Detailed information    

insolico Bioinformatically predicted

Overview

Name   comM   Type   Machinery gene
Locus tag   LIN98_RS01520 Genome accession   NZ_CP085096
Coordinates   297958..298662 (+) Length   234 a.a.
NCBI ID   WP_014167482.1    Uniprot ID   -
Organism   Aggregatibacter actinomycetemcomitans strain 4S     
Function   require for natural transformation (predicted from homology)   
Unclear

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)
ICE 274550..341308 297958..298662 within 0


Gene organization within MGE regions


Location: 274550..341308
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  LIN98_RS01405 - 274974..276722 (+) 1749 WP_005559237.1 hypothetical protein -
  LIN98_RS01410 - 276950..277300 (+) 351 WP_005585358.1 hypothetical protein -
  LIN98_RS01415 - 277310..278557 (+) 1248 WP_005567021.1 PfkB family carbohydrate kinase -
  LIN98_RS01420 - 278593..279189 (+) 597 WP_005559235.1 7-cyano-7-deazaguanine synthase -
  LIN98_RS01425 - 279173..279856 (+) 684 WP_005593449.1 hypothetical protein -
  LIN98_RS01430 - 279794..280621 (-) 828 WP_005559233.1 Thermostable 8-oxoguanine DNA glycosylase -
  LIN98_RS01435 - 280637..281296 (-) 660 WP_005559230.1 DNA adenine methylase -
  LIN98_RS01440 tssI 281568..287016 (+) 5449 Protein_278 type VI secretion system tip protein TssI/VgrG -
  LIN98_RS01450 - 287020..287535 (+) 516 WP_005559226.1 Imm15 family immunity protein -
  LIN98_RS01455 - 287954..288238 (+) 285 WP_019518356.1 hypothetical protein -
  LIN98_RS01460 - 288357..289211 (-) 855 WP_005559223.1 plasmid partitioning protein RepB C-terminal domain-containing protein -
  LIN98_RS01465 - 289204..289590 (-) 387 WP_233443963.1 hypothetical protein -
  LIN98_RS01470 - 289562..290053 (-) 492 WP_233443964.1 ParB N-terminal domain-containing protein -
  LIN98_RS01475 - 289995..291575 (-) 1581 WP_005559219.1 recombinase family protein -
  LIN98_RS01480 - 291617..291925 (+) 309 WP_005591951.1 transcriptional regulator -
  LIN98_RS01485 - 292061..292279 (-) 219 WP_019518360.1 hypothetical protein -
  LIN98_RS01490 - 292527..293201 (+) 675 Protein_287 TniB family NTP-binding protein -
  LIN98_RS01495 - 293159..294277 (+) 1119 WP_005548211.1 TniQ family protein -
  LIN98_RS01500 - 294238..295683 (+) 1446 WP_233443966.1 hypothetical protein -
  LIN98_RS01505 - 295626..295784 (-) 159 Protein_290 TniB family NTP-binding protein -
  LIN98_RS01510 - 295784..297167 (-) 1384 Protein_291 helix-turn-helix domain-containing protein -
  LIN98_RS01515 - 297160..297822 (-) 663 WP_005559213.1 heteromeric transposase endonuclease subunit TnsA -
  LIN98_RS01520 comM 297958..298662 (+) 705 WP_014167482.1 ATP-binding protein Machinery gene
  LIN98_RS01525 - 298674..299501 (-) 828 WP_005591946.1 divergent polysaccharide deacetylase family protein -
  LIN98_RS01530 envC 299498..300757 (-) 1260 WP_005571010.1 murein hydrolase activator EnvC -
  LIN98_RS01535 - 300966..302624 (-) 1659 WP_005571009.1 phospho-sugar mutase -
  LIN98_RS01540 - 302930..303613 (+) 684 WP_005567036.1 2,3-diphosphoglycerate-dependent phosphoglycerate mutase -
  LIN98_RS01545 - 303698..304192 (-) 495 WP_005548195.1 YfbU family protein -
  LIN98_RS01550 - 304210..304953 (-) 744 WP_032996149.1 VacJ family lipoprotein -
  LIN98_RS01555 nikA 305052..306635 (-) 1584 WP_148326213.1 nickel ABC transporter substrate-binding protein -
  LIN98_RS01560 hslU 306701..308032 (-) 1332 WP_005589872.1 HslU--HslV peptidase ATPase subunit -
  LIN98_RS01565 hslV 308053..308580 (-) 528 WP_005554522.1 ATP-dependent protease subunit HslV -
  LIN98_RS01570 aphA 308795..309502 (+) 708 WP_005567041.1 acid phosphatase AphA -
  LIN98_RS01575 - 309884..310201 (-) 318 WP_005567042.1 DUF4298 domain-containing protein -
  LIN98_RS01580 mtr 310480..311724 (-) 1245 WP_005567043.1 tryptophan permease -
  LIN98_RS01585 ppa 311886..312413 (+) 528 WP_005548178.1 inorganic diphosphatase -
  LIN98_RS01590 - 312489..313262 (+) 774 WP_005548176.1 M48 family metallopeptidase -
  LIN98_RS01595 ribB 313942..314586 (+) 645 WP_005548174.1 3,4-dihydroxy-2-butanone-4-phosphate synthase -
  LIN98_RS01600 trpS 314673..315677 (-) 1005 WP_005567048.1 tryptophan--tRNA ligase -
  LIN98_RS01605 ftsY 315852..317213 (-) 1362 WP_014167486.1 signal recognition particle-docking protein FtsY -
  LIN98_RS01610 rsmD 317301..317885 (+) 585 WP_005548167.1 16S rRNA (guanine(966)-N(2))-methyltransferase RsmD -
  LIN98_RS01615 - 318172..319137 (+) 966 WP_005548165.1 mannose/fructose/sorbose PTS transporter subunit IIB -
  LIN98_RS01620 - 319155..319952 (+) 798 WP_005567049.1 PTS mannose/fructose/sorbose transporter subunit IIC -
  LIN98_RS01625 manZ 319966..320802 (+) 837 WP_005548161.1 PTS mannose transporter subunit IID -
  LIN98_RS01630 - 320912..322087 (+) 1176 WP_014167487.1 Cof-type HAD-IIB family hydrolase -
  LIN98_RS01635 - 322379..323629 (+) 1251 WP_014167488.1 NupC/NupG family nucleoside CNT transporter -
  LIN98_RS01640 deoD 323755..324474 (+) 720 WP_005548156.1 purine-nucleoside phosphorylase -
  LIN98_RS01645 pgaA 324777..327164 (+) 2388 WP_249856139.1 poly-beta-1,6 N-acetyl-D-glucosamine export porin PgaA -
  LIN98_RS01650 pgaB 327180..329096 (+) 1917 WP_005548149.1 poly-beta-1,6-N-acetyl-D-glucosamine N-deacetylase PgaB -
  LIN98_RS01655 pgaC 329105..330340 (+) 1236 WP_005548147.1 poly-beta-1,6-N-acetyl-D-glucosamine synthase -
  LIN98_RS01660 - 330343..330636 (+) 294 WP_005541810.1 hypothetical protein -
  LIN98_RS01665 uhpC 330754..332079 (-) 1326 WP_005541809.1 MFS transporter family glucose-6-phosphate receptor UhpC -
  LIN98_RS01670 pdxH 332250..332882 (+) 633 WP_005548142.1 pyridoxamine 5'-phosphate oxidase -
  LIN98_RS01675 - 332970..333614 (-) 645 WP_148326216.1 TIR domain-containing protein -
  LIN98_RS01680 - 333642..334124 (-) 483 WP_005548138.1 TIR domain-containing protein -
  LIN98_RS01685 - 334127..335527 (-) 1401 WP_014167492.1 SIR2 family protein -
  LIN98_RS01690 - 335586..336887 (-) 1302 WP_005548134.1 ATP-binding protein -
  LIN98_RS01695 srmB 337358..338689 (-) 1332 WP_005572001.1 ATP-dependent RNA helicase SrmB -
  LIN98_RS01700 - 338779..339486 (+) 708 WP_005572000.1 tRNA1(Val) (adenine(37)-N6)-methyltransferase -
  LIN98_RS01705 pnuC 339561..340250 (-) 690 WP_005548127.1 nicotinamide riboside transporter PnuC -
  LIN98_RS01710 rluA 340631..341290 (+) 660 WP_005567062.1 bifunctional tRNA pseudouridine(32) synthase/23S rRNA pseudouridine(746) synthase RluA -

Sequence

Protein


Download         Length: 234 a.a.        Molecular weight: 26130.98 Da        Isoelectric Point: 9.4430

>NTDB_id=615522 LIN98_RS01520 WP_014167482.1 297958..298662(+) (comM) [Aggregatibacter actinomycetemcomitans strain 4S]
MPLICNFDSGTIPKPGEISLAHNGVLFLDELPEFERKVLDALRQPLESGEIIISRANAKIQFPAKFQLIAAMNPSPTGHY
QGTHNRTSPQQVMRYLNRLSGPFLDRFDLSIEVPLLPQGSLQNSGDRGESSATVREKVLKTRAIQLQRAGKINAHLNSKE
IERDCKLTDKDAQFLENALTKLGLSVRAYHRILKVSRTIADLDGEQHINQCHLAEALGYRAMDRLLQKLAKNSA

Nucleotide


Download         Length: 705 bp        

>NTDB_id=615522 LIN98_RS01520 WP_014167482.1 297958..298662(+) (comM) [Aggregatibacter actinomycetemcomitans strain 4S]
ATGCCACTTATTTGTAACTTTGACAGCGGCACGATCCCCAAACCGGGCGAAATTTCCCTCGCTCACAATGGCGTGCTTTT
CTTAGATGAGTTGCCCGAATTTGAACGCAAAGTGCTGGACGCGCTGCGTCAACCATTGGAAAGTGGCGAAATTATTATTT
CCCGCGCCAACGCCAAGATTCAATTTCCGGCAAAATTTCAACTGATTGCCGCGATGAATCCCAGCCCGACAGGGCATTAT
CAAGGCACGCATAATCGCACCTCACCACAACAAGTTATGCGTTATCTGAATCGGTTATCCGGCCCTTTTTTAGATCGCTT
CGATTTATCCATTGAAGTGCCCTTATTACCACAAGGCAGCTTACAAAATAGCGGCGATCGTGGCGAATCCAGCGCAACGG
TGCGAGAAAAAGTCCTGAAAACCCGTGCCATTCAACTTCAGCGCGCCGGCAAAATTAATGCCCATTTAAATAGCAAAGAA
ATCGAACGGGACTGCAAACTAACCGACAAAGACGCACAGTTCCTGGAAAATGCCCTGACTAAACTGGGGCTTTCCGTACG
AGCGTACCACCGCATACTGAAAGTGTCCCGCACCATTGCCGATTTAGATGGAGAACAACACATCAACCAGTGCCATCTGG
CCGAAGCTCTGGGTTATCGGGCAATGGACAGGTTGTTGCAAAAATTGGCGAAAAACTCGGCGTAA

Domains

Predicted by InterproScan.

Magnesium chelatase, subunit ChlI C-terminal (Mg_chelatase_C)

(128-220)

Magnesium chelatase, subunit ChlI (Mg_chelatase)

(9-118)


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
  comM Haemophilus influenzae Rd KW20

86.957

98.291

0.855
  comM Glaesserella parasuis strain SC1401

81.034

99.145

0.803
  comM Vibrio cholerae strain A1552

67.873

94.444

0.641
  comM Vibrio campbellii strain DS40M4

65.909

94.017

0.62
  RA0C_RS07335 Riemerella anatipestifer ATCC 11845 = DSM 15868

52

96.154

0.5
  comM Legionella pneumophila str. Paris

51.869

91.453

0.474
  comM Legionella pneumophila strain ERS1305867

51.869

91.453

0.474