Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   GPX87_RS03965 Genome accession   NZ_CP046815
Coordinates   850905..851771 (+) Length   288 a.a.
NCBI ID   WP_078926030.1    Uniprot ID   -
Organism   Vibrio cincinnatiensis strain 1398-82     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 845905..856771
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GPX87_RS03945 nadC 846414..847304 (+) 891 WP_078926034.1 carboxylating nicotinate-nucleotide diphosphorylase -
  GPX87_RS03950 - 847501..847926 (+) 426 WP_078926033.1 pilin -
  GPX87_RS03955 pilB 847929..849617 (+) 1689 WP_078926032.1 type IV-A pilus assembly ATPase PilB Machinery gene
  GPX87_RS03960 pilC 849638..850864 (+) 1227 WP_078926031.1 type II secretion system F family protein Machinery gene
  GPX87_RS03965 pilD 850905..851771 (+) 867 WP_078926030.1 A24 family peptidase Machinery gene
  GPX87_RS03970 coaE 851777..852391 (+) 615 WP_078926029.1 dephospho-CoA kinase -
  GPX87_RS03975 zapD 852417..853157 (+) 741 WP_078926028.1 cell division protein ZapD -
  GPX87_RS03980 yacG 853215..853412 (+) 198 WP_078926027.1 DNA gyrase inhibitor YacG -
  GPX87_RS03985 parC 853477..855750 (-) 2274 WP_078926026.1 DNA topoisomerase IV subunit A -

Sequence

Protein


Download         Length: 288 a.a.        Molecular weight: 32408.63 Da        Isoelectric Point: 8.1365

>NTDB_id=408259 GPX87_RS03965 WP_078926030.1 850905..851771(+) (pilD) [Vibrio cincinnatiensis strain 1398-82]
MDIFYYYPWLFPALATLFGLMIGSFLNVVIYRLPKIMEREWRKECADSFPEYGISPPKGKLTLSTPRSTCPHCQTPLRIR
DNVPLLSWLWLKGQCAHCQAPISARYPLVELLTALSSWVVASHFGLSDYSLALLFFTYVLIAATFIDFDCMLLPDQLTLP
LMWVGISLALLGISPLSLTDSVIGAITGYLCLWSIYWLFKGLTGKEGMGYGDFKLLAALGAWFGWQLLPLIILLSSFVGL
IFGIVQLRLQKRGIDKAFPFGPYLAMAGWLAMLWGDKLITWYLHSLVG

Nucleotide


Download         Length: 867 bp        

>NTDB_id=408259 GPX87_RS03965 WP_078926030.1 850905..851771(+) (pilD) [Vibrio cincinnatiensis strain 1398-82]
ATGGATATTTTCTATTATTACCCTTGGTTATTTCCGGCCTTAGCGACCCTGTTTGGTTTAATGATTGGCAGTTTTCTCAA
TGTGGTCATCTATCGTTTACCTAAAATCATGGAGCGAGAATGGCGTAAAGAGTGTGCCGACTCTTTTCCTGAATATGGTA
TCTCCCCCCCCAAAGGAAAGTTAACGCTAAGTACACCTCGCTCGACCTGTCCTCACTGCCAAACTCCGCTCAGGATCCGA
GATAATGTCCCGCTACTCAGTTGGCTATGGCTAAAAGGGCAATGCGCACACTGCCAAGCTCCAATCAGCGCTCGCTACCC
TTTAGTAGAACTGCTCACCGCACTTAGCAGTTGGGTGGTCGCTTCTCACTTTGGCCTTAGCGACTATAGCCTCGCCTTAC
TGTTTTTTACCTATGTATTAATCGCCGCGACCTTTATTGATTTTGATTGCATGTTATTACCCGATCAATTGACATTACCT
TTAATGTGGGTGGGAATCAGCTTGGCATTACTTGGTATCAGCCCCCTATCACTGACAGATTCGGTGATCGGTGCCATCAC
GGGTTATCTCTGTCTTTGGTCTATCTACTGGCTATTTAAAGGCTTAACCGGCAAAGAAGGCATGGGGTATGGGGATTTTA
AACTCTTGGCGGCGCTAGGTGCATGGTTCGGCTGGCAATTGCTCCCGCTGATTATCCTGCTCTCCTCTTTTGTTGGCCTT
ATCTTTGGTATCGTTCAATTACGCCTACAAAAACGAGGCATAGATAAAGCCTTTCCTTTTGGGCCTTACCTCGCCATGGC
GGGATGGTTAGCCATGCTATGGGGTGATAAGCTCATTACTTGGTATTTACACTCATTAGTAGGATAA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(17-124)

Type IV leader peptidase family (Peptidase_A24)

(135-244)


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

77.431

100

0.774
  pilD Vibrio campbellii strain DS40M4

71.875

100

0.719
  pilD Acinetobacter nosocomialis M2

53.497

99.306

0.531
  pilD Acinetobacter baumannii D1279779

53.147

99.306

0.528
  pilD Neisseria gonorrhoeae MS11

43.509

98.958

0.431

Multiple sequence alignment