Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   AB9L16_RS21915 Genome accession   NZ_CP168138
Coordinates   4853814..4854686 (+) Length   290 a.a.
NCBI ID   WP_252876914.1    Uniprot ID   -
Organism   Pseudomonas sp. LW8     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4848814..4859686
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AB9L16_RS21890 (AB9L16_21890) - 4849030..4849329 (+) 300 WP_095181833.1 DUF2845 domain-containing protein -
  AB9L16_RS21895 (AB9L16_21895) - 4849594..4849947 (-) 354 WP_071173629.1 BON domain-containing protein -
  AB9L16_RS21900 (AB9L16_21900) pilA/pilAI 4850243..4850665 (-) 423 WP_252876912.1 pilin Machinery gene
  AB9L16_RS21905 (AB9L16_21905) pilB 4850892..4852592 (+) 1701 WP_056790439.1 type IV-A pilus assembly ATPase PilB Machinery gene
  AB9L16_RS21910 (AB9L16_21910) pilC 4852595..4853812 (+) 1218 WP_150638505.1 type II secretion system F family protein Machinery gene
  AB9L16_RS21915 (AB9L16_21915) pilD 4853814..4854686 (+) 873 WP_252876914.1 A24 family peptidase Machinery gene
  AB9L16_RS21920 (AB9L16_21920) coaE 4854683..4855306 (+) 624 WP_252876915.1 dephospho-CoA kinase -
  AB9L16_RS21925 (AB9L16_21925) yacG 4855303..4855503 (+) 201 WP_016773149.1 DNA gyrase inhibitor YacG -
  AB9L16_RS21930 (AB9L16_21930) - 4855511..4855726 (-) 216 WP_016773148.1 hypothetical protein -
  AB9L16_RS21935 (AB9L16_21935) - 4855792..4856481 (-) 690 WP_041477814.1 energy-coupling factor ABC transporter permease -
  AB9L16_RS21940 (AB9L16_21940) - 4856672..4857298 (+) 627 WP_007909887.1 DUF1780 domain-containing protein -
  AB9L16_RS21945 (AB9L16_21945) - 4857295..4857822 (+) 528 WP_095181837.1 MOSC domain-containing protein -
  AB9L16_RS21950 (AB9L16_21950) - 4857874..4858047 (+) 174 WP_007909875.1 DUF3094 domain-containing protein -
  AB9L16_RS21955 (AB9L16_21955) - 4858111..4859409 (+) 1299 WP_016773144.1 NAD(P)/FAD-dependent oxidoreductase -

Sequence

Protein


Download         Length: 290 a.a.        Molecular weight: 31919.18 Da        Isoelectric Point: 7.9881

>NTDB_id=1042508 AB9L16_RS21915 WP_252876914.1 4853814..4854686(+) (pilD) [Pseudomonas sp. LW8]
MPIEELFAVYPRAFVVSALLLGLVVGSFLNVVVWRLPKMLERDWRQQAHDVLGLPTETPVPTYNLMLPHSACPHCGHRIR
PWENIPLLSYLLLRGRCSACSAPISKRYPLTELACGLLSAFIAWHLGFGWPAGLLILLTWGLLAMSLIDCEHQLLPDVLV
LPLLWLGLIVNSFGVFVALPDALWGAVAGYLALWSVFWLFKLLTGKDGIGHGDFKLLALLGAWGGWQILPLTILLSSLVG
AILGVVMLRLRAQATSTPIPFGPFLAIAGWIALLWGGQITDFYWQSVGLK

Nucleotide


Download         Length: 873 bp        

>NTDB_id=1042508 AB9L16_RS21915 WP_252876914.1 4853814..4854686(+) (pilD) [Pseudomonas sp. LW8]
ATGCCTATCGAAGAACTGTTTGCTGTGTATCCGCGGGCCTTTGTGGTCAGCGCGCTGCTGCTCGGGCTGGTGGTCGGCAG
CTTCCTCAATGTTGTGGTCTGGCGCTTGCCGAAAATGCTCGAGCGCGACTGGCGCCAGCAGGCCCATGATGTGCTCGGCC
TGCCTACTGAAACGCCTGTGCCGACCTACAACCTGATGCTGCCGCACTCCGCGTGCCCGCATTGCGGACACCGGATCCGC
CCTTGGGAAAACATTCCGCTGCTCAGTTATCTGCTGCTGCGCGGGCGCTGCTCGGCCTGTTCGGCGCCGATCAGTAAACG
TTACCCGCTGACCGAACTGGCCTGCGGCCTGCTGTCGGCATTCATCGCCTGGCATCTGGGCTTCGGCTGGCCGGCCGGCT
TGCTGATTTTGCTGACGTGGGGCTTGCTGGCGATGAGTCTGATCGACTGCGAACATCAGCTGCTGCCCGATGTGCTGGTG
CTGCCGCTGCTGTGGCTGGGGCTGATCGTCAACAGCTTCGGCGTGTTCGTGGCGTTGCCCGATGCATTGTGGGGCGCAGT
CGCGGGTTATCTGGCGCTGTGGTCGGTGTTCTGGCTGTTCAAACTGCTCACCGGCAAGGACGGCATCGGTCATGGCGATT
TCAAGCTGTTGGCCTTGCTTGGCGCTTGGGGTGGCTGGCAGATTCTGCCGCTGACAATTCTGTTGTCATCCTTGGTGGGA
GCGATTTTGGGCGTCGTCATGCTGCGTCTGCGCGCCCAGGCAACCTCGACGCCGATCCCCTTCGGACCCTTTCTGGCAAT
TGCCGGCTGGATTGCCTTGCTCTGGGGTGGTCAAATAACCGACTTCTATTGGCAGTCTGTCGGTTTGAAATGA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-125)

Type IV leader peptidase family (Peptidase_A24)

(137-245)


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

54.225

97.931

0.531
  pilD Vibrio campbellii strain DS40M4

52.982

98.276

0.521
  pilD Acinetobacter baumannii D1279779

46.479

97.931

0.455
  pilD Acinetobacter nosocomialis M2

46.479

97.931

0.455
  pilD Neisseria gonorrhoeae MS11

48.162

93.793

0.452

Multiple sequence alignment