (B224_0107) yacG 81280..81474 (-) 195 WP_005332119.1 DNA gyrase inhibitor YacG -
  B224_RS00425 (B224_0108) zapD 81484..82206 (-) 723 WP_005332120.1 cell division protein ZapD -
  B224_RS00430 (B224_0109) coaE 82244..82858 (-) 615 WP_005332121.1 dephospho-CoA kinase -
  B224_RS00435 (B224_0111) pilD 82877..83749 (-) 873 WP_005332122.1 prepilin peptidase Machinery gene
  B224_RS00440 (B224_0112) pilC 83830..85071 (-) 1242 WP_041204905.1 type II secretion system F family protein Machinery gene
  B224_RS00445 (B224_0113) pilB 85201..86886 (-) 1686 WP_041204906.1 PilB family type IVa pilus assembly ATPase TapB Machinery gene
  B224_RS23890 - 86927..87340 (-) 414 WP_081805615.1 hypothetical protein -
  B224_RS00455 (B224_0114) - 87386..88522 (-) 1137 WP_041204891.1 ISAs1-like element ISAeme1 family transposase -

Sequence

Protein


Download         Length: 290 a.a.        Molecular weight: 32098.35 Da        Isoelectric Point: 7.0918

>NTDB_id=121000 B224_RS00435 WP_005332122.1 82877..83749(-) (pilD) [Aeromonas media WS]
MVPLIELAQGLPWLYLSLIFLFSLMVGSFLNVVIHRLPIMLEREWHADYRDYFGSEVATSPAEPYNLMVPRSRCPHCDHP
ISALENIPLLSWLWLKGRCRQCKTPISARYPLVELLTALLSVTVAATLTPGWGALAALTLTWVLVALTFIDLDKMLLPDQ
LTLPLLWGGLLFNLAGGFVPLADAVIGAMAGYLVLWSLYWAFKLLTGKEGMGHGDFKLLAALGAWLGWQALPIVLLLSSL
VGAIIGIGLILLRNHHQGKPIPFGPYLAIAGWIALLWGDNITRWYLDIVL

Nucleotide


Download         Length: 873 bp        

>NTDB_id=121000 B224_RS00435 WP_005332122.1 82877..83749(-) (pilD) [Aeromonas media WS]
ATGGTGCCTCTGATCGAACTGGCCCAGGGCCTGCCCTGGCTCTATCTCTCCCTGATTTTTCTCTTCTCCCTGATGGTTGG
CAGCTTCCTCAATGTGGTGATCCATCGCCTGCCCATCATGCTGGAGCGGGAGTGGCACGCAGACTACCGTGACTACTTCG
GCAGCGAAGTTGCCACTTCCCCCGCCGAACCTTACAACCTGATGGTGCCGCGCTCTCGCTGCCCACACTGCGATCACCCC
ATAAGCGCGCTGGAAAACATCCCCCTGTTGAGCTGGCTCTGGCTCAAGGGACGCTGCCGACAATGCAAGACGCCCATCTC
GGCCCGCTACCCCCTGGTCGAGCTGCTGACCGCCCTGTTGTCGGTCACCGTTGCGGCGACTCTCACTCCCGGCTGGGGAG
CCCTGGCAGCCCTCACACTGACCTGGGTACTGGTGGCCCTCACCTTCATCGATCTGGACAAGATGCTGCTGCCGGACCAG
CTCACCCTGCCGCTGCTGTGGGGCGGTCTGTTGTTCAATCTGGCAGGCGGCTTTGTGCCGCTGGCCGATGCGGTGATCGG
CGCCATGGCGGGCTATCTGGTGCTCTGGAGTCTCTACTGGGCGTTCAAGCTGCTGACCGGCAAGGAGGGAATGGGTCATG
GCGACTTCAAGCTGCTAGCGGCACTCGGTGCCTGGCTGGGCTGGCAGGCGCTGCCCATCGTGTTGCTGCTCTCTTCACTG
GTCGGCGCCATCATCGGAATCGGGCTTATCCTGCTGCGTAACCATCATCAGGGCAAACCCATCCCCTTTGGTCCCTATCT
CGCCATCGCGGGCTGGATAGCGCTGCTGTGGGGGGATAACATCACCCGCTGGTATCTGGACATCGTTCTCTAG

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(21-126)

Type IV leader peptidase family (Peptidase_A24)

(139-247)


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

61.404

98.276

0.603
  pilD Vibrio campbellii strain DS40M4

56.055

99.655

0.559
  pilD Acinetobacter nosocomialis M2

52.158

95.862

0.5
  pilD Acinetobacter baumannii D1279779

51.799

95.862

0.497
  pilD Neisseria gonorrhoeae MS11

49.81

90.69

0.452

Multiple sequence alignment