Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   AKN87_RS10155 Genome accession   NZ_CP012358
Coordinates   2088492..2089388 (+) Length   298 a.a.
NCBI ID   WP_053103343.1    Uniprot ID   -
Organism   Thiopseudomonas alkaliphila strain B4199     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 2083492..2094388
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AKN87_RS10130 (AKN87_10135) - 2083611..2084027 (+) 417 WP_053103338.1 PACE efflux transporter -
  AKN87_RS10135 (AKN87_10140) elbB 2084070..2084723 (+) 654 WP_053103339.1 isoprenoid biosynthesis glyoxalase ElbB -
  AKN87_RS10140 (AKN87_10145) - 2084794..2085303 (-) 510 WP_053103340.1 pilin -
  AKN87_RS10145 (AKN87_10150) pilB 2085574..2087265 (+) 1692 WP_053103341.1 type IV-A pilus assembly ATPase PilB Machinery gene
  AKN87_RS10150 (AKN87_10155) pilC 2087271..2088488 (+) 1218 WP_053103342.1 type II secretion system F family protein Machinery gene
  AKN87_RS10155 (AKN87_10160) pilD 2088492..2089388 (+) 897 WP_053103343.1 A24 family peptidase Machinery gene
  AKN87_RS10160 (AKN87_10165) - 2089820..2090809 (-) 990 WP_053103344.1 hypothetical protein -
  AKN87_RS10165 (AKN87_10170) - 2090980..2092191 (-) 1212 WP_053103345.1 NAD(P)/FAD-dependent oxidoreductase -
  AKN87_RS10170 (AKN87_10175) - 2092188..2092646 (-) 459 WP_053103346.1 YiiD C-terminal domain-containing protein -

Sequence

Protein


Download         Length: 298 a.a.        Molecular weight: 32741.30 Da        Isoelectric Point: 7.1636

>NTDB_id=153742 AKN87_RS10155 WP_053103343.1 2088492..2089388(+) (pilD) [Thiopseudomonas alkaliphila strain B4199]
MNDWVMVLEQPAVFITCALVLGLLVGSFLNVLVYRLPKMLQADWQQQAKEILAEAQPETAVIPELDSAKPRFNLLVPRSA
CPHCQHVIKPWENIPLLSWLALKGKCSGCQQAISKRYPFVELASGILSAVVAWKLGFGLPAMAMLLLTWGLLAMSLIDAD
HQLLPDILVLPLLWLGLLLNTQAMFVSLSDAVLGAAIGYLSLWSIYWLFKLIMGKEGMGYGDFKLLAMLGAWGGWQVLPL
TILLSSLVGAVLGIIILRLQKEGMEKPIPYGPYLAFAGWIALLWGNQITQAYLGFAGL

Nucleotide


Download         Length: 897 bp        

>NTDB_id=153742 AKN87_RS10155 WP_053103343.1 2088492..2089388(+) (pilD) [Thiopseudomonas alkaliphila strain B4199]
ATGAATGATTGGGTAATGGTATTAGAGCAGCCTGCAGTATTTATCACCTGCGCCTTGGTGCTGGGGCTGTTGGTAGGCAG
CTTTTTAAATGTGCTGGTGTATCGTCTGCCAAAAATGCTGCAGGCCGACTGGCAACAACAAGCCAAAGAGATTCTAGCCG
AAGCCCAGCCAGAAACGGCCGTAATCCCAGAGCTTGATTCCGCGAAACCACGTTTTAACTTATTGGTACCACGCTCAGCC
TGTCCCCATTGCCAGCATGTGATTAAGCCATGGGAGAATATTCCACTGCTTAGCTGGCTGGCGCTTAAAGGCAAGTGCTC
GGGTTGCCAGCAAGCCATTAGTAAACGCTACCCATTTGTGGAACTGGCCAGCGGCATTTTATCGGCAGTGGTGGCCTGGA
AACTTGGCTTTGGCCTACCGGCTATGGCTATGTTGCTGTTGACCTGGGGGCTACTGGCGATGAGCCTGATTGATGCCGAT
CACCAACTGCTGCCCGATATTTTAGTGCTGCCGCTGCTTTGGCTGGGCTTACTGCTCAATACCCAAGCGATGTTTGTCAG
CTTAAGTGATGCGGTATTGGGAGCTGCTATCGGTTATCTAAGCCTGTGGAGTATTTACTGGCTATTTAAGCTGATTATGG
GCAAAGAAGGCATGGGCTACGGTGATTTTAAGCTGCTGGCGATGCTGGGCGCTTGGGGCGGCTGGCAAGTCTTACCGCTA
ACAATTTTGCTGTCTTCGTTAGTAGGCGCAGTTTTGGGTATTATTATTTTGCGCTTACAAAAAGAAGGCATGGAAAAACC
CATTCCCTACGGCCCTTACCTCGCTTTCGCCGGCTGGATCGCCTTACTCTGGGGCAACCAAATCACCCAAGCTTATTTAG
GGTTTGCGGGGCTCTGA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-134)

Type IV leader peptidase family (Peptidase_A24)

(146-254)


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

53.521

95.302

0.51
  pilD Vibrio campbellii strain DS40M4

51.056

95.302

0.487
  pilD Acinetobacter baumannii D1279779

50.53

94.966

0.48
  pilD Acinetobacter nosocomialis M2

50.177

94.966

0.477
  pilD Neisseria gonorrhoeae MS11

46.35

91.946

0.426

Multiple sequence alignment