Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   DB847_RS02295 Genome accession   NZ_CP028897
Coordinates   439626..440513 (-) Length   295 a.a.
NCBI ID   WP_108649261.1    Uniprot ID   -
Organism   Dongshaea marina strain DM2     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 434626..445513
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  DB847_RS02270 secA 434838..437564 (+) 2727 WP_108649260.1 preprotein translocase subunit SecA -
  DB847_RS02275 mutT 437561..437959 (+) 399 WP_108652886.1 8-oxo-dGTP diphosphatase MutT -
  DB847_RS02280 yacG 438057..438245 (-) 189 WP_407644431.1 DNA gyrase inhibitor YacG -
  DB847_RS02285 zapD 438257..438987 (-) 731 Protein_424 cell division protein ZapD -
  DB847_RS02290 coaE 439015..439623 (-) 609 WP_234418492.1 dephospho-CoA kinase -
  DB847_RS02295 pilD 439626..440513 (-) 888 WP_108649261.1 A24 family peptidase Machinery gene
  DB847_RS02300 pilC 440647..441894 (-) 1248 WP_108649262.1 type II secretion system F family protein Machinery gene
  DB847_RS02305 pilB 441912..443618 (-) 1707 WP_108649263.1 type IV-A pilus assembly ATPase PilB Machinery gene
  DB847_RS02310 - 443624..444064 (-) 441 WP_108649264.1 prepilin-type N-terminal cleavage/methylation domain-containing protein -

Sequence

Protein


Download         Length: 295 a.a.        Molecular weight: 33144.49 Da        Isoelectric Point: 6.2157

>NTDB_id=288322 DB847_RS02295 WP_108649261.1 439626..440513(-) (pilD) [Dongshaea marina strain DM2]
MDTLLALYQLYPWLYFLLLAIFSLLIGSFLNVVIARLPVMMERQWQQEYREYFTPDDAEPSSEPASPAFNLIVPRSCCPH
CKAQIEGRDNVPLLSYLWLRGRCRHCREKISARYPLVEALCGLGSVIIGCYFPPGWPLLGALLLYWTLIPLVFIDLDHML
LPDQLTLPLLWLGLVFNLFGQFCSLQDALIGAMAGYLSLWCIYWGFKLLTGKEGMGYGDFKLLAALGAWLGWQQLPLIIF
LSAIVGLLFGLLLRLKPVSDGSKAFPFGPALAIAGWIALLWGDAMISGYLNFVLN

Nucleotide


Download         Length: 888 bp        

>NTDB_id=288322 DB847_RS02295 WP_108649261.1 439626..440513(-) (pilD) [Dongshaea marina strain DM2]
ATGGATACTCTGCTCGCCCTTTACCAGCTCTACCCCTGGCTCTACTTTCTGTTGCTGGCGATCTTTAGCCTGTTGATCGG
CAGCTTTCTCAATGTGGTGATCGCCCGCCTGCCGGTGATGATGGAGCGCCAATGGCAGCAAGAGTACCGGGAGTATTTCA
CCCCGGATGACGCAGAGCCATCTTCAGAGCCAGCCTCCCCCGCATTTAACCTGATTGTCCCCCGCTCCTGTTGCCCTCAC
TGCAAGGCTCAAATTGAAGGCAGAGATAATGTTCCTCTGCTTAGTTACCTGTGGCTCAGGGGGCGCTGCCGCCACTGCCG
GGAGAAAATTTCGGCGCGTTATCCCCTGGTCGAAGCCCTGTGTGGCCTGGGCTCAGTTATCATCGGCTGCTACTTTCCAC
CGGGCTGGCCACTGCTTGGTGCCCTGCTGCTCTACTGGACCCTGATCCCCCTGGTATTCATCGATCTCGATCACATGCTG
CTGCCGGATCAGCTGACCCTGCCCCTGCTGTGGCTGGGGCTGGTTTTTAACCTGTTCGGTCAGTTTTGCTCGCTACAAGA
CGCCCTAATTGGCGCCATGGCCGGGTACCTGTCACTCTGGTGTATCTACTGGGGCTTTAAGCTGCTGACCGGAAAAGAGG
GTATGGGCTATGGGGACTTTAAACTGCTGGCAGCCCTCGGGGCCTGGCTGGGCTGGCAACAACTGCCTCTGATTATTTTC
CTGTCGGCTATCGTTGGCCTGCTGTTCGGTCTCTTGCTGCGCCTGAAGCCGGTATCGGATGGATCTAAAGCCTTTCCCTT
CGGCCCGGCGCTAGCCATTGCGGGCTGGATTGCCCTGCTTTGGGGAGATGCTATGATAAGCGGCTACCTGAATTTTGTGC
TGAACTAA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(21-129)

Type IV leader peptidase family (Peptidase_A24)

(143-251)


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

56.597

97.627

0.553
  pilD Vibrio campbellii strain DS40M4

53.584

99.322

0.532
  pilD Acinetobacter nosocomialis M2

49.091

93.22

0.458
  pilD Neisseria gonorrhoeae MS11

50

90.847

0.454
  pilD Acinetobacter baumannii D1279779

48.727

93.22

0.454

Multiple sequence alignment