Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   D5S10_RS04420 Genome accession   NZ_CP032456
Coordinates   1006721..1007593 (-) Length   290 a.a.
NCBI ID   WP_016981136.1    Uniprot ID   A0AAX1VM66
Organism   Pseudomonas savastanoi strain CAS03     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1001721..1012593
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  D5S10_RS04410 (D5S10_04830) yacG 1005895..1006104 (-) 210 WP_002552020.1 DNA gyrase inhibitor YacG -
  D5S10_RS04415 (D5S10_04835) coaE 1006101..1006724 (-) 624 WP_016981135.1 dephospho-CoA kinase -
  D5S10_RS04420 (D5S10_04840) pilD 1006721..1007593 (-) 873 WP_016981136.1 A24 family peptidase Machinery gene
  D5S10_RS04425 (D5S10_04845) pilC 1007595..1008812 (-) 1218 WP_016981137.1 type II secretion system F family protein Machinery gene
  D5S10_RS04430 (D5S10_04850) pilB 1008815..1010509 (-) 1695 WP_031597287.1 type IV-A pilus assembly ATPase PilB Machinery gene
  D5S10_RS04435 (D5S10_04855) - 1010735..1011130 (+) 396 WP_029240905.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -

Sequence

Protein


Download         Length: 290 a.a.        Molecular weight: 32078.22 Da        Isoelectric Point: 8.5797

>NTDB_id=315989 D5S10_RS04420 WP_016981136.1 1006721..1007593(-) (pilD) [Pseudomonas savastanoi strain CAS03]
MPLLDFLASSPLAFVTTCCILGLIIGSFLNVVVYRLPKMMERDWKAQSREMLGLPAEPDQPAFNLNRPRSSCPHCAHKIR
PWENLPVISYLLLRGKCSQCKAPISKRYPLVELTCAVLSAYVAWHFGFGWQTAAMLVLSWGLLAMSLIDADHQLLPDSLV
LPLLWLGLIVNAFGLFTSLNDALWGAVAGYLALWSVFWLFKLVTGKEGMGYGDFKLLAMLGAWGGWQILPLTILLSSLVG
AVLGVIMMRVRRVESGTPIPFGPYLAIAGWIALLWGGQITDSYMQFAGFR

Nucleotide


Download         Length: 873 bp        

>NTDB_id=315989 D5S10_RS04420 WP_016981136.1 1006721..1007593(-) (pilD) [Pseudomonas savastanoi strain CAS03]
ATGCCCCTCCTCGATTTCCTGGCCAGCTCACCGCTGGCCTTCGTCACCACCTGCTGCATCCTCGGCCTGATCATCGGAAG
CTTCCTCAACGTAGTCGTCTACCGCCTCCCCAAAATGATGGAGCGCGACTGGAAAGCCCAATCCCGCGAAATGCTCGGCC
TGCCCGCGGAACCCGATCAGCCCGCCTTCAACCTGAACCGCCCTCGCTCCAGCTGCCCGCACTGCGCGCACAAAATCCGC
CCGTGGGAAAACCTGCCGGTCATCAGCTATCTGCTGCTGCGCGGTAAATGCTCACAATGCAAAGCCCCCATCAGCAAACG
CTACCCATTGGTAGAGCTGACCTGCGCAGTGTTGTCGGCCTACGTGGCTTGGCATTTCGGTTTCGGCTGGCAAACGGCGG
CGATGCTGGTGTTGAGCTGGGGCCTGCTGGCGATGAGTCTGATCGACGCCGACCACCAGCTGTTACCTGACTCTCTGGTG
CTGCCACTGCTGTGGCTGGGCCTCATCGTCAACGCTTTCGGGCTGTTCACCTCGCTGAACGATGCGCTTTGGGGCGCGGT
GGCCGGTTATCTGGCGCTGTGGTCGGTGTTCTGGCTGTTCAAGCTGGTGACCGGCAAGGAAGGCATGGGTTATGGCGACT
TCAAATTGCTGGCCATGCTTGGCGCGTGGGGCGGCTGGCAGATTCTGCCGTTGACCATCCTGCTGTCATCGCTGGTGGGT
GCGGTGCTTGGGGTGATCATGATGCGCGTGCGCAGGGTTGAAAGCGGTACACCGATCCCCTTTGGTCCTTATCTGGCCAT
TGCGGGGTGGATCGCTTTGCTCTGGGGTGGTCAAATAACCGACTCTTACATGCAGTTTGCCGGTTTCAGATGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(136-245)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-126)


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

53.004

97.586

0.517
  pilD Vibrio cholerae strain A1552

54.348

95.172

0.517
  pilD Acinetobacter baumannii D1279779

51.408

97.931

0.503
  pilD Acinetobacter nosocomialis M2

50.352

97.931

0.493
  pilD Neisseria gonorrhoeae MS11

51.493

92.414

0.476

Multiple sequence alignment