Detailed information    

insolico Bioinformatically predicted

Overview

Name   comP   Type   Machinery gene
Locus tag   PM1_RS25505 Genome accession   NZ_CP094343
Coordinates   5771276..5771680 (-) Length   134 a.a.
NCBI ID   WP_009617631.1    Uniprot ID   -
Organism   Pseudomonas sp. M1     
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 5763639..5777553 5771276..5771680 within 0


Gene organization within MGE regions


Location: 5763639..5777553
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  PM1_RS25455 (MRY70_25455) - 5763639..5763890 (+) 252 WP_009617650.1 helix-turn-helix domain-containing protein -
  PM1_RS25460 (MRY70_25460) - 5763890..5765086 (+) 1197 WP_009617648.1 type II toxin-antitoxin system HipA family toxin -
  PM1_RS25465 (MRY70_25465) - 5765274..5765501 (-) 228 WP_009617646.1 DUF433 domain-containing protein -
  PM1_RS25470 (MRY70_25470) - 5765567..5765908 (-) 342 WP_009617644.1 type II toxin-antitoxin system HicB family antitoxin -
  PM1_RS25475 (MRY70_25475) - 5765905..5766156 (-) 252 WP_009617642.1 type II toxin-antitoxin system HicA family toxin -
  PM1_RS25480 (MRY70_25480) - 5766260..5766406 (+) 147 WP_024128154.1 hypothetical protein -
  PM1_RS25485 (MRY70_25485) - 5766403..5767476 (-) 1074 WP_009617639.1 diguanylate cyclase -
  PM1_RS25495 (MRY70_25495) - 5767752..5769305 (-) 1554 WP_009617637.1 O-antigen ligase family protein -
  PM1_RS25500 (MRY70_25500) - 5769319..5771154 (-) 1836 WP_161788510.1 sulfatase-like hydrolase/transferase -
  PM1_RS25505 (MRY70_25505) comP 5771276..5771680 (-) 405 WP_009617631.1 pilin Machinery gene
  PM1_RS25510 (MRY70_25510) pilB 5771909..5773612 (+) 1704 WP_009617629.1 type IV-A pilus assembly ATPase PilB Machinery gene
  PM1_RS25515 (MRY70_25515) pilC 5773616..5774833 (+) 1218 WP_009617627.1 type II secretion system F family protein Machinery gene
  PM1_RS25520 (MRY70_25520) pilD 5774836..5775708 (+) 873 WP_009617626.1 A24 family peptidase Machinery gene
  PM1_RS25525 (MRY70_25525) coaE 5775782..5776390 (+) 609 WP_009617624.1 dephospho-CoA kinase -
  PM1_RS25530 (MRY70_25530) yacG 5776387..5776596 (+) 210 WP_009617622.1 DNA gyrase inhibitor YacG -
  PM1_RS25535 (MRY70_25535) - 5776862..5777056 (+) 195 WP_009617620.1 hypothetical protein -
  PM1_RS25540 (MRY70_25540) - 5777056..5777331 (+) 276 WP_024128153.1 type II toxin-antitoxin system mRNA interferase toxin, RelE/StbE family -
  PM1_RS25545 (MRY70_25545) - 5777338..5777553 (-) 216 WP_009617618.1 hypothetical protein -

Sequence

Protein


Download         Length: 134 a.a.        Molecular weight: 13927.00 Da        Isoelectric Point: 8.1170

>NTDB_id=669099 PM1_RS25505 WP_009617631.1 5771276..5771680(-) (comP) [Pseudomonas sp. M1]
MNAQKGFTLIELMIVVAIIGILAAIALPAYQDYTVRARVSEGLSLASGVKTTVAENMANDPTTTTRCTGANTTAGGHVTS
IGCTDTTGKIDITMDATAKSVKLALTPTQVSGGPVTWKCTTSTDKKYVPAECRN

Nucleotide


Download         Length: 405 bp        

>NTDB_id=669099 PM1_RS25505 WP_009617631.1 5771276..5771680(-) (comP) [Pseudomonas sp. M1]
ATGAACGCTCAGAAAGGCTTCACCCTCATCGAATTGATGATCGTCGTAGCGATCATCGGTATCCTGGCTGCCATCGCCCT
GCCGGCCTACCAGGACTACACCGTCCGTGCTCGCGTTTCCGAAGGTCTGAGCCTGGCAAGTGGTGTCAAGACCACCGTCG
CCGAGAATATGGCTAACGATCCGACTACCACTACTCGCTGCACAGGTGCGAACACTACCGCTGGTGGGCATGTGACTTCC
ATTGGATGCACTGACACCACCGGTAAAATTGACATCACTATGGATGCCACCGCTAAAAGCGTGAAGCTGGCGCTGACTCC
GACCCAGGTATCTGGTGGCCCGGTGACTTGGAAGTGCACCACTTCCACTGACAAAAAGTATGTGCCTGCTGAGTGCCGTA
ATTAA

Domains

Predicted by InterproScan.

Prokaryotic N-terminal methylation motif (N_methyl)

(1-27)

Pilin (bacterial filament) (Pilin)

(35-133)


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
  comP Acinetobacter baylyi ADP1

58.503

100

0.642
  pilA Ralstonia pseudosolanacearum GMI1000

45.223

100

0.53
  pilA2 Legionella pneumophila str. Paris

52.239

100

0.522
  pilA2 Legionella pneumophila strain ERS1305867

52.239

100

0.522
  pilA/pilA1 Eikenella corrodens VA1

42.568

100

0.47
  pilE Neisseria gonorrhoeae strain FA1090

37.975

100

0.448
  pilE Neisseria gonorrhoeae MS11

37.736

100

0.448
  pilA Haemophilus influenzae 86-028NP

42.647

100

0.433
  pilA/pilAI Pseudomonas stutzeri DSM 10701

39.583

100

0.425
  pilA Pseudomonas aeruginosa PAK

36.913

100

0.41
  pilA Acinetobacter baumannii strain A118

39.568

100

0.41
  pilA Haemophilus influenzae Rd KW20

40

100

0.403
  pilA Vibrio cholerae C6706

35.172

100

0.381
  pilA Vibrio cholerae strain A1552

35.172

100

0.381
  pilA Vibrio cholerae O1 biovar El Tor strain E7946

35.172

100

0.381
  pilA/pilAII Pseudomonas stutzeri DSM 10701

35.915

100

0.381

Multiple sequence alignment