Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   LMH63_RS04380 Genome accession   NZ_CP086615
Coordinates   953232..954101 (-) Length   289 a.a.
NCBI ID   WP_109675916.1    Uniprot ID   A0A2U2N7J6
Organism   Spiribacter halobius strain E85     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 948232..959101
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LMH63_RS04355 (LMH63_04355) argJ 948707..949921 (+) 1215 WP_109675924.1 bifunctional glutamate N-acetyltransferase/amino-acid acetyltransferase ArgJ -
  LMH63_RS04360 (LMH63_04360) - 950055..951047 (+) 993 WP_229332725.1 Nudix family hydrolase -
  LMH63_RS04365 (LMH63_04365) yacG 951577..951774 (-) 198 WP_109675922.1 DNA gyrase inhibitor YacG -
  LMH63_RS04370 (LMH63_04370) zapD 951777..952565 (-) 789 WP_109675920.1 cell division protein ZapD -
  LMH63_RS04375 (LMH63_04375) coaE 952632..953228 (-) 597 WP_109675918.1 dephospho-CoA kinase -
  LMH63_RS04380 (LMH63_04380) pilD 953232..954101 (-) 870 WP_109675916.1 A24 family peptidase Machinery gene
  LMH63_RS04385 (LMH63_04385) pilC 954153..955382 (-) 1230 WP_109675914.1 type II secretion system F family protein Machinery gene
  LMH63_RS04390 (LMH63_04390) pilB 955396..957114 (-) 1719 WP_109675912.1 type IV-A pilus assembly ATPase PilB Machinery gene

Sequence

Protein


Download         Length: 289 a.a.        Molecular weight: 30517.45 Da        Isoelectric Point: 6.5928

>NTDB_id=625712 LMH63_RS04380 WP_109675916.1 953232..954101(-) (pilD) [Spiribacter halobius strain E85]
MGLLDILAADPLLLAVATAVLGLLVGSFLNVVILRLPVMMERDWQAQCAELTGAPPPEGEAVSLVHPGSRCPACGHAIRP
WDNIPLLGWLLLRGRCRDCGARISARYPLIEAVTALLSVVVILHFGATPAGLAALVLTWLLIALTVIDLDHQLLPDSLTL
PGLWLGLLLSVGGVFVAPATAIVGAAAGYLTLWLVYHGFRLLTGKEGMGHGDFKLLALLGAWLGWSQLPLVILLSSLVGA
LVGVGMILGLGRHRDQPIPFGPYLAAAGWIALLWGEPLIDAYLGFSGLR

Nucleotide


Download         Length: 870 bp        

>NTDB_id=625712 LMH63_RS04380 WP_109675916.1 953232..954101(-) (pilD) [Spiribacter halobius strain E85]
ATGGGCCTGCTCGACATCCTGGCTGCCGATCCGCTGCTGCTCGCCGTGGCGACCGCCGTCCTGGGACTGCTGGTGGGCAG
CTTCCTGAACGTGGTCATCCTGCGCCTGCCGGTGATGATGGAGCGCGACTGGCAGGCCCAGTGCGCCGAGCTCACCGGTG
CCCCGCCCCCCGAAGGCGAGGCGGTAAGCCTCGTCCACCCCGGCTCCCGCTGCCCCGCCTGCGGTCACGCCATCCGCCCC
TGGGACAACATCCCGCTGCTCGGCTGGCTGCTGCTGCGCGGGCGCTGCCGTGACTGCGGCGCGCGCATCAGCGCCCGCTA
CCCGCTGATCGAGGCGGTCACTGCGCTGCTCTCGGTGGTGGTGATCCTGCACTTCGGCGCCACCCCGGCGGGGCTCGCGG
CGCTGGTGCTCACCTGGCTGCTGATCGCCCTCACCGTCATCGACCTGGACCACCAGCTGCTGCCGGACTCGCTGACGCTG
CCGGGGCTGTGGCTCGGACTGCTGCTCAGCGTCGGCGGCGTGTTCGTGGCCCCGGCCACCGCCATCGTTGGCGCCGCCGC
GGGCTATCTGACCCTGTGGCTCGTCTACCACGGCTTCCGCCTGCTCACCGGCAAGGAGGGCATGGGCCACGGCGACTTCA
AGCTGCTGGCGCTGCTTGGCGCATGGCTCGGCTGGAGCCAGCTGCCGCTGGTGATTCTGCTGTCATCCCTCGTGGGGGCG
CTGGTGGGGGTGGGGATGATCCTCGGCCTCGGCCGCCATCGCGATCAGCCCATCCCCTTCGGCCCCTACCTCGCCGCCGC
CGGCTGGATCGCCCTGCTCTGGGGTGAGCCGCTGATCGATGCCTACCTCGGCTTCTCGGGGCTCCGCTGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(135-244)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-125)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB A0A2U2N7J6

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

53.873

98.27

0.529
  pilD Acinetobacter nosocomialis M2

53.114

94.464

0.502
  pilD Acinetobacter baumannii D1279779

52.747

94.464

0.498
  pilD Vibrio campbellii strain DS40M4

50.352

98.27

0.495
  pilD Neisseria gonorrhoeae MS11

51.575

87.889

0.453