Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   WKQ99_RS05180 Genome accession   NZ_CP149965
Coordinates   1101694..1102566 (-) Length   290 a.a.
NCBI ID   WP_339101037.1    Uniprot ID   -
Organism   Pseudomonas atacamensis strain EMP42     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1096694..1107566
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  WKQ99_RS05135 (WKQ99_05135) - 1096946..1097032 (-) 87 Protein_1011 metal ABC transporter ATP-binding protein -
  WKQ99_RS05140 (WKQ99_05140) - 1097044..1098342 (-) 1299 WP_016773144.1 NAD(P)/FAD-dependent oxidoreductase -
  WKQ99_RS05145 (WKQ99_05145) - 1098406..1098579 (-) 174 WP_007909875.1 DUF3094 domain-containing protein -
  WKQ99_RS05150 (WKQ99_05150) - 1098631..1099158 (-) 528 WP_256811015.1 MOSC domain-containing protein -
  WKQ99_RS05155 (WKQ99_05155) - 1099155..1099781 (-) 627 WP_007909887.1 DUF1780 domain-containing protein -
  WKQ99_RS05160 (WKQ99_05160) - 1099899..1100588 (+) 690 WP_016773147.1 energy-coupling factor ABC transporter permease -
  WKQ99_RS05165 (WKQ99_05165) - 1100654..1100869 (+) 216 WP_016773148.1 hypothetical protein -
  WKQ99_RS05170 (WKQ99_05170) yacG 1100877..1101077 (-) 201 WP_016773149.1 DNA gyrase inhibitor YacG -
  WKQ99_RS05175 (WKQ99_05175) coaE 1101074..1101697 (-) 624 WP_339101036.1 dephospho-CoA kinase -
  WKQ99_RS05180 (WKQ99_05180) pilD 1101694..1102566 (-) 873 WP_339101037.1 A24 family peptidase Machinery gene
  WKQ99_RS05185 (WKQ99_05185) pilC 1102568..1103785 (-) 1218 WP_024014342.1 type II secretion system F family protein Machinery gene
  WKQ99_RS05190 (WKQ99_05190) pilB 1103788..1105488 (-) 1701 WP_073475466.1 type IV-A pilus assembly ATPase PilB Machinery gene
  WKQ99_RS05195 (WKQ99_05195) - 1105715..1106152 (+) 438 WP_073475464.1 pilin -
  WKQ99_RS05200 (WKQ99_05200) - 1106451..1106804 (+) 354 WP_016773155.1 BON domain-containing protein -
  WKQ99_RS05205 (WKQ99_05205) - 1107067..1107366 (-) 300 WP_273525934.1 DUF2845 domain-containing protein -

Sequence

Protein


Download         Length: 290 a.a.        Molecular weight: 31866.13 Da        Isoelectric Point: 7.6466

>NTDB_id=962367 WKQ99_RS05180 WP_339101037.1 1101694..1102566(-) (pilD) [Pseudomonas atacamensis strain EMP42]
MPIDELFAVYPLAFVVSALLLGLVVGSFLNVVVWRLPKMLERDWRQQAHDVLGLPTETPVPTYNLMLPHSACPHCGHRIR
PWENIPLLSYLCLRGRCSACAAPISKRYPLTELACGLLSAFIAWHLGFGWPASLLILLTWGLLAMSLIDCEHQLLPDVLV
LPLLWLGLIVNSFGVFVALPDALWGAVAGYLALWSVFWLFKLLTGKDGIGHGDFKLLALLGAWGGWQILPLTILLSSLVG
AILGVVMLRLRAQATSTPIPFGPFLAIAGWIALLWGGQITDFYWQSVGLK

Nucleotide


Download         Length: 873 bp        

>NTDB_id=962367 WKQ99_RS05180 WP_339101037.1 1101694..1102566(-) (pilD) [Pseudomonas atacamensis strain EMP42]
ATGCCTATCGACGAACTGTTTGCCGTGTATCCGCTGGCCTTCGTGGTCAGCGCGCTGCTGCTCGGGCTGGTGGTCGGCAG
CTTCCTCAATGTTGTGGTCTGGCGCTTGCCGAAAATGCTTGAGCGTGACTGGCGCCAGCAAGCCCATGATGTGCTCGGCC
TGCCCACTGAAACGCCCGTGCCGACCTACAACCTGATGCTGCCGCACTCCGCGTGCCCGCATTGCGGACATCGGATCCGC
CCGTGGGAAAACATTCCGCTGCTCAGTTATCTGTGCCTGCGCGGGCGCTGCTCGGCCTGCGCGGCACCGATCAGCAAACG
TTACCCGTTGACCGAACTGGCCTGCGGCCTGCTCTCGGCATTCATTGCCTGGCATCTGGGCTTCGGCTGGCCGGCGAGCT
TGCTGATTTTGCTGACGTGGGGCTTGCTGGCGATGAGTCTGATCGACTGCGAACATCAGTTGCTGCCCGATGTGCTGGTG
CTGCCGCTGCTGTGGCTGGGGCTGATCGTCAACAGCTTCGGCGTGTTCGTGGCGTTGCCCGATGCATTGTGGGGCGCAGT
CGCGGGTTATCTGGCGCTGTGGTCGGTGTTCTGGCTGTTCAAACTGCTCACCGGCAAGGACGGCATCGGTCACGGCGATT
TCAAGCTGTTGGCCTTGCTTGGCGCTTGGGGTGGCTGGCAGATTCTGCCGCTGACGATTCTGTTGTCATCCTTGGTGGGA
GCGATTTTGGGCGTCGTCATGCTGCGTCTGCGCGCCCAGGCAACCTCGACGCCGATCCCCTTCGGACCCTTTCTGGCAAT
TGCCGGCTGGATTGCCTTGCTCTGGGGTGGTCAAATAACCGACTTCTATTGGCAGTCTGTCGGTTTGAAATGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(137-245)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-125)


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

52.632

98.276

0.517
  pilD Neisseria gonorrhoeae MS11

46.341

98.966

0.459
  pilD Acinetobacter baumannii D1279779

47.08

94.483

0.445
  pilD Acinetobacter nosocomialis M2

47.08

94.483

0.445