Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   P40_RS16580 Genome accession   NZ_CP012331
Coordinates   3598286..3599149 (+) Length   287 a.a.
NCBI ID   WP_022995250.1    Uniprot ID   -
Organism   Alloalcanivorax xenomutans strain P40     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3593286..3604149
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  P40_RS22145 - 3593794..3594222 (+) 429 WP_145953609.1 hypothetical protein -
  P40_RS16565 (P40_16360) - 3594420..3594890 (-) 471 WP_080531403.1 pilin -
  P40_RS16570 (P40_16365) pilB 3595252..3596964 (+) 1713 WP_080531404.1 type IV-A pilus assembly ATPase PilB Machinery gene
  P40_RS16575 (P40_16370) pilC 3597035..3598258 (+) 1224 WP_022995251.1 type II secretion system F family protein Machinery gene
  P40_RS16580 (P40_16375) pilD 3598286..3599149 (+) 864 WP_022995250.1 A24 family peptidase Machinery gene
  P40_RS16585 (P40_16380) coaE 3599364..3599969 (+) 606 WP_022995249.1 dephospho-CoA kinase -
  P40_RS16590 (P40_16385) - 3599959..3600153 (+) 195 WP_022995248.1 DNA gyrase inhibitor YacG -
  P40_RS16595 (P40_16390) - 3600154..3601104 (-) 951 WP_080531405.1 Nudix family hydrolase -
  P40_RS16600 (P40_16395) argJ 3601107..3602336 (-) 1230 WP_080531406.1 bifunctional glutamate N-acetyltransferase/amino-acid acetyltransferase ArgJ -

Sequence

Protein


Download         Length: 287 a.a.        Molecular weight: 31407.47 Da        Isoelectric Point: 7.2176

>NTDB_id=153548 P40_RS16580 WP_022995250.1 3598286..3599149(+) (pilD) [Alloalcanivorax xenomutans strain P40]
MFSFLADQPALLILFCTVFGLLVGSFLNVVIHRVPRMMERTWRREAQEVLELPIEETSPYNLVVPRSRCPHCDHAIRWHE
NIPVVSWLLLKGRCSACGQGISARYPLVELLSALIAAVCAWQFGYGGWLIFVLFASFTLLALAAIDLDTTLLPDAMTFPL
LWAGLLAALLGISPVALPDAVVGAMAGYLSLWSLYWVFKLVTGKEGMGYGDFKLLAALGAWLGWQYLPLVILLSSVVGLV
FAIGMMARGGLKKGQGIPFGPYLAIAGWIALLWGDTIVGAYLGLFQF

Nucleotide


Download         Length: 864 bp        

>NTDB_id=153548 P40_RS16580 WP_022995250.1 3598286..3599149(+) (pilD) [Alloalcanivorax xenomutans strain P40]
GTGTTTAGCTTTCTCGCCGACCAGCCCGCACTGCTCATTCTCTTCTGTACCGTGTTCGGGCTGCTGGTGGGCAGCTTTCT
CAATGTGGTGATTCACCGCGTTCCGCGAATGATGGAGCGCACCTGGCGGCGCGAAGCCCAGGAAGTGCTGGAACTGCCCA
TCGAGGAAACCAGCCCTTACAACCTGGTGGTGCCCCGTTCCCGCTGCCCGCATTGCGACCACGCCATTCGCTGGCATGAG
AACATCCCAGTGGTCAGTTGGCTGCTGTTGAAGGGACGCTGCAGCGCCTGCGGCCAGGGCATCAGTGCCCGCTATCCCTT
GGTCGAGTTGCTCAGCGCCCTGATCGCCGCTGTTTGCGCCTGGCAGTTTGGCTATGGGGGCTGGCTGATATTCGTGCTGT
TCGCCAGCTTTACCCTGCTGGCATTGGCGGCCATCGATCTGGATACCACGCTGCTCCCTGATGCCATGACCTTCCCGCTG
CTGTGGGCAGGTTTGCTGGCGGCGCTGCTGGGCATCTCGCCGGTTGCCCTGCCGGACGCCGTCGTCGGCGCCATGGCCGG
TTATCTGTCGTTGTGGAGCCTGTACTGGGTATTCAAGCTGGTCACCGGCAAGGAAGGCATGGGCTACGGTGACTTCAAAC
TGCTCGCCGCGCTGGGCGCCTGGCTGGGCTGGCAATATCTGCCGCTGGTGATTCTGTTGTCCTCGGTGGTGGGTCTGGTG
TTCGCCATTGGCATGATGGCTCGTGGTGGCCTCAAAAAGGGTCAGGGCATTCCCTTCGGTCCCTATCTGGCCATTGCCGG
CTGGATCGCGCTGTTATGGGGCGACACCATCGTCGGTGCTTATCTGGGTCTGTTTCAATTCTAG

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(135-243)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(18-123)


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

58.781

97.213

0.571
  pilD Vibrio campbellii strain DS40M4

56.159

96.167

0.54
  pilD Acinetobacter nosocomialis M2

48.592

98.955

0.481
  pilD Acinetobacter baumannii D1279779

48.592

98.955

0.481
  pilD Neisseria gonorrhoeae MS11

51.527

91.289

0.47

Multiple sequence alignment