Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   TVNIR_RS12235 Genome accession   NC_019902
Coordinates   2679670..2680524 (+) Length   284 a.a.
NCBI ID   WP_015259342.1    Uniprot ID   L0E0Q1
Organism   Thioalkalivibrio nitratireducens DSM 14787     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2674670..2685524
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  TVNIR_RS12205 tuf 2674909..2676099 (-) 1191 WP_015259329.1 elongation factor Tu -
  TVNIR_RS12225 (TVNIR_2588) pilB 2676683..2678395 (+) 1713 WP_015259340.1 type IV-A pilus assembly ATPase PilB Machinery gene
  TVNIR_RS12230 (TVNIR_2589) pilC 2678403..2679611 (+) 1209 WP_015259341.1 type II secretion system F family protein Machinery gene
  TVNIR_RS12235 (TVNIR_2590) pilD 2679670..2680524 (+) 855 WP_015259342.1 prepilin peptidase Machinery gene
  TVNIR_RS12240 (TVNIR_2591) coaE 2680521..2681153 (+) 633 WP_015259343.1 dephospho-CoA kinase -
  TVNIR_RS12245 (TVNIR_2592) zapD 2681211..2682023 (+) 813 WP_043739694.1 cell division protein ZapD -
  TVNIR_RS12250 (TVNIR_2593) - 2682065..2683006 (-) 942 WP_418081360.1 Nudix family hydrolase -
  TVNIR_RS12255 (TVNIR_2594) argJ 2683014..2684225 (-) 1212 WP_015259346.1 bifunctional glutamate N-acetyltransferase/amino-acid acetyltransferase ArgJ -

Sequence

Protein


Download         Length: 284 a.a.        Molecular weight: 30619.33 Da        Isoelectric Point: 7.2655

>NTDB_id=55320 TVNIR_RS12235 WP_015259342.1 2679670..2680524(+) (pilD) [Thioalkalivibrio nitratireducens DSM 14787]
MMPWSEIPAAWTIPAVAVLGLIVGSFLNVVIHRLPRMMQREWEQEARAILEQPEAPESPRFDLWWPRSQCPHCGRGIRAR
ENIPVFSFLLLRARCPGCGGRISWQYPLVELLTAALFAATVWHLGAGAAGLAALVFTGMLIAAAGVDARTTLLPDQLTLP
LLWLGLVANLFGLFTDLESAVIGAVAGYLTLWTVYHGFRLLTGKEGMGFGDFKLLAALGAWLGWQALPLILLLASLVGAV
VGIALILLLGRDRNVPIPFGPYLAAAGWLALIGGDTLIAAYLPP

Nucleotide


Download         Length: 855 bp        

>NTDB_id=55320 TVNIR_RS12235 WP_015259342.1 2679670..2680524(+) (pilD) [Thioalkalivibrio nitratireducens DSM 14787]
ATGATGCCCTGGTCTGAAATACCCGCCGCCTGGACGATTCCGGCGGTGGCCGTGCTCGGCCTGATCGTCGGCAGCTTTCT
GAACGTGGTGATCCACCGGCTTCCGCGGATGATGCAGCGGGAGTGGGAACAGGAGGCGCGTGCGATCCTGGAACAGCCCG
AGGCCCCCGAATCACCGCGCTTCGATCTCTGGTGGCCGCGCTCTCAGTGCCCTCACTGCGGCCGCGGGATCCGCGCCCGG
GAGAACATCCCTGTGTTCAGCTTCCTGCTGCTGCGGGCACGCTGTCCGGGCTGCGGCGGCCGGATCTCCTGGCAATACCC
GCTGGTGGAGCTGCTCACCGCCGCGCTATTCGCGGCCACCGTCTGGCACCTCGGTGCCGGTGCGGCCGGACTCGCGGCGC
TGGTCTTCACCGGGATGCTGATCGCCGCGGCCGGGGTCGACGCCCGTACTACGCTGCTCCCGGACCAGCTGACGCTGCCG
CTGCTCTGGCTCGGCCTGGTCGCGAACCTGTTCGGGCTGTTCACCGACCTCGAGTCCGCGGTGATCGGGGCGGTCGCCGG
CTACCTGACCCTCTGGACGGTCTATCACGGCTTCCGGCTGCTGACCGGCAAGGAAGGGATGGGCTTCGGCGACTTCAAGC
TGCTCGCCGCACTCGGTGCCTGGCTCGGCTGGCAGGCGCTGCCGCTGATCCTGCTGCTCGCGTCGCTGGTGGGGGCAGTG
GTCGGCATCGCGCTGATCCTGCTGCTCGGGCGCGACCGCAACGTCCCGATCCCGTTCGGCCCGTATCTGGCCGCGGCTGG
CTGGCTGGCGCTGATCGGGGGCGACACCCTGATCGCGGCCTATCTGCCGCCGTGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(134-243)

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
  AlphaFold DB L0E0Q1

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

53.091

96.831

0.514
  pilD Vibrio campbellii strain DS40M4

51.866

94.366

0.489
  pilD Acinetobacter baumannii D1279779

50.37

95.07

0.479
  pilD Acinetobacter nosocomialis M2

50

95.07

0.475
  pilD Neisseria gonorrhoeae MS11

49.624

93.662

0.465

Multiple sequence alignment