Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   A9C11_RS05115 Genome accession   NZ_CP015878
Coordinates   1145517..1146389 (-) Length   290 a.a.
NCBI ID   WP_064581983.1    Uniprot ID   -
Organism   Pseudomonas citronellolis strain SJTE-3     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type MGE coordinates Gene coordinates Relative position Distance (bp)
Genomic island 1144629..1160290 1145517..1146389 within 0


Gene organization within MGE regions


Location: 1144629..1160290
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  A9C11_RS05105 (A9C11_05100) yacG 1144629..1144838 (-) 210 WP_043272268.1 DNA gyrase inhibitor YacG -
  A9C11_RS05110 (A9C11_05105) coaE 1144835..1145443 (-) 609 WP_064581980.1 dephospho-CoA kinase -
  A9C11_RS05115 (A9C11_05110) pilD 1145517..1146389 (-) 873 WP_064581983.1 prepilin peptidase Machinery gene
  A9C11_RS05120 (A9C11_05115) pilC 1146390..1147607 (-) 1218 WP_064581985.1 type II secretion system F family protein Machinery gene
  A9C11_RS05125 (A9C11_05120) pilB 1147611..1149314 (-) 1704 WP_064581987.1 type IV-A pilus assembly ATPase PilB Machinery gene
  A9C11_RS33915 pilE 1149544..1150002 (+) 459 WP_082936679.1 pilin Machinery gene
  A9C11_RS35205 - 1150003..1151985 (+) 1983 WP_157763223.1 hypothetical protein -
  A9C11_RS33920 - 1151969..1152454 (+) 486 WP_157763225.1 GtrA family protein -
  A9C11_RS05130 (A9C11_05125) - 1152444..1153988 (+) 1545 WP_064581990.1 NAD(P)/FAD-dependent oxidoreductase -
  A9C11_RS33925 galE 1154165..1155184 (-) 1020 WP_082936681.1 UDP-glucose 4-epimerase GalE -
  A9C11_RS05140 (A9C11_05135) - 1155628..1156344 (+) 717 WP_082936682.1 glycosyltransferase family 25 protein -
  A9C11_RS05145 (A9C11_05140) - 1156446..1157525 (+) 1080 WP_167543638.1 diguanylate cyclase -
  A9C11_RS35210 - 1157522..1157668 (-) 147 WP_208858253.1 hypothetical protein -
  A9C11_RS05150 (A9C11_05145) - 1157772..1158023 (+) 252 WP_064581993.1 type II toxin-antitoxin system HicA family toxin -
  A9C11_RS05155 (A9C11_05150) - 1158020..1158361 (+) 342 WP_064581994.1 type II toxin-antitoxin system HicB family antitoxin -
  A9C11_RS05160 (A9C11_05155) - 1158427..1158654 (+) 228 WP_064581996.1 DUF433 domain-containing protein -
  A9C11_RS05165 (A9C11_05160) - 1158843..1160039 (-) 1197 WP_064581998.1 type II toxin-antitoxin system HipA family toxin -
  A9C11_RS05170 (A9C11_05165) - 1160039..1160290 (-) 252 WP_043272292.1 helix-turn-helix transcriptional regulator -

Sequence

Protein


Download         Length: 290 a.a.        Molecular weight: 32013.02 Da        Isoelectric Point: 7.3450

>NTDB_id=182696 A9C11_RS05115 WP_064581983.1 1145517..1146389(-) (pilD) [Pseudomonas citronellolis strain SJTE-3]
MLVFDFLASHALAFVLCAALLGLLVGSFLNVVIHRLPKMMELEWQQQARDALSLPQPEQKPTYNLVLPNSACPHCGHEIR
AWQNIPVISYLALRGKCSACKAPISARYPLVELATALLSGFVAWHFGFTWQAGAMLLLTWGLLAMSMIDVDHQLLPDALV
LPLLWLGLIVNYFGLFTSLGDALWGAVFGYLSLWSVYWLFKLLTGKEGMGYGDFKLLAMLGAWGGWQVLPLTILFSSLVG
AVLGVILLRLRNAETSTPIPFGPYLAIAGWIALLWGDQITTTYLQFAGFR

Nucleotide


Download         Length: 873 bp        

>NTDB_id=182696 A9C11_RS05115 WP_064581983.1 1145517..1146389(-) (pilD) [Pseudomonas citronellolis strain SJTE-3]
ATGCTCGTATTCGACTTCCTGGCCAGCCACGCGCTGGCCTTTGTTTTATGCGCGGCCTTGCTCGGCCTTCTGGTCGGTAG
CTTCCTCAACGTGGTCATCCATCGCCTGCCGAAGATGATGGAACTGGAGTGGCAGCAACAAGCGCGTGACGCTCTTTCCT
TGCCTCAGCCTGAGCAGAAGCCCACCTACAACCTGGTCCTACCCAACTCGGCGTGCCCGCACTGCGGCCATGAGATTCGC
GCCTGGCAGAACATCCCCGTCATCAGCTACCTGGCCCTGCGCGGCAAGTGCTCGGCCTGCAAGGCGCCGATCAGTGCGCG
TTATCCGCTGGTCGAGCTGGCCACCGCCCTGCTTTCCGGTTTCGTTGCCTGGCACTTCGGCTTTACCTGGCAGGCTGGGG
CCATGCTGTTGCTGACCTGGGGGCTGCTGGCCATGAGCATGATCGATGTCGATCACCAGTTGCTGCCGGATGCATTGGTG
CTGCCGCTGCTCTGGCTGGGGTTGATCGTCAATTATTTCGGGCTTTTCACCAGCCTGGGCGATGCGCTCTGGGGCGCGGT
GTTCGGCTACCTGAGCCTGTGGTCGGTGTACTGGTTGTTCAAGCTGCTGACCGGCAAGGAAGGCATGGGTTATGGCGACT
TCAAGCTGCTGGCCATGCTCGGCGCCTGGGGCGGCTGGCAGGTGTTGCCGCTGACCATTCTGTTCTCGTCCCTGGTCGGG
GCCGTGCTGGGCGTCATTCTGCTGCGTCTGCGCAATGCCGAGACCAGCACGCCGATCCCCTTCGGGCCCTATCTGGCCAT
CGCCGGCTGGATTGCGCTGCTCTGGGGTGATCAAATAACCACTACCTATCTGCAATTCGCCGGTTTCCGGTAG

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-126)

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

59.058

95.172

0.562
  pilD Vibrio campbellii strain DS40M4

57.091

94.828

0.541
  pilD Acinetobacter baumannii D1279779

54.035

98.276

0.531
  pilD Acinetobacter nosocomialis M2

53.357

97.586

0.521
  pilD Neisseria gonorrhoeae MS11

50.951

90.69

0.462

Multiple sequence alignment