Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   AB9R84_RS12020 Genome accession   NZ_CP166304
Coordinates   2502636..2503490 (+) Length   284 a.a.
NCBI ID   WP_019933129.1    Uniprot ID   -
Organism   Oceanimonas smirnovii strain OS2020-133     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2497636..2508490
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AB9R84_RS12000 (AB9R84_11990) nadC 2497845..2498699 (+) 855 WP_317074448.1 carboxylating nicotinate-nucleotide diphosphorylase -
  AB9R84_RS12005 (AB9R84_11995) - 2498831..2499283 (+) 453 WP_346351577.1 pilin -
  AB9R84_RS12010 (AB9R84_12000) pilB 2499288..2501000 (+) 1713 WP_346351576.1 type IV-A pilus assembly ATPase PilB Machinery gene
  AB9R84_RS12015 (AB9R84_12005) pilC 2501023..2502249 (+) 1227 WP_395535159.1 type II secretion system F family protein Machinery gene
  AB9R84_RS12020 (AB9R84_12010) pilD 2502636..2503490 (+) 855 WP_019933129.1 prepilin peptidase Machinery gene
  AB9R84_RS12025 (AB9R84_12015) coaE 2503487..2504098 (+) 612 WP_395544940.1 dephospho-CoA kinase -
  AB9R84_RS12030 (AB9R84_12020) - 2504088..2505272 (-) 1185 WP_418139391.1 CsgG/HfaB family protein -
  AB9R84_RS12035 (AB9R84_12025) - 2505283..2506713 (-) 1431 WP_418139392.1 DUF6844 domain-containing protein -
  AB9R84_RS12040 (AB9R84_12030) lpoB 2506760..2507368 (-) 609 WP_395535155.1 penicillin-binding protein activator LpoB -

Sequence

Protein


Download         Length: 284 a.a.        Molecular weight: 31545.77 Da        Isoelectric Point: 7.2394

>NTDB_id=1034144 AB9R84_RS12020 WP_019933129.1 2502636..2503490(+) (pilD) [Oceanimonas smirnovii strain OS2020-133]
MTQLLDHTSLLYIVIPLLGLLVGSFLNVVIHRLPLMMQREWQQECAALNEQPVVEQAPFNLCMPRSRCPHCEHPLAARDN
IPLLSWLWLKGRCRYCRAPVAKRYPLVELTSALLAGLVLWRFGPGAQLVAALVFSWVLLCMTLIDLDHLLLPDNLTLPLL
WLGLLLNVGELFVSLPSAVIGAAAGYGILWSLFWLFKLATGKEGMGYGDFKLLAAIGAWFGWQSLLPVLLLASFTGAVLG
LGLMALRRLNEDRVLPFGPALALGGWCYLMWGTEVVDLYWSIAL

Nucleotide


Download         Length: 855 bp        

>NTDB_id=1034144 AB9R84_RS12020 WP_019933129.1 2502636..2503490(+) (pilD) [Oceanimonas smirnovii strain OS2020-133]
ATGACCCAACTGCTCGACCATACTTCTCTGCTTTATATTGTGATCCCCCTGCTCGGCCTGCTGGTGGGCAGCTTTCTTAA
TGTGGTGATTCACCGGCTGCCGCTGATGATGCAGCGAGAGTGGCAGCAGGAATGCGCCGCATTAAATGAACAGCCGGTGG
TGGAGCAGGCTCCCTTTAATCTGTGTATGCCCCGCTCGCGCTGCCCGCACTGCGAACACCCGCTGGCGGCCAGAGATAAT
ATTCCCCTGCTCAGCTGGCTGTGGCTGAAAGGCCGGTGCCGCTATTGCCGCGCGCCTGTAGCCAAACGTTATCCGCTGGT
AGAGCTGACCTCGGCCCTGCTGGCGGGGCTGGTGCTGTGGCGCTTCGGGCCCGGAGCGCAACTGGTGGCGGCGCTGGTGT
TCAGCTGGGTGCTGCTGTGCATGACCCTGATTGATCTCGATCATCTGCTGCTGCCCGATAACCTGACCCTGCCGCTGCTG
TGGCTGGGCCTGCTGCTGAATGTGGGCGAACTGTTTGTATCCCTGCCGTCGGCGGTGATTGGCGCTGCGGCCGGTTACGG
TATTTTATGGAGCCTGTTCTGGCTGTTTAAACTGGCCACCGGCAAGGAAGGCATGGGCTATGGTGACTTCAAACTGCTGG
CTGCCATTGGTGCCTGGTTTGGCTGGCAAAGTCTGCTGCCGGTGCTGTTGCTGGCGTCCTTTACCGGTGCCGTGCTGGGC
CTCGGCCTGATGGCATTGCGTCGCCTGAATGAAGATCGCGTGCTACCCTTTGGTCCGGCGCTGGCACTGGGGGGCTGGTG
TTATCTGATGTGGGGGACGGAAGTGGTGGACCTGTACTGGAGTATTGCGCTGTGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(132-241)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(17-122)


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 cholerae strain A1552

54.478

94.366

0.514
  pilD Vibrio campbellii strain DS40M4

48.727

96.831

0.472
  pilD Acinetobacter nosocomialis M2

45.683

97.887

0.447
  pilD Acinetobacter baumannii D1279779

45.324

97.887

0.444
  pilD Neisseria gonorrhoeae MS11

47.619

88.732

0.423

Multiple sequence alignment