Detailed information    

insolico Bioinformatically predicted

Overview

Name   pilD   Type   Machinery gene
Locus tag   FOB65_RS15180 Genome accession   NZ_CP044074
Coordinates   2954751..2955623 (-) Length   290 a.a.
NCBI ID   WP_150339509.1    Uniprot ID   -
Organism   Pseudomonas oryzihabitans strain FDAARGOS_657     
Function   assembly of type IV pilus (predicted from homology)   
DNA binding and uptake

Related MGE

Note: This gene co-localizes with putative mobile genetic elements (MGEs) in the genome predicted by VRprofile2, as detailed below.

Gene-MGE association summary

MGE type MGE coordinates Gene coordinates Relative position Distance (bp)
Genomic island 2955623..2973026 2954751..2955623 flank 0


Gene organization within MGE regions


Location: 2954751..2973026
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  FOB65_RS15180 (FOB65_15180) pilD 2954751..2955623 (-) 873 WP_150339509.1 A24 family peptidase Machinery gene
  FOB65_RS15185 (FOB65_15185) pilC 2955623..2956840 (-) 1218 WP_027600839.1 type II secretion system F family protein Machinery gene
  FOB65_RS15190 (FOB65_15190) pilB 2957051..2958745 (-) 1695 WP_150339511.1 type IV-A pilus assembly ATPase PilB Machinery gene
  FOB65_RS15195 (FOB65_15195) - 2958958..2959422 (+) 465 WP_150339514.1 pilin -
  FOB65_RS15200 (FOB65_15200) - 2959969..2960967 (-) 999 WP_150339517.1 SDR family oxidoreductase -
  FOB65_RS15210 (FOB65_15210) cyoA 2961740..2962663 (+) 924 WP_007160924.1 ubiquinol oxidase subunit II -
  FOB65_RS15215 (FOB65_15215) cyoB 2962667..2964655 (+) 1989 WP_007160923.1 cytochrome o ubiquinol oxidase subunit I -
  FOB65_RS15220 (FOB65_15220) - 2964660..2965274 (+) 615 WP_027600197.1 cytochrome o ubiquinol oxidase subunit III -
  FOB65_RS15225 (FOB65_15225) cyoD 2965274..2965612 (+) 339 WP_007160921.1 cytochrome o ubiquinol oxidase subunit IV -
  FOB65_RS15230 (FOB65_15230) cyoE 2965624..2966511 (+) 888 WP_223855368.1 heme o synthase -
  FOB65_RS24505 - 2966579..2970496 (-) 3918 WP_223855369.1 pilus assembly protein -
  FOB65_RS15240 (FOB65_15240) - 2970493..2971107 (-) 615 WP_150339519.1 PilX N-terminal domain-containing pilus assembly protein -
  FOB65_RS15245 (FOB65_15245) - 2971104..2971892 (-) 789 WP_150339521.1 PilW family protein -
  FOB65_RS15250 (FOB65_15250) pilV 2971896..2972492 (-) 597 WP_027600847.1 type IV pilus modification protein PilV -
  FOB65_RS15255 (FOB65_15255) - 2972493..2973026 (-) 534 WP_027600848.1 GspH/FimT family pseudopilin -

Sequence

Protein


Download         Length: 290 a.a.        Molecular weight: 31419.46 Da        Isoelectric Point: 8.4838

>NTDB_id=387461 FOB65_RS15180 WP_150339509.1 2954751..2955623(-) (pilD) [Pseudomonas oryzihabitans strain FDAARGOS_657]
MALLEFLAGAPLAAALCALVLGLLVGSFLNVVVYRLPVMLRRAWQAEAREVLELPAEPAGAPFNLARPASRCPHCQRAVR
PWENVPVLSYLLLRGRCKGCQATISLRYPLVELACGLLSAWVIGHLGVTWQGGAFLLLTWGLLAASLIDADHQLLPDVIV
LPLLWLGLIVNQFGLFTNLGDAVWGAVAGYLSLWLVFQLFRLVTGKEGMGYGDFKLLALLGAWGGWQILPLTILLSSLVG
AILGVITLRLRRAESSTPLPFGPYLAVAGWIALLWGDQITGLYLNFAGFR

Nucleotide


Download         Length: 873 bp        

>NTDB_id=387461 FOB65_RS15180 WP_150339509.1 2954751..2955623(-) (pilD) [Pseudomonas oryzihabitans strain FDAARGOS_657]
ATGGCGCTGCTGGAATTTTTGGCCGGCGCACCGCTGGCCGCGGCGCTGTGCGCGCTGGTCCTGGGGCTGCTGGTGGGCAG
CTTTCTCAATGTGGTGGTCTATCGCCTGCCGGTGATGCTGAGGCGGGCTTGGCAGGCGGAGGCGCGTGAAGTACTGGAGC
TGCCGGCCGAGCCGGCAGGCGCCCCCTTCAACCTGGCGCGACCTGCTTCCCGCTGCCCCCACTGCCAGCGCGCCGTAAGG
CCCTGGGAAAACGTGCCGGTGCTGAGTTATCTGCTCTTGCGCGGGCGTTGCAAGGGCTGCCAGGCAACCATCAGCCTGCG
TTACCCGCTGGTGGAGCTGGCTTGTGGACTGCTGTCCGCCTGGGTCATCGGGCATCTGGGCGTGACTTGGCAGGGTGGTG
CCTTCCTGTTGCTGACCTGGGGCTTGCTGGCGGCCAGTCTGATCGATGCCGATCACCAACTGTTGCCGGACGTCATCGTC
CTGCCGCTACTGTGGCTGGGGCTGATCGTCAACCAGTTCGGCCTGTTCACCAATCTGGGTGATGCGGTCTGGGGCGCGGT
GGCGGGGTATCTGAGTCTCTGGCTGGTGTTCCAGCTGTTCCGCCTGGTGACCGGCAAGGAAGGCATGGGCTATGGCGACT
TCAAGCTGCTGGCGCTGCTCGGCGCCTGGGGCGGTTGGCAGATCCTGCCCCTGACCATCCTGCTGTCGTCGCTGGTGGGC
GCCATTCTGGGTGTCATCACCCTGCGGCTGCGGCGGGCGGAAAGCAGCACGCCCTTGCCCTTCGGTCCCTATCTCGCCGT
GGCGGGGTGGATTGCCTTGCTCTGGGGTGATCAAATAACCGGCCTGTACCTGAACTTCGCCGGATTCCGATGA

Domains

Predicted by InterproScan.

Type IV leader peptidase family (Peptidase_A24)

(137-245)

Bacterial Peptidase A24 N-terminal domain (A24_N_bact)

(20-123)


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

50

97.931

0.49
  pilD Acinetobacter baumannii D1279779

51.685

92.069

0.476
  pilD Vibrio campbellii strain DS40M4

48.239

97.931

0.472
  pilD Acinetobacter nosocomialis M2

50.936

92.069

0.469
  pilD Neisseria gonorrhoeae MS11

49.815

93.448

0.466

Multiple sequence alignment