Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   SHEW_RS17785 Genome accession   NC_009092
Coordinates   4108428..4109339 (+) Length   303 a.a.
NCBI ID   WP_011867236.1    Uniprot ID   A3QIK8
Organism   Shewanella loihica PV-4     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4103428..4114339
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  SHEW_RS17770 (Shew_3437) - 4103663..4105033 (-) 1371 WP_011867233.1 O-antigen ligase -
  SHEW_RS17775 (Shew_3438) pilB 4105375..4107084 (+) 1710 WP_011867234.1 type IV-A pilus assembly ATPase PilB Machinery gene
  SHEW_RS17780 (Shew_3439) pilC 4107121..4108389 (+) 1269 WP_011867235.1 type II secretion system F family protein Machinery gene
  SHEW_RS17785 (Shew_3440) pilD 4108428..4109339 (+) 912 WP_011867236.1 A24 family peptidase Machinery gene
  SHEW_RS17790 (Shew_3441) coaE 4109360..4109965 (+) 606 WP_011867237.1 dephospho-CoA kinase -
  SHEW_RS17795 (Shew_3442) zapD 4109974..4110708 (+) 735 WP_011867238.1 cell division protein ZapD -
  SHEW_RS17800 (Shew_3443) yacG 4110757..4110969 (+) 213 WP_041407493.1 DNA gyrase inhibitor YacG -
  SHEW_RS17805 (Shew_3444) mutT 4110970..4111359 (+) 390 WP_011867240.1 8-oxo-dGTP diphosphatase MutT -

Sequence

Protein


Download         Length: 303 a.a.        Molecular weight: 33776.04 Da        Isoelectric Point: 6.3259

>NTDB_id=27724 SHEW_RS17785 WP_011867236.1 4108428..4109339(+) (pilD) [Shewanella loihica PV-4]
MTEFIQLMAQYPLLFAAISFVFAAVIGSFLNVVIHRLPVMMKREWQEECNQYLDEYHKATVTEIKDKLAQPIDDFPEKYN
LIVPGSSCPKCKTDIKPWHNLPVIGWLMLGGKCAHCKTSISVRYPIIEALTGFAVAYLAYHFGPTWQFVFATLLTFGLIA
LTGIDLDEMLLPDQITLPLLWLGLLINLNGTYVSITDAVIGASAGYMSLWSVFWGFKILTGKEGMGYGDFKLLAVFGAWF
GWQLLPLIILLSSIVGALVGLLLIVNKKINSGNPIPFGPYIALAGWIAMIWGENIVNWYLSTL

Nucleotide


Download         Length: 912 bp        

>NTDB_id=27724 SHEW_RS17785 WP_011867236.1 4108428..4109339(+) (pilD) [Shewanella loihica PV-4]
ATGACTGAATTTATCCAATTAATGGCTCAGTACCCTTTGCTGTTTGCCGCAATTTCTTTTGTCTTTGCAGCCGTGATTGG
CAGCTTTTTAAATGTAGTCATTCATCGCCTTCCGGTGATGATGAAAAGAGAATGGCAAGAGGAATGCAACCAATATCTCG
ACGAATACCACAAGGCTACCGTTACAGAAATTAAAGATAAGCTAGCCCAGCCTATCGATGATTTTCCGGAAAAATACAAT
CTTATCGTTCCTGGCTCATCTTGCCCTAAGTGTAAAACCGATATAAAACCTTGGCACAACCTCCCCGTAATTGGGTGGTT
AATGTTAGGAGGTAAGTGCGCTCATTGTAAGACAAGTATTTCTGTAAGGTATCCCATCATAGAGGCCTTAACAGGATTTG
CAGTGGCCTACCTCGCTTACCATTTTGGCCCGACCTGGCAATTTGTCTTTGCCACCTTGCTAACCTTCGGCCTGATAGCT
TTAACAGGGATAGATCTCGATGAAATGCTATTACCTGATCAGATCACACTGCCACTGCTATGGCTAGGCCTACTTATAAA
TCTAAATGGCACCTATGTCTCGATTACAGATGCGGTCATTGGCGCTTCTGCAGGCTATATGAGCCTTTGGAGCGTGTTCT
GGGGATTCAAAATATTAACCGGCAAGGAAGGTATGGGTTATGGCGACTTTAAGCTATTAGCCGTATTCGGTGCCTGGTTT
GGCTGGCAATTACTGCCCCTCATCATCCTGTTATCCTCCATTGTTGGCGCACTAGTTGGCTTGCTGCTCATCGTCAATAA
GAAGATCAATTCTGGCAATCCCATACCATTTGGCCCTTATATCGCCTTAGCAGGCTGGATAGCCATGATTTGGGGTGAGA
ATATAGTAAATTGGTACCTATCTACCTTATAG

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(154-261)

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 A3QIK8

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

99.01

0.495
  pilD Acinetobacter baumannii D1279779

49.826

94.719

0.472
  pilD Acinetobacter nosocomialis M2

49.826

94.719

0.472
  pilD Neisseria gonorrhoeae MS11

43.056

95.05

0.409

Multiple sequence alignment