Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   GPJ81_RS04550 Genome accession   NZ_CP046621
Coordinates   951182..952051 (-) Length   289 a.a.
NCBI ID   WP_157191141.1    Uniprot ID   A0A6I6H1K6
Organism   Pseudomonas alkylphenolica strain Neo     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 946182..957051
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  GPJ81_RS04515 (GPJ81_04515) - 946766..946939 (-) 174 WP_038606914.1 DUF3094 family protein -
  GPJ81_RS04520 (GPJ81_04520) - 947108..947737 (-) 630 WP_038606917.1 DUF1780 domain-containing protein -
  GPJ81_RS04525 (GPJ81_04525) - 947797..948828 (-) 1032 WP_157191137.1 MBL fold metallo-hydrolase -
  GPJ81_RS04530 (GPJ81_04530) - 948871..949536 (-) 666 WP_157191138.1 hypothetical protein -
  GPJ81_RS04535 (GPJ81_04535) - 949663..950352 (+) 690 WP_157191139.1 energy-coupling factor ABC transporter permease -
  GPJ81_RS04540 (GPJ81_04540) yacG 950356..950562 (-) 207 WP_038606928.1 DNA gyrase inhibitor YacG -
  GPJ81_RS04545 (GPJ81_04545) coaE 950559..951182 (-) 624 WP_157191140.1 dephospho-CoA kinase -
  GPJ81_RS04550 (GPJ81_04550) pilD 951182..952051 (-) 870 WP_157191141.1 A24 family peptidase Machinery gene
  GPJ81_RS04555 (GPJ81_04555) - 952054..953262 (-) 1209 WP_157191142.1 type II secretion system F family protein -
  GPJ81_RS04560 (GPJ81_04560) - 953483..953911 (+) 429 WP_157191143.1 pilin -

Sequence

Protein


Download         Length: 289 a.a.        Molecular weight: 31785.83 Da        Isoelectric Point: 6.4707

>NTDB_id=406093 GPJ81_RS04550 WP_157191141.1 951182..952051(-) (pilD) [Pseudomonas alkylphenolica strain Neo]
MDLMDTLASQPLLYLSFALLLGLVVGSFLNVLVHRLPIMLQRQWQAEAREVLELPSEPEAERYDLFLPASQCPHCGHRIR
AWENIPVLSYLLLRGRCSSCRSAISARYPLVELGCAALTVFVAWYLGATTAALALMLFSWGLLAMSLIDIEHRLLPDALV
LPLLWLGLIVNAFELFVPLSDALWGAVAGYLSLWSVFWLFKIITGKEGMGYGDFKLLALIGAWGGWQILPLTLLLSSVLG
AVIGLIMLRAKGQQTSTPIPFGPYLAIAGWIALLWGGQITTSYLNLSGM

Nucleotide


Download         Length: 870 bp        

>NTDB_id=406093 GPJ81_RS04550 WP_157191141.1 951182..952051(-) (pilD) [Pseudomonas alkylphenolica strain Neo]
ATGGACCTGATGGATACGCTGGCCAGCCAGCCGCTGCTATACCTGAGCTTTGCCCTGCTCCTGGGGCTGGTCGTCGGCAG
TTTTCTCAATGTGCTGGTGCACCGCCTGCCGATCATGCTGCAACGCCAGTGGCAGGCTGAAGCGCGGGAGGTGCTCGAGC
TGCCCAGCGAGCCTGAAGCCGAGCGTTACGATCTGTTCTTGCCCGCATCACAGTGTCCGCACTGCGGGCATCGCATTCGC
GCCTGGGAAAACATTCCGGTTTTGAGCTACCTGCTGCTGCGCGGACGCTGCAGCAGTTGCCGCAGCGCCATCAGTGCCCG
TTATCCGCTGGTAGAGCTGGGCTGCGCGGCCCTGACGGTGTTTGTCGCCTGGTATCTGGGGGCAACTACCGCTGCGCTGG
CCCTGATGCTGTTCAGTTGGGGACTGCTGGCCATGAGCCTGATCGACATCGAGCACCGGCTGTTGCCCGATGCTTTGGTG
TTGCCGCTGTTGTGGCTGGGACTGATCGTCAACGCTTTCGAGCTGTTCGTGCCCTTGTCAGATGCTCTGTGGGGCGCCGT
CGCAGGTTATTTGAGCCTGTGGTCGGTGTTCTGGCTGTTCAAGATCATCACCGGTAAAGAGGGCATGGGTTACGGCGATT
TCAAGCTACTGGCGCTGATCGGTGCCTGGGGTGGCTGGCAGATCCTGCCGCTGACCCTGCTGCTGTCGTCGGTACTTGGT
GCGGTGATCGGGCTGATCATGCTGCGTGCCAAAGGCCAGCAAACCAGCACGCCGATCCCCTTTGGTCCCTATCTGGCCAT
CGCGGGCTGGATCGCACTGCTCTGGGGTGGTCAAATAACCACTTCTTACCTGAACCTTTCTGGAATGTGA

Domains

Predicted by InterproScan.

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-125)

Type IV leader peptidase family (Peptidase_A24)

(136-245)


Secondary structure

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



3D structure

Source ID Structure
  AlphaFold DB A0A6I6H1K6

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

52.632

98.616

0.519
  pilD Vibrio campbellii strain DS40M4

50

98.27

0.491
  pilD Acinetobacter baumannii D1279779

48.54

94.81

0.46
  pilD Acinetobacter nosocomialis M2

47.81

94.81

0.453
  pilD Neisseria gonorrhoeae MS11

47.843

88.235

0.422

Multiple sequence alignment