Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   CX511_RS04635 Genome accession   NZ_CP088149
Coordinates   972231..973100 (-) Length   289 a.a.
NCBI ID   WP_101291923.1    Uniprot ID   -
Organism   Pseudomonas sp. S06B 330     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 967231..978100
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  CX511_RS04600 - 967743..968081 (+) 339 WP_045190400.1 hypothetical protein -
  CX511_RS04605 - 968248..969543 (-) 1296 WP_045190401.1 NAD(P)/FAD-dependent oxidoreductase -
  CX511_RS04610 - 969628..969801 (-) 174 WP_036989987.1 DUF3094 family protein -
  CX511_RS04615 - 969970..970599 (-) 630 WP_045190402.1 DUF1780 domain-containing protein -
  CX511_RS04620 - 970712..971401 (+) 690 WP_045190403.1 energy-coupling factor ABC transporter permease -
  CX511_RS04625 yacG 971405..971611 (-) 207 WP_101291921.1 DNA gyrase inhibitor YacG -
  CX511_RS04630 coaE 971608..972231 (-) 624 WP_101291922.1 dephospho-CoA kinase -
  CX511_RS04635 pilD 972231..973100 (-) 870 WP_101291923.1 A24 family peptidase Machinery gene
  CX511_RS04640 - 973103..974311 (-) 1209 WP_101291924.1 type II secretion system F family protein -
  CX511_RS04645 - 974532..974960 (+) 429 WP_101291925.1 pilin -
  CX511_RS04655 - 975264..976592 (+) 1329 WP_101291926.1 integrase arm-type DNA-binding domain-containing protein -

Sequence

Protein


Download         Length: 289 a.a.        Molecular weight: 31785.06 Da        Isoelectric Point: 7.9444

>NTDB_id=632914 CX511_RS04635 WP_101291923.1 972231..973100(-) (pilD) [Pseudomonas sp. S06B 330]
MDLMDTLASQPLLYLGFALLLGLVVGSFLNVLVHRLPIMLQRQWQVEAREVLDLPEEATPERYNLCLPASQCPQCGHRIR
PWENIPVVSYLLLRGRCSRCRSAISVRYPLVELGCAALTVFVAWQLGASSSTVVVLLFSWGLLAMSLIDIEHRLLPDVLG
LPLLWLGLIVNAFGLLVPLEDALWGAVVGYLSLWSMFWLFKLITGKEGMGYGDFKLLALIGAWGGWQVLPLTLLLSSVLG
AVIGLIMLRVKGLKASTPIPFGPYLAIAGWIALLWGGQITTSYLKFSGL

Nucleotide


Download         Length: 870 bp        

>NTDB_id=632914 CX511_RS04635 WP_101291923.1 972231..973100(-) (pilD) [Pseudomonas sp. S06B 330]
ATGGACCTGATGGATACGCTGGCCAGCCAGCCGCTGCTGTACCTGGGTTTTGCCCTGCTGCTGGGGCTGGTCGTCGGCAG
TTTTCTCAACGTGCTGGTGCATCGTTTGCCGATCATGCTGCAACGCCAGTGGCAGGTGGAAGCGCGGGAGGTGCTCGACC
TGCCCGAAGAAGCCACGCCTGAGCGTTACAACCTGTGCCTGCCCGCTTCACAGTGCCCGCAGTGCGGGCATCGTATTCGC
CCTTGGGAAAACATCCCGGTAGTGAGTTACCTGTTGTTGCGTGGGCGCTGTTCCCGTTGCCGCAGCGCCATCAGCGTGCG
CTATCCGTTGGTAGAACTGGGCTGCGCAGCGCTGACGGTGTTTGTCGCCTGGCAACTGGGGGCCAGCAGCAGTACGGTCG
TCGTGCTGTTGTTCAGTTGGGGCCTGCTGGCCATGAGCCTGATCGACATCGAGCACCGGCTGTTACCCGATGTGCTGGGG
CTGCCGCTGTTGTGGCTGGGGCTTATCGTCAATGCCTTCGGGTTGCTGGTGCCGCTTGAGGATGCGCTGTGGGGCGCGGT
TGTCGGCTATTTGAGCCTGTGGTCGATGTTCTGGCTGTTCAAGCTCATCACCGGCAAGGAAGGCATGGGCTACGGCGACT
TCAAGTTGCTGGCGCTGATCGGCGCCTGGGGCGGTTGGCAGGTTCTGCCGCTGACGCTGCTGTTGTCGTCGGTGCTGGGG
GCGGTGATCGGGCTGATTATGCTGCGGGTTAAAGGCCTCAAGGCCAGTACGCCGATCCCCTTTGGTCCTTATCTGGCCAT
CGCGGGCTGGATCGCTCTGCTCTGGGGTGGTCAAATAACCACTTCTTACCTGAAATTCTCTGGATTGTGA

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 campbellii strain DS40M4

49.65

98.962

0.491
  pilD Vibrio cholerae strain A1552

49.648

98.27

0.488
  pilD Acinetobacter baumannii D1279779

47.81

94.81

0.453
  pilD Acinetobacter nosocomialis M2

47.08

94.81

0.446
  pilD Neisseria gonorrhoeae MS11

49.02

88.235

0.433