Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   SWP_RS21150 Genome accession   NC_011566
Coordinates   4993095..4994006 (+) Length   303 a.a.
NCBI ID   WP_020914724.1    Uniprot ID   B8CUR8
Organism   Shewanella piezotolerans WP3     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4988095..4999006
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SWP_RS24855 - 4989515..4989614 (+) 100 Protein_4154 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  SWP_RS21140 (swp_4761) pilB 4990025..4991731 (+) 1707 WP_020914722.1 type IV-A pilus assembly ATPase PilB Machinery gene
  SWP_RS21145 (swp_4762) pilC 4991776..4993041 (+) 1266 WP_020914723.1 type II secretion system F family protein Machinery gene
  SWP_RS21150 (swp_4763) pilD 4993095..4994006 (+) 912 WP_020914724.1 prepilin peptidase Machinery gene
  SWP_RS21155 (swp_4764) coaE 4994236..4994841 (+) 606 WP_020914725.1 dephospho-CoA kinase -
  SWP_RS21160 (swp_4765) zapD 4994850..4995584 (+) 735 WP_020914726.1 cell division protein ZapD -
  SWP_RS21165 (swp_4766) yacG 4995633..4995869 (+) 237 WP_020914727.1 DNA gyrase inhibitor YacG -
  SWP_RS21170 (swp_4767) mutT 4995866..4996261 (+) 396 WP_020914728.1 8-oxo-dGTP diphosphatase MutT -
  SWP_RS21175 (swp_4769) - 4996721..4998118 (-) 1398 WP_228371173.1 M16 family metallopeptidase -

Sequence

Protein


Download         Length: 303 a.a.        Molecular weight: 33563.86 Da        Isoelectric Point: 7.2390

>NTDB_id=31815 SWP_RS21150 WP_020914724.1 4993095..4994006(+) (pilD) [Shewanella piezotolerans WP3]
MTELITVFNQNLWLFVSLSFVFAAVIGSFLNVVVHRLPVMMKRDWQQECNHYLAEYKKPVFEQNEKALTAPIDEFPEKYN
LVVPGSACPKCKTNIKPIHNLPIIGWLMLRGKCAACKNPISARYPIVELITGALVAFLAWHFGPTAEFVFSTILTFALVV
LTGIDLDEMLLPDQITLPLLWLGLILNLSGTFVSMSDAIVGAAAGYLSLWSVFWAFKLLTGKEGMGYGDFKLLAVFGAWF
GWQVLPLVILLSSLVGAIVGISLIAFKKLNQGNPIPFGPYIAAAGWIAMIWGESITQWYISTL

Nucleotide


Download         Length: 912 bp        

>NTDB_id=31815 SWP_RS21150 WP_020914724.1 4993095..4994006(+) (pilD) [Shewanella piezotolerans WP3]
ATGACTGAATTAATTACCGTTTTTAACCAGAACCTTTGGCTCTTTGTCTCCCTTAGCTTTGTTTTTGCTGCAGTTATTGG
CAGCTTTTTGAATGTGGTGGTGCACCGCTTACCGGTGATGATGAAAAGAGACTGGCAGCAAGAGTGCAACCACTATTTAG
CTGAGTATAAAAAACCAGTATTTGAGCAAAATGAAAAAGCACTTACTGCACCAATCGATGAGTTTCCTGAAAAGTATAAC
TTAGTGGTACCAGGCTCTGCCTGCCCTAAGTGTAAAACCAATATCAAACCGATACATAACTTGCCGATTATTGGCTGGCT
AATGCTACGCGGCAAATGCGCCGCTTGTAAAAACCCAATATCGGCGCGCTATCCAATAGTAGAGCTTATCACTGGCGCGT
TAGTGGCTTTTCTTGCTTGGCATTTTGGCCCGACTGCAGAGTTTGTCTTCAGTACTATTTTGACCTTTGCTTTAGTGGTG
CTCACTGGCATAGATCTCGATGAGATGTTATTGCCCGATCAAATTACTTTGCCACTTTTATGGTTAGGGCTAATCTTAAA
CCTAAGTGGTACTTTTGTGTCGATGTCAGACGCGATAGTGGGCGCTGCCGCGGGTTACTTAAGCCTTTGGAGCGTGTTCT
GGGCATTTAAGCTGCTAACCGGTAAGGAAGGCATGGGCTATGGTGATTTTAAGTTGCTAGCTGTATTTGGCGCCTGGTTT
GGCTGGCAAGTATTACCCTTGGTGATTCTACTGTCTTCACTGGTCGGCGCAATTGTTGGCATTAGCTTAATTGCATTTAA
AAAGCTTAACCAAGGTAACCCTATTCCTTTTGGTCCCTATATCGCCGCTGCTGGCTGGATTGCCATGATATGGGGCGAGT
CGATCACCCAATGGTATATATCAACGCTTTGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(153-261)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(21-142)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB B8CUR8

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

50

99.01

0.495
  pilD Vibrio cholerae strain A1552

50

96.37

0.482
  pilD Acinetobacter nosocomialis M2

47.351

99.67

0.472
  pilD Acinetobacter baumannii D1279779

47.02

99.67

0.469
  pilD Neisseria gonorrhoeae MS11

44.643

92.409

0.413

Multiple sequence alignment