Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   AB1S55_RS08125 Genome accession   NZ_CP166840
Coordinates   1858036..1858899 (-) Length   287 a.a.
NCBI ID   WP_370981307.1    Uniprot ID   -
Organism   Agaribacterium sp. ZY112     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1853036..1863899
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AB1S55_RS08105 (AB1S55_08100) argJ 1855502..1856719 (+) 1218 WP_370981303.1 bifunctional glutamate N-acetyltransferase/amino-acid acetyltransferase ArgJ -
  AB1S55_RS08110 (AB1S55_08105) mutT 1856722..1857111 (+) 390 WP_370981304.1 8-oxo-dGTP diphosphatase MutT -
  AB1S55_RS08115 (AB1S55_08110) - 1857167..1857361 (-) 195 WP_370981305.1 DNA gyrase inhibitor YacG -
  AB1S55_RS08120 (AB1S55_08115) coaE 1857440..1858036 (-) 597 WP_370981306.1 dephospho-CoA kinase -
  AB1S55_RS08125 (AB1S55_08120) pilD 1858036..1858899 (-) 864 WP_370981307.1 A24 family peptidase Machinery gene
  AB1S55_RS08130 (AB1S55_08125) pilC 1858903..1860117 (-) 1215 WP_370981308.1 type II secretion system F family protein Machinery gene
  AB1S55_RS08135 (AB1S55_08130) pilB 1860121..1861824 (-) 1704 WP_370981309.1 type IV-A pilus assembly ATPase PilB Machinery gene
  AB1S55_RS08140 (AB1S55_08135) - 1862107..1862640 (+) 534 WP_370981310.1 pilin -
  AB1S55_RS08145 (AB1S55_08140) - 1862807..1863472 (-) 666 WP_370981311.1 hypothetical protein -

Sequence

Protein


Download         Length: 287 a.a.        Molecular weight: 32222.14 Da        Isoelectric Point: 6.2234

>NTDB_id=1035613 AB1S55_RS08125 WP_370981307.1 1858036..1858899(-) (pilD) [Agaribacterium sp. ZY112]
MLEIILLCSAGVFSLLVGSFLNVVIYRLPISMMKGWRKECREFLTENDGLSFEKEPEEETFNVAFPRSHCPSCKQLIPAW
CNIPLISYLLLKGRCLRCKTKISFRYPFVELLTAATGGFCFWHYGLSYETAVLMLFSWTLICLTYIDIDHQLLPDQLTLP
LLWLGLALNINGTFVDLESAVYGAMAGYLSLWSIYWLFKLLTGKEGMGFGDFKLLAALGAWAGWQVLPTIILLSSLVGAI
FGIANILMSGKDKNTPMPFGPYLAIAGWLAFFWGTDIQNWYLGLLGS

Nucleotide


Download         Length: 864 bp        

>NTDB_id=1035613 AB1S55_RS08125 WP_370981307.1 1858036..1858899(-) (pilD) [Agaribacterium sp. ZY112]
ATGCTAGAAATCATCCTCCTCTGCTCTGCCGGCGTTTTTTCTTTACTCGTCGGCAGTTTCCTAAATGTGGTTATTTACCG
CCTGCCTATTTCCATGATGAAGGGCTGGCGCAAAGAGTGCCGCGAGTTTTTAACAGAAAACGACGGTCTGAGCTTTGAGA
AAGAGCCTGAAGAAGAAACATTTAATGTCGCCTTCCCCCGCTCTCACTGCCCCTCCTGTAAACAGCTTATCCCTGCCTGG
TGCAACATTCCGCTTATTAGCTACCTACTATTAAAAGGGCGCTGCTTACGCTGCAAAACCAAAATCAGTTTTCGCTACCC
CTTTGTTGAGCTACTAACCGCAGCTACAGGGGGTTTCTGCTTCTGGCACTACGGCTTAAGCTATGAGACAGCAGTACTAA
TGTTGTTCTCTTGGACTCTGATTTGCCTAACCTACATTGATATTGACCACCAACTTTTACCCGACCAACTAACCCTACCC
TTACTGTGGTTAGGTCTTGCACTCAATATCAACGGCACCTTTGTCGATTTAGAAAGCGCCGTGTATGGCGCTATGGCAGG
TTATTTAAGCCTTTGGAGTATTTACTGGCTGTTCAAACTACTTACTGGCAAGGAGGGCATGGGCTTTGGTGATTTCAAGC
TTTTAGCTGCGCTAGGAGCGTGGGCCGGCTGGCAAGTATTGCCGACTATTATTTTACTATCCTCTTTAGTTGGTGCTATT
TTTGGTATCGCCAACATTTTAATGTCAGGTAAAGATAAAAACACACCAATGCCCTTTGGTCCCTACCTTGCCATTGCTGG
CTGGCTGGCTTTTTTCTGGGGCACTGACATTCAAAACTGGTATTTAGGCTTACTGGGCAGCTAA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(134-243)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(12-124)


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 campbellii strain DS40M4

56.41

95.122

0.537
  pilD Vibrio cholerae strain A1552

55.678

95.122

0.53
  pilD Neisseria gonorrhoeae MS11

50

96.167

0.481
  pilD Acinetobacter nosocomialis M2

48.201

96.864

0.467
  pilD Acinetobacter baumannii D1279779

47.842

96.864

0.463

Multiple sequence alignment