Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   J0X00_RS09550 Genome accession   NZ_CP071708
Coordinates   740213..741082 (+) Length   289 a.a.
NCBI ID   WP_218562705.1    Uniprot ID   -
Organism   Vibrio sp. ABG19     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 735213..746082
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  J0X00_RS09530 (J0X00_09530) nadC 735655..736542 (+) 888 WP_282477973.1 carboxylating nicotinate-nucleotide diphosphorylase -
  J0X00_RS09535 (J0X00_09535) - 736716..737126 (+) 411 WP_218562707.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  J0X00_RS09540 (J0X00_09540) pilB 737126..738934 (+) 1809 WP_282477974.1 ATPase, T2SS/T4P/T4SS family Machinery gene
  J0X00_RS09545 (J0X00_09545) pilC 738945..740162 (+) 1218 WP_282477975.1 type II secretion system F family protein Machinery gene
  J0X00_RS09550 (J0X00_09550) pilD 740213..741082 (+) 870 WP_218562705.1 A24 family peptidase Machinery gene
  J0X00_RS09555 (J0X00_09555) coaE 741085..741693 (+) 609 WP_218562704.1 dephospho-CoA kinase -
  J0X00_RS09560 (J0X00_09560) zapD 741725..742465 (+) 741 WP_136486084.1 cell division protein ZapD -
  J0X00_RS09565 (J0X00_09565) yacG 742502..742699 (+) 198 WP_136486081.1 DNA gyrase inhibitor YacG -
  J0X00_RS09570 (J0X00_09570) parC 742828..745101 (-) 2274 WP_136486079.1 DNA topoisomerase IV subunit A -

Sequence

Protein


Download         Length: 289 a.a.        Molecular weight: 32203.25 Da        Isoelectric Point: 7.8732

>NTDB_id=547139 J0X00_RS09550 WP_218562705.1 740213..741082(+) (pilD) [Vibrio sp. ABG19]
MDIFNYYPWLFPALATLLGLIIGSFLNVVIYRLPQIMEREWRQECAESFPEYGIDPPQGTLTLSTPRSTCPHCQTPIRIR
DNVPLLSWLLLRGKCAHCRQSISARYPLIELLTALSSGFIALQLGFSVYSIALLGFTYVLIAATFIDSDTMLLPDQLTLP
LMWAGISLALFGVSPVSLQSAVIGAIAGYLCLWSVYWLFKLLTGKEGMGYGDFKLLAALGAWLGWQQLPVIILLSSVIGL
IFGLIQLRLQKRGIDKAFPFGPYLALSGWLCMIYGQSIIAWYLHSVLGW

Nucleotide


Download         Length: 870 bp        

>NTDB_id=547139 J0X00_RS09550 WP_218562705.1 740213..741082(+) (pilD) [Vibrio sp. ABG19]
ATGGATATTTTTAACTATTACCCCTGGCTGTTTCCGGCCCTGGCCACACTGTTGGGGCTGATCATCGGCAGCTTTCTCAA
TGTCGTGATCTATCGACTGCCGCAAATCATGGAACGTGAATGGCGCCAGGAGTGCGCAGAGTCTTTTCCGGAATATGGGA
TTGATCCCCCACAGGGAACCCTGACGCTCAGTACCCCGCGCTCGACCTGCCCGCATTGCCAGACCCCGATTCGGATCCGT
GATAATGTCCCGCTGCTGAGCTGGCTGTTGCTGCGCGGCAAATGTGCTCACTGTCGCCAGTCGATCAGTGCCCGTTATCC
GCTGATTGAGCTGCTCACCGCCCTGAGCAGTGGCTTTATAGCCCTGCAGCTTGGTTTCAGCGTCTATAGCATAGCTCTGC
TTGGCTTTACCTACGTCCTGATTGCTGCCACCTTTATCGATTCCGATACCATGCTGCTGCCGGATCAGCTGACCCTGCCA
CTGATGTGGGCCGGGATTAGCCTGGCGCTGTTTGGCGTTAGCCCTGTCAGCTTGCAAAGTGCGGTAATCGGCGCCATCGC
CGGCTATCTGTGTCTGTGGTCGGTGTACTGGCTGTTTAAACTATTGACCGGTAAAGAAGGCATGGGCTACGGCGATTTTA
AGCTGCTGGCGGCGCTCGGTGCCTGGCTCGGTTGGCAACAGCTGCCGGTCATCATTCTGCTCTCATCCGTCATCGGCCTG
ATTTTTGGCCTGATTCAACTGCGCCTGCAAAAACGCGGTATCGATAAGGCATTTCCGTTTGGCCCTTATCTGGCCCTCTC
CGGCTGGTTATGCATGATCTATGGCCAGTCGATTATCGCTTGGTATTTACACTCAGTATTAGGATGGTAA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(137-244)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(17-123)


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

75.694

99.654

0.754
  pilD Vibrio campbellii strain DS40M4

75.347

99.654

0.751
  pilD Acinetobacter nosocomialis M2

52.098

98.962

0.516
  pilD Acinetobacter baumannii D1279779

51.748

98.962

0.512
  pilD Neisseria gonorrhoeae MS11

49.474

98.616

0.488