Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   AB8E34_RS15160 Genome accession   NZ_CP165964
Coordinates   3300924..3301796 (-) Length   290 a.a.
NCBI ID   WP_369958748.1    Uniprot ID   -
Organism   Pseudomonas benzenivorans strain jeju3-2     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Genomic Context

Location: 3295924..3306796
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  AB8E34_RS15125 (AB8E34_15085) - 3296233..3297534 (-) 1302 WP_369958743.1 NAD(P)/FAD-dependent oxidoreductase -
  AB8E34_RS15130 (AB8E34_15090) - 3297598..3297771 (-) 174 WP_318643453.1 DUF3094 family protein -
  AB8E34_RS15135 (AB8E34_15095) - 3297852..3298346 (-) 495 WP_369958744.1 MOSC domain-containing protein -
  AB8E34_RS15140 (AB8E34_15100) - 3298343..3298972 (-) 630 WP_318643449.1 DUF1780 domain-containing protein -
  AB8E34_RS15145 (AB8E34_15105) - 3299215..3299898 (+) 684 WP_369958745.1 energy-coupling factor ABC transporter permease -
  AB8E34_RS15150 (AB8E34_15110) yacG 3299958..3300158 (-) 201 WP_369958746.1 DNA gyrase inhibitor YacG -
  AB8E34_RS15155 (AB8E34_15115) coaE 3300155..3300763 (-) 609 WP_369958747.1 dephospho-CoA kinase -
  AB8E34_RS15160 (AB8E34_15120) pilD 3300924..3301796 (-) 873 WP_369958748.1 A24 family peptidase Machinery gene
  AB8E34_RS15165 (AB8E34_15125) pilC 3301800..3303023 (-) 1224 WP_369958749.1 type II secretion system F family protein Machinery gene
  AB8E34_RS15170 (AB8E34_15130) pilB 3303027..3304733 (-) 1707 WP_369958750.1 type IV-A pilus assembly ATPase PilB Machinery gene
  AB8E34_RS15175 (AB8E34_15135) - 3304957..3305065 (+) 109 Protein_2965 prepilin-type N-terminal cleavage/methylation domain-containing protein -
  AB8E34_RS15180 (AB8E34_15140) - 3305652..3305747 (+) 96 Protein_2966 transposase -
  AB8E34_RS15185 (AB8E34_15145) - 3305839..3306234 (+) 396 WP_369958751.1 nucleotidyltransferase domain-containing protein -
  AB8E34_RS15190 (AB8E34_15150) - 3306224..3306658 (+) 435 WP_369958752.1 DUF86 domain-containing protein -

Sequence

Protein


Download         Length: 290 a.a.        Molecular weight: 31927.90 Da        Isoelectric Point: 5.9783

>NTDB_id=1032603 AB8E34_RS15160 WP_369958748.1 3300924..3301796(-) (pilD) [Pseudomonas benzenivorans strain jeju3-2]
MSFVDILAGNMPAFVLCVFLLGLLIGSFLNVVIYRLPKMMQRDWQAQAREILELPDEPAGGTFNLILPHSSCPHCGHEIR
PWENIPLLSYLALRGKCASCKAPISLRYPLVELACGLLSAYVAWHFGFTWQTAGMLLLTWGLLAMSLIDADHQLLPDALV
LPLLWLGLIANAFDLFASLDDALWGAVAGYLSLWSVYWLFKLVTGKEGMGYGDFKLLAMLGAWGGWQVLPLTILLSSLVG
AVLGVIMLRLRNAETSTPIPFGPYLAIAGWIALLWGEQITGTYLQFAGFR

Nucleotide


Download         Length: 873 bp        

>NTDB_id=1032603 AB8E34_RS15160 WP_369958748.1 3300924..3301796(-) (pilD) [Pseudomonas benzenivorans strain jeju3-2]
ATGAGTTTCGTTGACATTCTGGCCGGCAATATGCCGGCCTTTGTTTTGTGCGTTTTTCTGCTCGGCCTGCTGATTGGCAG
CTTCCTCAACGTAGTGATCTATCGCCTGCCGAAGATGATGCAGCGCGACTGGCAGGCCCAGGCGCGGGAGATCCTGGAGC
TGCCGGATGAGCCAGCCGGCGGTACCTTCAACCTGATCCTGCCCCACTCCAGCTGCCCGCACTGCGGCCACGAGATTCGC
CCCTGGGAGAACATCCCGCTGCTGAGCTATCTGGCGCTGCGCGGCAAGTGCGCCAGTTGCAAGGCGCCCATCAGCTTGCG
CTACCCCTTGGTGGAACTGGCCTGCGGCCTGCTGTCGGCCTATGTCGCCTGGCACTTCGGTTTTACCTGGCAGACCGCTG
GGATGCTGCTGCTGACCTGGGGCCTGCTGGCAATGAGCCTGATCGACGCCGACCACCAGCTGCTGCCGGACGCCCTGGTA
TTGCCGCTGCTGTGGCTGGGTCTGATCGCCAACGCCTTCGACCTGTTCGCCAGCCTGGACGATGCCCTGTGGGGCGCCGT
CGCCGGCTACCTGAGCCTGTGGTCGGTGTATTGGTTGTTCAAGCTGGTCACCGGCAAGGAGGGCATGGGCTACGGCGACT
TCAAGCTGCTGGCCATGCTCGGCGCCTGGGGCGGCTGGCAGGTGCTGCCGCTGACCATCCTGCTGTCGTCTCTGGTCGGC
GCAGTGCTCGGAGTGATCATGCTGCGCCTGCGCAATGCCGAGACCAGCACCCCGATCCCTTTCGGCCCCTATCTGGCGAT
AGCCGGCTGGATCGCCCTGCTGTGGGGCGAGCAGATCACCGGCACCTACCTGCAGTTCGCCGGATTCCGCTAA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(137-245)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-126)


Secondary structure

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



3D structure

Source ID Structure

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

58.209

92.414

0.538
  pilD Acinetobacter baumannii D1279779

54.035

98.276

0.531
  pilD Acinetobacter nosocomialis M2

54.035

98.276

0.531
  pilD Vibrio campbellii strain DS40M4

54.945

94.138

0.517
  pilD Neisseria gonorrhoeae MS11

51.724

90

0.466

Multiple sequence alignment