Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   MJO52_RS15865 Genome accession   NZ_CP092418
Coordinates   3575457..3576335 (+) Length   292 a.a.
NCBI ID   WP_252082950.1    Uniprot ID   -
Organism   Microbulbifer variabilis strain SCSIO 43006     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3570457..3581335
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  MJO52_RS21325 - 3571558..3571980 (-) 423 WP_286036973.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  MJO52_RS15855 (MJO52_15845) pilB 3572360..3574072 (+) 1713 WP_252082948.1 type IV-A pilus assembly ATPase PilB Machinery gene
  MJO52_RS15860 (MJO52_15850) pilC 3574227..3575444 (+) 1218 WP_252082949.1 type II secretion system F family protein Machinery gene
  MJO52_RS15865 (MJO52_15855) pilD 3575457..3576335 (+) 879 WP_252082950.1 A24 family peptidase Machinery gene
  MJO52_RS15870 (MJO52_15860) coaE 3576470..3577066 (+) 597 WP_252082951.1 dephospho-CoA kinase -
  MJO52_RS15875 (MJO52_15865) yacG 3577140..3577355 (+) 216 WP_252082952.1 DNA gyrase inhibitor YacG -
  MJO52_RS15880 (MJO52_15870) mutT 3577421..3577819 (-) 399 WP_252082953.1 8-oxo-dGTP diphosphatase MutT -
  MJO52_RS15885 (MJO52_15875) argJ 3577829..3579031 (-) 1203 WP_252082954.1 bifunctional glutamate N-acetyltransferase/amino-acid acetyltransferase ArgJ -

Sequence

Protein


Download         Length: 292 a.a.        Molecular weight: 32381.45 Da        Isoelectric Point: 7.6302

>NTDB_id=657335 MJO52_RS15865 WP_252082950.1 3575457..3576335(+) (pilD) [Microbulbifer variabilis strain SCSIO 43006]
MFEYLSLYPVLLISSTFILGLLIGSFLNVVILRLPVMMEREYKRDFYSYFDSKPNKAEQEELNKPFNLVLPHSHCPKCKT
EIKPWQNIPVISYLFLRGKCSSCGTPISKRYPLIELATGILTAVVVWQLGFTWQALAGCVFTWALVALTGIDFDKQLLPD
SITLPLLWGGLLINLWGIFVPLQDAVIGAIAGYLSLWLVFHIFKLVTGKEGMGAGDFKILAAIGAWFGWQMLPLVILLSA
GVGAIAGISWSLAVGRDRSLPIAFGPYLAGAGWIAMLWGEQIVDWYLSFSGL

Nucleotide


Download         Length: 879 bp        

>NTDB_id=657335 MJO52_RS15865 WP_252082950.1 3575457..3576335(+) (pilD) [Microbulbifer variabilis strain SCSIO 43006]
ATGTTTGAGTATTTATCTTTATATCCAGTGCTACTTATTAGTAGTACCTTTATTTTAGGCTTACTTATAGGCAGCTTCCT
CAATGTCGTTATCCTGCGCCTGCCTGTAATGATGGAGCGGGAATACAAACGGGATTTTTATAGCTATTTTGACTCAAAGC
CTAACAAGGCCGAGCAAGAGGAGCTGAATAAACCGTTCAACCTGGTGTTGCCACACTCCCACTGCCCTAAATGCAAAACT
GAAATTAAGCCCTGGCAAAATATTCCTGTCATCAGCTATCTATTTTTGCGCGGTAAATGTAGCTCCTGTGGCACGCCGAT
TTCCAAACGCTACCCTTTGATTGAGTTGGCTACTGGAATTCTCACCGCCGTAGTGGTTTGGCAGCTGGGCTTTACTTGGC
AGGCGCTGGCGGGCTGTGTCTTTACTTGGGCTTTAGTCGCACTTACTGGTATCGACTTCGATAAGCAGTTATTACCAGAC
AGCATTACCCTGCCGTTGCTCTGGGGCGGCTTACTGATAAACCTTTGGGGTATTTTTGTTCCACTGCAAGATGCCGTTAT
TGGAGCTATCGCGGGCTATCTTTCTTTGTGGCTGGTGTTTCATATCTTTAAGCTGGTTACCGGCAAGGAAGGTATGGGAG
CTGGGGACTTCAAGATACTCGCAGCTATCGGGGCCTGGTTTGGCTGGCAGATGCTGCCTCTGGTAATTCTGCTCTCTGCC
GGAGTTGGTGCTATAGCAGGTATTTCCTGGAGCCTGGCGGTTGGACGGGATCGCAGTCTACCGATTGCCTTTGGTCCTTA
TCTGGCCGGTGCAGGCTGGATTGCTATGCTATGGGGTGAGCAGATTGTTGATTGGTACCTGAGCTTTTCCGGCCTATAG

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(18-128)

Type IV leader peptidase family (Peptidase_A24)

(140-248)


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

50.173

98.973

0.497
  pilD Vibrio cholerae strain A1552

49.826

98.288

0.49
  pilD Neisseria gonorrhoeae MS11

51.825

93.836

0.486
  pilD Acinetobacter baumannii D1279779

51.852

92.466

0.479
  pilD Acinetobacter nosocomialis M2

51.481

92.466

0.476