Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   E2H98_RS04820 Genome accession   NZ_CP037953
Coordinates   1046519..1047412 (+) Length   297 a.a.
NCBI ID   WP_133593125.1    Uniprot ID   A0A4R6UI28
Organism   Permianibacter aggregans strain HW001     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 1041519..1052412
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  E2H98_RS04800 (E2H98_04790) - 1041589..1042311 (-) 723 WP_133593133.1 hypothetical protein -
  E2H98_RS04805 (E2H98_04795) - 1042723..1043190 (+) 468 WP_133593131.1 pilin -
  E2H98_RS04810 (E2H98_04800) pilB 1043288..1045000 (+) 1713 WP_133593129.1 type IV-A pilus assembly ATPase PilB Machinery gene
  E2H98_RS04815 (E2H98_04805) pilC 1045233..1046516 (+) 1284 WP_133593127.1 type II secretion system F family protein Machinery gene
  E2H98_RS04820 (E2H98_04810) pilD 1046519..1047412 (+) 894 WP_133593125.1 A24 family peptidase Machinery gene
  E2H98_RS04825 (E2H98_04815) coaE 1047423..1048031 (+) 609 WP_133593123.1 dephospho-CoA kinase -
  E2H98_RS04830 (E2H98_04820) - 1048028..1048777 (+) 750 WP_133593121.1 cell division protein ZapD -
  E2H98_RS04835 (E2H98_04825) yacG 1048793..1048987 (+) 195 WP_133593119.1 DNA gyrase inhibitor YacG -
  E2H98_RS04840 (E2H98_04830) - 1049015..1050016 (-) 1002 WP_133593117.1 Nudix family hydrolase -

Sequence

Protein


Download         Length: 297 a.a.        Molecular weight: 32460.39 Da        Isoelectric Point: 8.7324

>NTDB_id=350937 E2H98_RS04820 WP_133593125.1 1046519..1047412(+) (pilD) [Permianibacter aggregans strain HW001]
MIFADLFNGDRMYFSIAVAVFGAILGSFLNVVIYRLPKILHRQWIGDATELLTEEGLKVSGSAKQKVADDFGLVLPRSAC
PHCQTPIPAWHNIPIISYLLLRGKCSHCKARISVRYPLVELLTALAFGFSAWQFGFDYLTFGALVFTGLLIAMSGIDWDQ
KLLPDQLTYSLLWAGLLFNINNGFVPLPAAIIGAVAGYLSLWSVYWAFKILTGKEGMGYGDFKLLAALGAWLGWQQLPLI
IILSAVAGLVIGGGMMLLSKDKDRQIPFGPYLAIAGWVSMFFGPNIVGAYLRASGLS

Nucleotide


Download         Length: 894 bp        

>NTDB_id=350937 E2H98_RS04820 WP_133593125.1 1046519..1047412(+) (pilD) [Permianibacter aggregans strain HW001]
ATGATTTTTGCCGATCTATTCAACGGCGATCGAATGTATTTCTCGATCGCCGTTGCTGTTTTTGGAGCTATTCTTGGTAG
CTTTCTGAATGTCGTTATTTATCGGCTGCCGAAGATTTTGCATCGGCAGTGGATTGGTGATGCCACCGAGTTGCTGACGG
AAGAGGGATTAAAGGTCAGTGGTAGTGCGAAACAGAAAGTGGCGGATGATTTTGGTTTGGTATTGCCTCGCTCGGCTTGC
CCACATTGCCAGACACCGATTCCGGCTTGGCACAATATTCCGATTATCAGTTACCTGCTTCTTCGCGGAAAGTGTTCGCA
TTGCAAAGCACGGATCAGCGTTCGTTATCCGTTGGTTGAGTTGCTGACGGCATTGGCGTTTGGTTTTTCAGCCTGGCAAT
TTGGTTTTGATTATCTGACGTTTGGCGCACTGGTTTTCACTGGCCTTTTGATTGCCATGTCGGGAATAGACTGGGACCAG
AAACTACTGCCGGATCAGTTGACCTATTCGCTACTTTGGGCGGGCTTGCTGTTCAATATCAATAATGGTTTCGTGCCGCT
TCCTGCTGCGATCATCGGAGCTGTCGCCGGTTACTTAAGTCTGTGGTCGGTGTATTGGGCGTTCAAGATCCTGACCGGTA
AAGAAGGCATGGGTTATGGCGATTTCAAGCTGCTGGCCGCCTTGGGTGCCTGGCTGGGTTGGCAGCAATTACCGTTGATC
ATTATCCTTTCTGCCGTTGCCGGTTTGGTCATTGGCGGTGGCATGATGTTGCTGAGCAAGGACAAGGATCGCCAGATTCC
GTTTGGCCCTTATCTGGCGATTGCTGGCTGGGTCAGCATGTTTTTTGGACCGAATATTGTTGGCGCCTATTTGCGCGCAT
CGGGACTAAGTTAA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(144-252)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-134)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A0A4R6UI28

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

53.265

97.98

0.522
  pilD Vibrio campbellii strain DS40M4

51.546

97.98

0.505
  pilD Acinetobacter baumannii D1279779

47.842

93.603

0.448
  pilD Acinetobacter nosocomialis M2

47.122

93.603

0.441
  pilD Neisseria gonorrhoeae MS11

49.615

87.542

0.434

Multiple sequence alignment