Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   OGV19_RS20400 Genome accession   NZ_CP109603
Coordinates   4539751..4540617 (+) Length   288 a.a.
NCBI ID   WP_264310389.1    Uniprot ID   -
Organism   Pseudomonas putida strain SEH01     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4534751..4545617
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  OGV19_RS20380 - 4536282..4537604 (-) 1323 WP_264310386.1 tyrosine-type recombinase/integrase -
  OGV19_RS20390 - 4537912..4538322 (-) 411 WP_264310387.1 pilin -
  OGV19_RS20395 - 4538540..4539748 (+) 1209 WP_264310388.1 type II secretion system F family protein -
  OGV19_RS20400 pilD 4539751..4540617 (+) 867 WP_264310389.1 prepilin peptidase Machinery gene
  OGV19_RS20405 coaE 4540617..4541240 (+) 624 WP_264310390.1 dephospho-CoA kinase -
  OGV19_RS20410 yacG 4541237..4541437 (+) 201 WP_027594560.1 DNA gyrase inhibitor YacG -
  OGV19_RS20415 - 4541623..4542303 (-) 681 WP_264310391.1 energy-coupling factor ABC transporter permease -
  OGV19_RS20420 - 4542414..4542845 (+) 432 WP_264310392.1 hypothetical protein -
  OGV19_RS20425 - 4542901..4543530 (+) 630 WP_264310393.1 DUF1780 domain-containing protein -
  OGV19_RS20430 - 4543663..4543836 (+) 174 WP_013970765.1 DUF3094 family protein -
  OGV19_RS20435 - 4543921..4545216 (+) 1296 WP_264310394.1 NAD(P)/FAD-dependent oxidoreductase -

Sequence

Protein


Download         Length: 288 a.a.        Molecular weight: 31740.94 Da        Isoelectric Point: 7.7912

>NTDB_id=748394 OGV19_RS20400 WP_264310389.1 4539751..4540617(+) (pilD) [Pseudomonas putida strain SEH01]
MTLWTFLAMQPAYFIILATVLGLLVGSFLNVVVYRLPIMLDRQWQREAQEVLGLPVAEHARFDLCLPASQCTQCGHRIRA
WENVPVLSYLTLRGRCSACKHRISARYPLVELGCALLSMVVAWRCGASVEALTLLPLTWGLLALSLIDYDQQLLPDAIVL
PGLWLGLIVNYFGVVVPLPDAVCGAVVGYLTLWTVYWLFKLVTGKEGMGYGDFKLLALIGAWGGWQVLPLTLLLSSVVGA
LVGVCLLRVRKHSIGTAMPFGPYLAIAGWIAVLWGDEIYASYMQLLGF

Nucleotide


Download         Length: 867 bp        

>NTDB_id=748394 OGV19_RS20400 WP_264310389.1 4539751..4540617(+) (pilD) [Pseudomonas putida strain SEH01]
ATGACTTTATGGACCTTCCTGGCAATGCAGCCGGCTTACTTCATCATCCTGGCGACGGTGCTCGGGCTGTTGGTGGGCAG
TTTTCTCAATGTGGTGGTGTATCGCCTGCCGATCATGCTGGACCGCCAGTGGCAGCGTGAGGCACAAGAAGTGCTGGGGT
TGCCGGTGGCCGAGCACGCGCGTTTCGACCTGTGCCTGCCGGCCTCGCAGTGCACGCAGTGCGGGCATCGGATTCGGGCG
TGGGAAAACGTCCCGGTCCTCAGCTACTTGACGTTGCGCGGGCGCTGTTCTGCCTGCAAACACCGCATCAGCGCGCGTTA
CCCGTTGGTCGAGTTGGGCTGTGCGCTGCTGTCGATGGTGGTGGCCTGGCGCTGCGGGGCCAGCGTCGAGGCATTGACGC
TTCTGCCGCTGACGTGGGGGTTGCTGGCCCTGAGCCTGATTGACTATGACCAACAACTGCTGCCCGACGCTATCGTGCTG
CCAGGGCTCTGGCTTGGGTTGATCGTCAATTATTTCGGGGTAGTGGTGCCCTTGCCCGATGCGGTGTGCGGCGCCGTGGT
CGGCTACCTCACCCTGTGGACGGTGTACTGGCTGTTCAAACTGGTGACCGGCAAAGAAGGCATGGGCTATGGCGATTTCA
AGCTGTTGGCACTGATCGGCGCCTGGGGTGGCTGGCAGGTGCTGCCGCTGACATTGCTGCTGTCGTCGGTGGTGGGGGCG
TTGGTGGGCGTGTGTCTGCTGCGTGTACGCAAGCATTCCATCGGTACCGCCATGCCGTTTGGCCCTTATCTGGCCATTGC
GGGGTGGATTGCCGTGCTCTGGGGTGATGAAATATACGCCTCTTACATGCAACTGCTTGGATTCTGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(137-244)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-124)


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

53.43

96.181

0.514
  pilD Vibrio campbellii strain DS40M4

50.725

95.833

0.486
  pilD Acinetobacter baumannii D1279779

49.11

97.569

0.479
  pilD Acinetobacter nosocomialis M2

48.399

97.569

0.472
  pilD Neisseria gonorrhoeae MS11

48.364

95.486

0.462