Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   EJN92_RS13620 Genome accession   NZ_CP034464
Coordinates   3110607..3111473 (-) Length   288 a.a.
NCBI ID   WP_126128332.1    Uniprot ID   A0A3Q9BRQ4
Organism   Undibacterium parvum strain DSM 23061     
Function   type IV pilus biogenesis and function (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3105607..3116473
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  EJN92_RS13595 (EJN92_13595) - 3106720..3107319 (+) 600 WP_126128327.1 hypothetical protein -
  EJN92_RS13600 (EJN92_13600) - 3107335..3108894 (+) 1560 WP_126128328.1 sigma-54-dependent transcriptional regulator -
  EJN92_RS13605 (EJN92_13605) yacG 3108925..3109116 (-) 192 WP_126128329.1 DNA gyrase inhibitor YacG -
  EJN92_RS13610 (EJN92_13610) zapD 3109148..3109903 (-) 756 WP_126128330.1 cell division protein ZapD -
  EJN92_RS13615 (EJN92_13615) coaE 3109999..3110607 (-) 609 WP_126128331.1 dephospho-CoA kinase -
  EJN92_RS13620 (EJN92_13620) pilD 3110607..3111473 (-) 867 WP_126128332.1 A24 family peptidase Machinery gene
  EJN92_RS13625 (EJN92_13625) pilC 3111473..3112705 (-) 1233 WP_126128333.1 type II secretion system F family protein Machinery gene
  EJN92_RS13630 (EJN92_13630) pilB 3112724..3114454 (-) 1731 WP_126128334.1 type IV-A pilus assembly ATPase PilB Machinery gene
  EJN92_RS13635 (EJN92_13635) ispB 3115439..3116419 (-) 981 WP_227869540.1 octaprenyl diphosphate synthase -

Sequence

Protein


Download         Length: 288 a.a.        Molecular weight: 31308.25 Da        Isoelectric Point: 8.1115

>NTDB_id=331493 EJN92_RS13620 WP_126128332.1 3110607..3111473(-) (pilD) [Undibacterium parvum strain DSM 23061]
MQDVFLFAAPGNLLATAFTAMIGLLIGSFLNVVIHRIPKMMQRESDNYVAIESGKELVHTDTYNLMLPRSACPHCGHQIT
ALENIPVLSYLFIRGKCTGCKAPISPRYPLVELLTGALSGYMVWRFGSGLVGMGAVFFVWLLIAMTFIDADTQLLPDDLT
YLLLWSGLLINLNGSFTSLSSAVIGAAAGYLSLWSIYWLFKLATGKEGMGYGDFKLLAALGAWMGWSMLPIIILLSSLVG
ALVGISLMLFTKMSKNKPIPFGPYLAAAGLIALIWGQQLSQTYFGLMA

Nucleotide


Download         Length: 867 bp        

>NTDB_id=331493 EJN92_RS13620 WP_126128332.1 3110607..3111473(-) (pilD) [Undibacterium parvum strain DSM 23061]
ATGCAAGATGTATTTTTATTTGCAGCGCCAGGAAATCTCCTGGCGACTGCTTTCACCGCGATGATTGGCTTGCTTATTGG
TAGTTTTTTAAATGTAGTCATACATAGAATTCCCAAAATGATGCAAAGGGAATCGGATAACTATGTGGCGATAGAAAGCG
GTAAAGAACTGGTACATACGGATACCTACAATCTGATGTTGCCGCGCTCTGCTTGTCCGCATTGCGGCCATCAAATTACC
GCGCTGGAAAACATTCCGGTACTCAGCTATCTATTCATTCGAGGAAAATGCACAGGATGTAAAGCCCCTATTTCCCCTCG
CTATCCGCTGGTGGAACTACTGACCGGTGCTTTATCTGGCTACATGGTCTGGCGTTTTGGTAGTGGCTTAGTCGGCATGG
GGGCAGTGTTTTTTGTCTGGCTACTGATAGCAATGACTTTCATCGATGCCGATACTCAATTATTACCGGATGATTTGACC
TATCTCTTATTATGGTCTGGACTACTCATCAATCTGAATGGCAGCTTCACTTCGCTATCTAGTGCAGTTATCGGTGCGGC
GGCGGGCTATCTTTCCCTATGGTCGATTTACTGGTTGTTTAAATTAGCGACGGGTAAAGAAGGTATGGGTTACGGTGATT
TTAAGCTGCTGGCGGCGCTTGGTGCCTGGATGGGCTGGAGTATGCTTCCCATTATCATATTATTGTCCTCATTAGTCGGT
GCGCTAGTCGGCATTTCATTAATGCTATTCACCAAAATGAGTAAGAATAAACCTATACCTTTTGGTCCCTATTTAGCGGC
CGCTGGCTTGATTGCTCTAATATGGGGGCAACAATTGTCGCAAACCTATTTTGGTTTGATGGCCTGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(137-245)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(22-126)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A0A3Q9BRQ4

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 campbellii strain DS40M4

54.122

96.875

0.524
  pilD Vibrio cholerae strain A1552

55.431

92.708

0.514
  pilD Acinetobacter baumannii D1279779

47.387

99.653

0.472
  pilD Acinetobacter nosocomialis M2

46.69

99.653

0.465
  pilD Neisseria gonorrhoeae MS11

49.035

89.931

0.441

Multiple sequence alignment