Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   AzCIB_RS18195 Genome accession   NZ_CP011072
Coordinates   4066022..4066873 (+) Length   283 a.a.
NCBI ID   WP_050417190.1    Uniprot ID   -
Organism   Azoarcus sp. CIB     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4061022..4071873
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AzCIB_RS18180 (AzCIB_3637) ccsA 4062073..4062900 (+) 828 WP_050417188.1 cytochrome c biogenesis protein CcsA -
  AzCIB_RS18185 (AzCIB_3638) pilB 4063004..4064719 (+) 1716 WP_050417189.1 type IV-A pilus assembly ATPase PilB Machinery gene
  AzCIB_RS18190 (AzCIB_3639) - 4064736..4065967 (+) 1232 Protein_3666 type II secretion system F family protein -
  AzCIB_RS18195 (AzCIB_3641) pilD 4066022..4066873 (+) 852 WP_050417190.1 A24 family peptidase Machinery gene
  AzCIB_RS18200 (AzCIB_3642) - 4067000..4067263 (+) 264 WP_050417191.1 zinc ribbon domain-containing protein -
  AzCIB_RS18205 (AzCIB_3643) - 4067279..4067905 (+) 627 WP_050417192.1 DUF502 domain-containing protein -
  AzCIB_RS18210 (AzCIB_3644) aspS 4067951..4069750 (+) 1800 WP_050417193.1 aspartate--tRNA ligase -
  AzCIB_RS18215 (AzCIB_3645) - 4069928..4071550 (+) 1623 WP_050417194.1 response regulator -

Sequence

Protein


Download         Length: 283 a.a.        Molecular weight: 31033.57 Da        Isoelectric Point: 7.1458

>NTDB_id=142032 AzCIB_RS18195 WP_050417190.1 4066022..4066873(+) (pilD) [Azoarcus sp. CIB]
MPDFLSDPIVFTFLATLLGLFVGSFLNVVIHRLPQMMEREWHAQAAELRNEPPPQQDTFNLATPRSRCPHCGHMITALEN
IPVVSYLMLRGRCRHCSAHISRRYPVVEMLTAVLSGYAAWHFGFGLAALGALAFVWTMIALAFIDLDTQLLPDSLTLPLL
WLGLALNLGGTYSDISASVIGAMAGYLALWSVYWLFKLATGKEGMGYGDFKLLAAIGAWLGWQMLPLTILFSSLVGAAVG
ISLIVFARHGRNVPIPFGPYLAAAGVLAMFWGQTLTELYLGNF

Nucleotide


Download         Length: 852 bp        

>NTDB_id=142032 AzCIB_RS18195 WP_050417190.1 4066022..4066873(+) (pilD) [Azoarcus sp. CIB]
ATGCCCGATTTCCTCAGCGACCCGATCGTCTTCACCTTCCTCGCAACGCTTCTCGGCCTTTTCGTCGGCAGTTTCCTGAA
TGTCGTGATCCATCGCCTGCCGCAGATGATGGAGCGCGAATGGCATGCGCAGGCCGCGGAACTGCGCAACGAGCCGCCCC
CGCAGCAGGACACATTCAACCTCGCCACCCCGCGCTCGCGCTGCCCGCACTGCGGGCACATGATCACGGCGCTCGAGAAC
ATCCCGGTCGTCAGCTACCTGATGCTGCGGGGGCGCTGCCGCCATTGCAGCGCGCACATCAGCCGCCGCTATCCCGTCGT
CGAGATGCTGACGGCCGTCCTGTCGGGCTACGCCGCCTGGCATTTCGGTTTCGGCCTTGCTGCACTCGGCGCCCTGGCCT
TCGTGTGGACGATGATCGCGCTCGCCTTCATCGACCTCGACACCCAGCTTCTGCCCGACAGCCTGACGCTGCCCCTGCTG
TGGCTGGGACTCGCGCTCAACCTCGGCGGCACTTACTCGGACATTTCGGCGAGCGTGATCGGCGCGATGGCCGGCTACCT
TGCGCTGTGGTCGGTGTATTGGCTCTTCAAGCTCGCGACCGGCAAGGAAGGCATGGGCTATGGCGACTTCAAGCTGCTTG
CCGCCATTGGGGCGTGGCTGGGATGGCAGATGCTGCCACTGACGATCCTGTTCTCGTCGCTGGTGGGTGCAGCGGTCGGC
ATCAGCCTGATCGTGTTTGCGCGCCACGGCCGCAACGTCCCCATCCCCTTCGGCCCCTATCTCGCAGCGGCGGGCGTGCT
GGCGATGTTCTGGGGGCAGACCCTGACGGAACTCTACCTCGGCAACTTCTGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(133-241)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(17-122)


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

55.674

99.647

0.555
  pilD Vibrio campbellii strain DS40M4

53.31

100

0.541
  pilD Acinetobacter baumannii D1279779

47.5

98.94

0.47
  pilD Acinetobacter nosocomialis M2

47.143

98.94

0.466
  pilD Neisseria gonorrhoeae MS11

51.181

89.753

0.459

Multiple sequence alignment