Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   C4Q28_RS04790 Genome accession   NZ_CP026676
Coordinates   1001534..1002400 (-) Length   288 a.a.
NCBI ID   WP_023382439.1    Uniprot ID   A0A964GN15
Organism   Pseudomonas sp. SWI6     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 996534..1007400
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  C4Q28_RS04760 (C4Q28_04760) - 997474..998769 (-) 1296 WP_023382445.1 NAD(P)/FAD-dependent oxidoreductase -
  C4Q28_RS04765 (C4Q28_04765) - 998854..999027 (-) 174 WP_012316344.1 DUF3094 domain-containing protein -
  C4Q28_RS04770 (C4Q28_04770) - 999160..999789 (-) 630 WP_023382443.1 DUF1780 domain-containing protein -
  C4Q28_RS04775 (C4Q28_04775) - 999895..1000578 (+) 684 WP_023382442.1 energy-coupling factor ABC transporter permease -
  C4Q28_RS04780 (C4Q28_04780) yacG 1000714..1000914 (-) 201 WP_023382441.1 DNA gyrase inhibitor YacG -
  C4Q28_RS04785 (C4Q28_04785) coaE 1000911..1001534 (-) 624 WP_023382440.1 dephospho-CoA kinase -
  C4Q28_RS04790 (C4Q28_04790) pilD 1001534..1002400 (-) 867 WP_023382439.1 A24 family peptidase Machinery gene
  C4Q28_RS04795 (C4Q28_04795) - 1002403..1003611 (-) 1209 WP_104881232.1 type II secretion system F family protein -
  C4Q28_RS04800 (C4Q28_04800) - 1003826..1004236 (+) 411 WP_023382437.1 pilin -
  C4Q28_RS04810 (C4Q28_04810) - 1004548..1005876 (+) 1329 WP_104881233.1 integrase arm-type DNA-binding domain-containing protein -

Sequence

Protein


Download         Length: 288 a.a.        Molecular weight: 31781.18 Da        Isoelectric Point: 8.1737

>NTDB_id=271618 C4Q28_RS04790 WP_023382439.1 1001534..1002400(-) (pilD) [Pseudomonas sp. SWI6]
MTLWTFLAAQPAYLMTLAALLGLLVGSFLNVLVHRLPIMLERQWQREAQQVLGLPTSVHERFDLCLPASRCPGCGHPIRA
WENIPVLSYLALRGRCSACKCRISPRYPLVELACAAVSLVVAWHGGSAAQLLLLLLLTWCLLALSLIDIEHQLLPDVLVL
PMLWLGLIANAFHTFVPLSHALWGAIAGYLCLWSVYWVFKLLTGKEGMGYGDFKLLALIGAWGGWQVLPLTLLLSSVLGV
LVGLCLLRVRRQSLSTTLPFGPYLAIAGWIALLWGDEIYASYMQLLGL

Nucleotide


Download         Length: 867 bp        

>NTDB_id=271618 C4Q28_RS04790 WP_023382439.1 1001534..1002400(-) (pilD) [Pseudomonas sp. SWI6]
ATGACTTTATGGACTTTCCTGGCTGCGCAGCCGGCTTACCTGATGACCTTGGCCGCCCTCCTGGGGTTGCTGGTCGGCAG
CTTTCTGAACGTGTTGGTGCACCGCCTGCCGATCATGCTCGAACGCCAATGGCAGCGCGAAGCACAGCAGGTGCTGGGGC
TGCCGACCTCGGTGCATGAACGCTTCGACCTGTGCCTGCCGGCCTCCCGCTGCCCGGGCTGCGGGCACCCGATTCGTGCC
TGGGAAAACATCCCGGTGCTGAGTTACCTGGCCCTGCGTGGGCGCTGCTCGGCGTGCAAGTGCCGCATCAGCCCGCGTTA
TCCACTGGTGGAGCTGGCGTGCGCGGCCGTGTCGCTGGTAGTGGCGTGGCATGGCGGCAGTGCCGCGCAGCTGCTGTTGC
TACTGTTGCTCACCTGGTGCCTGCTGGCCTTGAGCCTGATCGATATCGAACACCAGTTGCTGCCCGACGTGCTGGTGCTG
CCAATGCTGTGGCTAGGCTTGATCGCCAATGCCTTCCACACCTTCGTACCCCTGAGCCATGCGCTGTGGGGCGCGATTGC
GGGTTACCTCTGCCTGTGGAGCGTGTACTGGGTGTTCAAGCTGCTGACCGGCAAGGAGGGCATGGGCTATGGGGACTTCA
AGCTGCTGGCGTTGATCGGCGCCTGGGGCGGGTGGCAGGTGCTGCCGCTGACCTTGCTGTTGTCATCGGTGCTGGGGGTG
CTGGTTGGCCTGTGCCTGCTGCGTGTGCGTCGGCAATCGCTGAGTACGACGTTGCCGTTTGGGCCTTATCTGGCCATTGC
AGGGTGGATTGCGTTGCTCTGGGGTGATGAAATATACGCCTCTTACATGCAACTACTGGGACTCTGA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-124)

Type IV leader peptidase family (Peptidase_A24)

(135-244)


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

54.945

94.792

0.521
  pilD Acinetobacter baumannii D1279779

51.493

93.056

0.479
  pilD Vibrio campbellii strain DS40M4

49.64

96.528

0.479
  pilD Acinetobacter nosocomialis M2

50.746

93.056

0.472
  pilD Neisseria gonorrhoeae MS11

47.955

93.403

0.448

Multiple sequence alignment