Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   LVB77_RS18255 Genome accession   NZ_CP089924
Coordinates   4053838..4054701 (+) Length   287 a.a.
NCBI ID   WP_232907490.1    Uniprot ID   -
Organism   Lysobacter sp. 5GHs7-4     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4048838..4059701
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LVB77_RS18245 (LVB77_18245) pilB 4050830..4052557 (+) 1728 WP_232907487.1 type IV-A pilus assembly ATPase PilB Machinery gene
  LVB77_RS18250 (LVB77_18250) pilC 4052561..4053814 (+) 1254 WP_232907488.1 type II secretion system F family protein Machinery gene
  LVB77_RS18255 (LVB77_18255) pilD 4053838..4054701 (+) 864 WP_232907490.1 A24 family peptidase Machinery gene
  LVB77_RS18260 (LVB77_18260) coaE 4054707..4055318 (+) 612 WP_232907491.1 dephospho-CoA kinase -
  LVB77_RS18265 (LVB77_18265) - 4055466..4056425 (-) 960 WP_232907492.1 Nudix family hydrolase -
  LVB77_RS18270 (LVB77_18270) secA 4056627..4059347 (-) 2721 WP_232907493.1 preprotein translocase subunit SecA -

Sequence

Protein


Download         Length: 287 a.a.        Molecular weight: 31969.83 Da        Isoelectric Point: 9.3345

>NTDB_id=639118 LVB77_RS18255 WP_232907490.1 4053838..4054701(+) (pilD) [Lysobacter sp. 5GHs7-4]
MAFLDQNPGLGFPLAAGFGLLVGSFLNVVILRLPKRLEWQWNRDAREILELPEIYDPPPPGIVVERSHCPHCKHQLSWYE
NIPLFSYLFLRGRCRSCKAPISPQYPLVEAITMLAVLACVWRFGFGWQGFGAIVFSTFLIALSGIDFRTKLLPDQLTLPL
MWLGLIASSDNLYFQTKPALLGAIAGYLSLWSVWWVFKQLTGKEGMGHGDFKLLAAIGAWVGLKGILPTILLSSLVGAII
GSIWLTARGRDKATPIPFGPYLAIAGWIVFFWGEQLVGAYMRYAGLR

Nucleotide


Download         Length: 864 bp        

>NTDB_id=639118 LVB77_RS18255 WP_232907490.1 4053838..4054701(+) (pilD) [Lysobacter sp. 5GHs7-4]
ATGGCATTCCTGGATCAGAACCCCGGCCTCGGGTTTCCGCTCGCGGCCGGCTTCGGCCTGTTGGTCGGCAGTTTCCTCAA
CGTGGTCATCCTGCGCCTGCCCAAGCGGCTGGAATGGCAGTGGAATCGCGACGCGCGCGAGATCCTGGAACTGCCGGAAA
TCTACGACCCGCCGCCGCCGGGCATCGTGGTCGAGCGCTCGCACTGTCCGCATTGCAAGCACCAGCTGAGCTGGTACGAA
AACATCCCGCTCTTCAGCTACCTGTTCCTGCGCGGCCGCTGCCGCAGCTGCAAGGCGCCGATTTCGCCGCAGTACCCGCT
GGTCGAGGCGATCACCATGCTGGCGGTGCTGGCCTGCGTGTGGCGCTTCGGCTTCGGCTGGCAGGGCTTCGGCGCGATCG
TGTTCAGCACCTTCCTGATCGCGCTGTCGGGCATCGATTTCCGCACCAAGCTGCTGCCCGACCAGCTCACATTACCCTTG
ATGTGGCTGGGCCTGATCGCCAGTTCCGACAATCTCTATTTCCAGACCAAGCCGGCCCTGCTCGGCGCGATCGCCGGCTA
CCTCAGCCTGTGGTCGGTGTGGTGGGTGTTCAAACAGCTGACCGGCAAGGAAGGCATGGGCCACGGCGACTTCAAGCTGC
TCGCCGCGATCGGCGCCTGGGTCGGGCTCAAAGGCATCCTGCCGACCATCCTGCTGTCCTCGCTGGTCGGCGCCATCATC
GGTTCGATCTGGCTGACCGCGCGCGGCCGCGACAAGGCCACGCCGATCCCATTCGGTCCCTACCTCGCAATCGCGGGCTG
GATCGTGTTCTTCTGGGGCGAGCAACTGGTCGGCGCGTACATGCGCTACGCCGGGCTGCGCTGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(133-241)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(18-123)


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

50.365

95.47

0.481
  pilD Vibrio campbellii strain DS40M4

47.183

98.955

0.467
  pilD Acinetobacter baumannii D1279779

45.833

100

0.46
  pilD Acinetobacter nosocomialis M2

46.29

98.606

0.456
  pilD Neisseria gonorrhoeae MS11

46.332

90.244

0.418