Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   FH971_RS18985 Genome accession   NZ_CP041036
Coordinates   4363132..4364058 (+) Length   308 a.a.
NCBI ID   WP_140235343.1    Uniprot ID   A0A4Y5YK45
Organism   Shewanella polaris strain SM1901     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4358132..4369058
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  FH971_RS18970 (FH971_18970) - 4359078..4359443 (+) 366 WP_140235340.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  FH971_RS18975 (FH971_18975) pilB 4360004..4361710 (+) 1707 WP_140235341.1 type IV-A pilus assembly ATPase PilB Machinery gene
  FH971_RS18980 (FH971_18980) pilC 4361818..4363089 (+) 1272 WP_140235342.1 type II secretion system F family protein Machinery gene
  FH971_RS18985 (FH971_18985) pilD 4363132..4364058 (+) 927 WP_140235343.1 prepilin peptidase Machinery gene
  FH971_RS18990 (FH971_18990) coaE 4364055..4364684 (+) 630 WP_140235344.1 dephospho-CoA kinase -
  FH971_RS18995 (FH971_18995) zapD 4364677..4365411 (+) 735 WP_140235345.1 cell division protein ZapD -
  FH971_RS19000 (FH971_19000) yacG 4365454..4365666 (+) 213 WP_140235346.1 DNA gyrase inhibitor YacG -
  FH971_RS19005 (FH971_19005) mutT 4365677..4366075 (+) 399 WP_140235347.1 8-oxo-dGTP diphosphatase MutT -

Sequence

Protein


Download         Length: 308 a.a.        Molecular weight: 34466.07 Da        Isoelectric Point: 8.3024

>NTDB_id=369093 FH971_RS18985 WP_140235343.1 4363132..4364058(+) (pilD) [Shewanella polaris strain SM1901]
MTEFISTFVTTMYQYPWVFIVISFIFAATIGSFLNVVIHRLPVMMKREWQSECNYYLNEYHPDIVKQVGNERLNKPIDQF
PAKYNIVVPGSACPKCKANIKPWHNIPVLGWIMLKGKCADCKTGISIRYPIIELLTGALIATLAWHFGPTWQFVYASILT
FVLVALTGIDLDEMLLPDQLTLPILWLGLIINLKGIYASPEDAIIGAAAGYLSLWSVFWLFKLVTGKEGMGYGDFKLLAV
FGAWLGWQMLPLIILLSSLVGAVVGITMIIAKKLNKGNPIPFGPYIAAAGWIALVWGQDILNWYLSTL

Nucleotide


Download         Length: 927 bp        

>NTDB_id=369093 FH971_RS18985 WP_140235343.1 4363132..4364058(+) (pilD) [Shewanella polaris strain SM1901]
ATGACTGAATTTATTTCAACTTTTGTAACAACAATGTACCAGTACCCTTGGGTATTTATCGTAATTAGCTTTATTTTTGC
TGCTACCATTGGCAGCTTTCTCAATGTGGTGATTCACCGCTTGCCAGTGATGATGAAACGAGAATGGCAAAGTGAATGTA
ATTATTATTTAAACGAATACCATCCAGATATTGTTAAACAGGTGGGTAATGAGCGCTTAAATAAACCTATCGATCAATTC
CCAGCAAAATACAATATTGTAGTACCCGGCTCTGCATGCCCAAAATGCAAAGCCAACATTAAACCTTGGCATAATATTCC
CGTGCTCGGTTGGATAATGCTTAAGGGGAAATGCGCCGATTGTAAGACGGGTATTTCAATACGCTATCCGATTATCGAAT
TATTAACAGGGGCATTAATTGCCACTTTAGCTTGGCATTTTGGCCCAACATGGCAGTTTGTGTATGCCAGTATTTTAACG
TTTGTGTTAGTTGCGTTAACAGGCATCGATTTAGATGAAATGCTATTACCGGACCAACTGACATTACCAATATTGTGGTT
AGGGTTAATTATTAACCTTAAAGGTATTTATGCTAGCCCTGAAGATGCCATTATTGGTGCTGCTGCAGGTTATTTAAGTT
TATGGTCGGTATTTTGGTTATTTAAACTGGTTACTGGCAAAGAAGGTATGGGCTACGGTGACTTTAAACTGTTAGCCGTA
TTCGGTGCTTGGTTAGGTTGGCAAATGCTGCCATTAATTATTCTATTATCTTCACTGGTTGGTGCTGTAGTAGGTATAAC
GATGATTATCGCTAAAAAGCTCAATAAAGGTAATCCAATTCCTTTTGGCCCTTATATCGCTGCCGCGGGTTGGATAGCGT
TAGTTTGGGGGCAAGATATTCTTAACTGGTATCTAAGCACATTATGA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(25-147)

Type IV leader peptidase family (Peptidase_A24)

(158-266)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A0A4Y5YK45

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 Acinetobacter baumannii D1279779

49.186

99.675

0.49
  pilD Vibrio campbellii strain DS40M4

51.186

95.779

0.49
  pilD Vibrio cholerae strain A1552

50.168

96.429

0.484
  pilD Acinetobacter nosocomialis M2

47.869

99.026

0.474
  pilD Neisseria gonorrhoeae MS11

45.907

91.234

0.419

Multiple sequence alignment