Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   C0099_RS04420 Genome accession   NZ_CP025682
Coordinates   919969..920820 (-) Length   283 a.a.
NCBI ID   WP_102248379.1    Uniprot ID   A0A2I6SAQ5
Organism   Pseudazoarcus pumilus strain SY39     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 914969..925820
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  C0099_RS04395 (C0099_04395) - 915150..915575 (-) 426 WP_102246319.1 barstar family protein -
  C0099_RS04400 (C0099_04400) - 915572..915964 (-) 393 WP_408634117.1 ribonuclease domain-containing protein -
  C0099_RS04405 (C0099_04405) - 915961..917634 (-) 1674 WP_102246320.1 response regulator -
  C0099_RS04410 (C0099_04410) aspS 917728..919527 (-) 1800 WP_102246321.1 aspartate--tRNA ligase -
  C0099_RS04415 (C0099_04415) - 919595..919876 (-) 282 WP_102246322.1 FmdB family zinc ribbon protein -
  C0099_RS04420 (C0099_04420) pilD 919969..920820 (-) 852 WP_102248379.1 A24 family peptidase Machinery gene
  C0099_RS04425 (C0099_04425) pilC 920867..922102 (-) 1236 WP_102246323.1 type II secretion system F family protein Machinery gene
  C0099_RS04430 (C0099_04430) pilB 922120..923835 (-) 1716 WP_102246324.1 type IV-A pilus assembly ATPase PilB Machinery gene
  C0099_RS04435 (C0099_04435) - 923924..925219 (-) 1296 WP_102246325.1 HlyC/CorC family transporter -

Sequence

Protein


Download         Length: 283 a.a.        Molecular weight: 30438.10 Da        Isoelectric Point: 7.7087

>NTDB_id=263218 C0099_RS04420 WP_102248379.1 919969..920820(-) (pilD) [Pseudazoarcus pumilus strain SY39]
MPDLFRDPFALSALCVLLGLFVGSFLNVVIHRLPRMMEREWEAQAAELRGEPTPAASRYNLAVPRSSCPHCGHRIGAFEN
IPLISYVVLRGRCGHCSAPIGRRYPVVELLTGLISGYAAVHFGASLALAGALVFVWAMIALAFIDADTQLLPDQITLPLL
WLGLLMNLGATYVPLADAVIGAMAGYLSLWSVFWLFKLVTGKEGMGYGDFKLLAAIGAWLGWQMLPLVILFSSLVGAVTG
IALIVLARHGRNVPIPFGPYLAAAGVLALFWGEGITQAYLGGF

Nucleotide


Download         Length: 852 bp        

>NTDB_id=263218 C0099_RS04420 WP_102248379.1 919969..920820(-) (pilD) [Pseudazoarcus pumilus strain SY39]
ATGCCCGACCTTTTCCGAGACCCCTTCGCCCTGTCCGCGCTGTGCGTGCTGCTGGGCCTGTTCGTCGGCAGCTTTCTCAA
CGTCGTGATCCACCGCCTGCCGCGCATGATGGAGCGCGAGTGGGAAGCCCAGGCGGCCGAGCTGCGCGGCGAGCCGACAC
CGGCGGCATCGCGCTACAACCTCGCCGTACCGCGTTCGTCGTGTCCGCACTGCGGCCATCGCATCGGCGCCTTCGAGAAC
ATCCCGCTGATCAGCTATGTGGTGCTGCGCGGACGTTGCGGGCACTGCAGCGCGCCCATCGGACGACGCTACCCGGTGGT
CGAGCTGCTCACCGGGCTGATCAGCGGCTACGCCGCGGTGCACTTCGGCGCGAGCCTGGCGCTGGCCGGTGCGCTGGTAT
TCGTATGGGCGATGATCGCGCTGGCCTTCATCGATGCGGACACCCAGCTGCTGCCCGACCAGATCACGCTGCCGCTGCTG
TGGCTGGGCCTGCTGATGAATCTGGGCGCGACCTACGTCCCGCTGGCCGACGCGGTGATCGGCGCGATGGCCGGCTATCT
GTCGCTTTGGTCGGTGTTCTGGCTGTTCAAGCTGGTCACCGGCAAGGAGGGCATGGGTTACGGGGACTTCAAGCTGCTCG
CCGCCATCGGCGCGTGGCTGGGCTGGCAGATGCTGCCGCTGGTCATTCTGTTCTCGTCGCTGGTGGGCGCAGTGACCGGC
ATCGCGCTGATCGTGCTCGCGCGCCACGGGCGCAACGTACCCATTCCCTTCGGCCCCTATCTGGCCGCGGCGGGCGTGCT
CGCCCTGTTCTGGGGCGAGGGCATCACGCAGGCCTACCTCGGCGGATTCTGA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(17-122)

Type IV leader peptidase family (Peptidase_A24)

(132-241)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB A0A2I6SAQ5

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

55.797

97.527

0.544
  pilD Vibrio campbellii strain DS40M4

53.986

97.527

0.527
  pilD Acinetobacter nosocomialis M2

51.636

97.173

0.502
  pilD Acinetobacter baumannii D1279779

51.273

97.173

0.498
  pilD Neisseria gonorrhoeae MS11

50.746

94.7

0.481

Multiple sequence alignment