Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   CJ010_RS19960 Genome accession   NZ_CP022958
Coordinates   4328855..4329706 (+) Length   283 a.a.
NCBI ID   WP_141019673.1    Uniprot ID   A0A4Y6KW43
Organism   Azoarcus sp. DD4     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 4323855..4334706
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  CJ010_RS19945 (CJ010_19890) - 4324913..4325740 (+) 828 WP_141020791.1 inner membrane protein YpjD -
  CJ010_RS19950 (CJ010_19895) pilB 4325834..4327549 (+) 1716 WP_141019671.1 type IV-A pilus assembly ATPase PilB Machinery gene
  CJ010_RS19955 (CJ010_19900) pilC 4327573..4328808 (+) 1236 WP_141019672.1 type II secretion system F family protein Machinery gene
  CJ010_RS19960 (CJ010_19905) pilD 4328855..4329706 (+) 852 WP_141019673.1 A24 family peptidase Machinery gene
  CJ010_RS19965 (CJ010_19910) - 4329863..4330123 (+) 261 WP_141019674.1 FmdB family zinc ribbon protein -
  CJ010_RS19970 (CJ010_19915) - 4330136..4330762 (+) 627 WP_141019675.1 DUF502 domain-containing protein -
  CJ010_RS19975 (CJ010_19920) aspS 4330822..4332621 (+) 1800 WP_141019676.1 aspartate--tRNA ligase -
  CJ010_RS19980 (CJ010_19925) - 4332805..4334457 (+) 1653 WP_141019677.1 tetratricopeptide repeat-containing response regulator -

Sequence

Protein


Download         Length: 283 a.a.        Molecular weight: 30747.47 Da        Isoelectric Point: 8.3484

>NTDB_id=243724 CJ010_RS19960 WP_141019673.1 4328855..4329706(+) (pilD) [Azoarcus sp. DD4]
MPDYLRDPVAFCTLAALLGLFVGSFLNVVIHRLPRMMEREWHAQAAELRGDPIPEQERFNLATPRSRCPHCGHLIGAIEN
IPVVSYLVLRGRCRHCGASIGSRYPIIEGLSAALSGYVAWHFGFSVAAIGALLFLWTMIALAFIDLDTQLLPDQLTLPLL
WLGLAFNLGSTFSALPSAVIGAMAGYLSLWSVFWLFKLATGKEGMGYGDFKLLGAIGAWLGWKMLPLTILLSSLVGAIVG
IALILLARHGRNVPIPFGPYLAVAGIVAMLWGDRITAQYLGAF

Nucleotide


Download         Length: 852 bp        

>NTDB_id=243724 CJ010_RS19960 WP_141019673.1 4328855..4329706(+) (pilD) [Azoarcus sp. DD4]
ATGCCCGACTACCTCCGCGACCCGGTCGCCTTCTGTACGCTTGCAGCCCTTCTCGGGCTTTTTGTCGGCAGCTTCCTCAA
TGTCGTCATCCATCGCCTGCCCAGGATGATGGAGCGCGAATGGCATGCCCAGGCTGCCGAATTGCGTGGAGACCCCATAC
CCGAACAGGAGCGCTTCAACCTCGCTACGCCGCGTTCGCGCTGCCCGCATTGCGGCCACCTGATCGGAGCGATCGAGAAT
ATCCCGGTGGTGAGCTACCTCGTGCTGCGTGGCCGCTGCCGCCACTGCGGAGCCTCCATCGGCAGCCGCTACCCCATCAT
CGAGGGCTTGAGTGCAGCCCTCTCCGGCTACGTCGCCTGGCACTTCGGTTTCAGCGTCGCCGCCATCGGTGCCTTGCTGT
TCCTGTGGACGATGATCGCGCTGGCCTTTATCGATCTCGACACCCAGTTGTTGCCGGATCAACTCACACTTCCCCTCCTG
TGGCTCGGACTGGCCTTCAACCTAGGCTCAACCTTCTCCGCACTGCCGTCGGCTGTCATTGGCGCAATGGCGGGCTATCT
GTCGCTATGGTCGGTCTTTTGGCTGTTCAAGCTCGCAACCGGCAAGGAAGGCATGGGCTATGGCGACTTCAAGCTGCTCG
GTGCAATTGGCGCCTGGCTGGGCTGGAAGATGCTGCCGCTCACCATCCTGCTGTCATCCCTGGTCGGAGCCATCGTCGGG
ATCGCACTGATACTGCTTGCCCGCCATGGCCGCAACGTACCCATTCCCTTCGGCCCGTATCTGGCGGTAGCCGGTATTGT
GGCCATGCTTTGGGGCGACAGGATCACCGCACAGTACCTCGGCGCCTTCTGA

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
  AlphaFold DB A0A4Y6KW43

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

56.522

97.527

0.551
  pilD Vibrio campbellii strain DS40M4

53.333

100

0.537
  pilD Acinetobacter baumannii D1279779

51.071

98.94

0.505
  pilD Acinetobacter nosocomialis M2

50.714

98.94

0.502
  pilD Neisseria gonorrhoeae MS11

51.136

93.286

0.477

Multiple sequence alignment