Detailed information    

insolico Bioinformatically predicted

Overview

Name   comM   Type   Machinery gene
Locus tag   JH263_RS01515 Genome accession   NZ_CP067002
Coordinates   356666..358186 (-) Length   506 a.a.
NCBI ID   WP_040941986.1    Uniprot ID   -
Organism   Xanthomonas campestris pv. campestris strain 39-3     
Function   ssDNA binding (predicted from homology)   
DNA processing

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)
Prophage 345583..403166 356666..358186 within 0


Gene organization within MGE regions


Location: 345583..403166
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JH263_RS01455 (JH263_01455) - 345583..346803 (-) 1221 WP_274514475.1 RtcB family protein -
  JH263_RS01460 (JH263_01460) - 346861..347982 (-) 1122 WP_040941988.1 slipin family protein -
  JH263_RS01465 (JH263_01465) - 348840..349019 (-) 180 WP_153064790.1 hypothetical protein -
  JH263_RS01470 (JH263_01470) - 349064..349723 (-) 660 WP_274497863.1 UdgX family uracil-DNA binding protein -
  JH263_RS01475 (JH263_01475) fabR 350101..350748 (-) 648 WP_011038955.1 HTH-type transcriptional repressor FabR -
  JH263_RS01480 (JH263_01480) - 350842..351918 (+) 1077 WP_228422652.1 ferredoxin reductase -
  JH263_RS01485 (JH263_01485) - 351928..353049 (+) 1122 WP_011038953.1 acyl-CoA desaturase -
  JH263_RS01490 (JH263_01490) - 353063..353233 (+) 171 WP_157769262.1 hypothetical protein -
  JH263_RS01495 (JH263_01495) - 353391..353624 (-) 234 WP_146011557.1 hypothetical protein -
  JH263_RS01500 (JH263_01500) - 353672..355231 (-) 1560 WP_050911777.1 EAL domain-containing protein -
  JH263_RS01505 (JH263_01505) - 355613..355789 (+) 177 WP_012439469.1 hypothetical protein -
  JH263_RS01510 (JH263_01510) - 355800..356309 (-) 510 WP_187305902.1 lipocalin family protein -
  JH263_RS01515 (JH263_01515) comM 356666..358186 (-) 1521 WP_040941986.1 YifB family Mg chelatase-like AAA ATPase Machinery gene
  JH263_RS01520 (JH263_01520) - 358202..358474 (-) 273 WP_011038948.1 accessory factor UbiK family protein -
  JH263_RS01525 (JH263_01525) - 358629..359003 (+) 375 WP_029217016.1 P-II family nitrogen regulator -
  JH263_RS01530 (JH263_01530) - 359278..359937 (-) 660 WP_162808696.1 RIO1 family regulatory kinase/ATPase -
  JH263_RS01535 (JH263_01535) - 360466..361248 (+) 783 WP_011038945.1 hypothetical protein -
  JH263_RS01540 (JH263_01540) speE 361363..362220 (-) 858 WP_011038944.1 polyamine aminopropyltransferase -
  JH263_RS01545 (JH263_01545) speA 362462..364348 (+) 1887 WP_115531229.1 arginine decarboxylase -
  JH263_RS01550 (JH263_01550) - 365279..369202 (+) 3924 WP_274514749.1 amino acid adenylation domain-containing protein -
  JH263_RS01555 (JH263_01555) - 369195..370529 (+) 1335 WP_011038941.1 glycosyltransferase -
  JH263_RS01560 (JH263_01560) - 370799..371017 (-) 219 WP_274514476.1 hypothetical protein -
  JH263_RS01565 (JH263_01565) - 371204..372328 (+) 1125 WP_070693711.1 acyltransferase -
  JH263_RS01570 (JH263_01570) - 372479..372631 (+) 153 WP_158070204.1 hypothetical protein -
  JH263_RS01575 (JH263_01575) - 372690..373445 (-) 756 WP_011038939.1 SDR family NAD(P)-dependent oxidoreductase -
  JH263_RS01580 (JH263_01580) - 373470..374027 (-) 558 WP_040941980.1 hypothetical protein -
  JH263_RS01585 (JH263_01585) - 374034..374894 (-) 861 WP_011038937.1 SPOR domain-containing protein -
  JH263_RS01590 (JH263_01590) argS 374941..376629 (-) 1689 WP_274514477.1 arginine--tRNA ligase -
  JH263_RS01595 (JH263_01595) radC 376717..377394 (-) 678 WP_011038935.1 DNA repair protein RadC -
  JH263_RS01600 (JH263_01600) coaBC 377491..378750 (+) 1260 WP_274514478.1 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate--cysteine ligase CoaBC -
  JH263_RS01605 (JH263_01605) dut 378738..379205 (+) 468 WP_029217103.1 dUTP diphosphatase -
  JH263_RS01610 (JH263_01610) - 379221..381563 (+) 2343 WP_068574649.1 phosphomannomutase/phosphoglucomutase -
  JH263_RS01615 (JH263_01615) - 381877..382323 (-) 447 WP_011038931.1 hypothetical protein -
  JH263_RS01620 (JH263_01620) - 382542..382883 (-) 342 WP_011038930.1 lipid-A-disaccharide synthase N-terminal domain-containing protein -
  JH263_RS01625 (JH263_01625) - 382883..383605 (-) 723 WP_012439453.1 glycosyltransferase family 2 protein -
  JH263_RS01630 (JH263_01630) - 383685..384650 (-) 966 WP_075286272.1 SDR family NAD(P)-dependent oxidoreductase -
  JH263_RS01635 (JH263_01635) - 384694..385422 (-) 729 WP_075286271.1 suppressor of fused domain protein -
  JH263_RS01640 (JH263_01640) - 385512..385799 (-) 288 Protein_316 helix-hairpin-helix domain-containing protein -
  JH263_RS01645 (JH263_01645) - 385825..386754 (-) 930 WP_075286269.1 ParB/RepB/Spo0J family partition protein -
  JH263_RS01650 (JH263_01650) - 386754..387551 (-) 798 WP_075286268.1 AAA family ATPase -
  JH263_RS01655 (JH263_01655) - 387666..388328 (-) 663 WP_040941969.1 hypothetical protein -
  JH263_RS01660 (JH263_01660) pyrE 388354..389013 (-) 660 WP_011038922.1 orotate phosphoribosyltransferase -
  JH263_RS01665 (JH263_01665) - 389141..389941 (+) 801 WP_103700855.1 exodeoxyribonuclease III -
  JH263_RS01670 (JH263_01670) - 390206..391501 (+) 1296 WP_161962184.1 MFS transporter -
  JH263_RS01675 (JH263_01675) - 391560..391787 (+) 228 WP_011038919.1 hypothetical protein -
  JH263_RS01680 (JH263_01680) - 392033..393166 (-) 1134 WP_274514479.1 anhydro-N-acetylmuramic acid kinase -
  JH263_RS01685 (JH263_01685) - 393370..394788 (-) 1419 WP_011038917.1 M23 family metallopeptidase -
  JH263_RS01690 (JH263_01690) tyrS 394961..396172 (+) 1212 WP_274514480.1 tyrosine--tRNA ligase -

Sequence

Protein


Download         Length: 506 a.a.        Molecular weight: 53881.58 Da        Isoelectric Point: 8.3405

>NTDB_id=524127 JH263_RS01515 WP_040941986.1 356666..358186(-) (comM) [Xanthomonas campestris pv. campestris strain 39-3]
MSLALVHSRARVGVHAPEVRVEVHLSGGLPSTQIVGLPEAAVRESRERVRAALLCAQFEFPARRITINLAPADLPKDGGR
FDLPIALGILAASGQIDRQALADYEFLGELALTGELRGIDGVLPAALAAAQAGRRLIVPLANGAEAAIAGHVQAFTARTL
LEVCAALNGTQPPPPAELAIVALGARALPDMADVRGQPHARRALEIAAAGGHHLLLVGSPGCGKTLLASRLPSLLPDASE
AEALETAAITSISGRGLDLARWRQRPYRAPHHTASAVALVGGGTHPRPGEISLAHNGVLFLDELPEWQRQTLEVLREPLE
SGVVTISRAARSMDFPARFQLVAAMNPCPCGWAGDASGRCRCSGDAIRRYRSRISGPLLDRIDLHVDVPRLPPQALRSGA
TGEDSASVRARVAAARERQQARAQVPNARLDQAATDRHCRLGNDDQLLLERAIEHLQLSARSMHRILRVSRTIADLDDSA
DIATRHLTEAIGYRKLDRALDTSSAA

Nucleotide


Download         Length: 1521 bp        

>NTDB_id=524127 JH263_RS01515 WP_040941986.1 356666..358186(-) (comM) [Xanthomonas campestris pv. campestris strain 39-3]
ATGAGTCTGGCGCTGGTGCACAGCCGTGCCCGCGTGGGAGTGCACGCGCCTGAAGTCCGGGTGGAAGTGCATCTCTCCGG
CGGCCTGCCTTCCACCCAGATCGTGGGCCTGCCCGAGGCCGCGGTGCGCGAGTCACGCGAACGGGTCCGTGCCGCCTTGC
TGTGCGCACAGTTCGAATTCCCCGCACGCCGCATCACCATCAACCTGGCGCCGGCGGATCTGCCCAAGGACGGCGGCCGC
TTCGACCTGCCGATCGCGCTCGGCATCCTTGCGGCCAGCGGGCAGATCGACCGCCAGGCCCTGGCCGACTACGAATTCCT
CGGCGAGCTGGCCCTCACCGGCGAGCTGCGCGGCATCGATGGGGTGCTGCCTGCGGCCCTGGCCGCCGCGCAGGCCGGGC
GGCGCCTGATCGTGCCGCTGGCCAACGGCGCCGAGGCGGCCATCGCCGGACACGTGCAGGCCTTTACCGCGCGCACCTTG
CTGGAAGTGTGCGCCGCACTTAACGGCACCCAGCCGCCACCGCCCGCCGAACTGGCGATCGTGGCGCTCGGCGCCCGCGC
GCTACCGGACATGGCCGACGTGCGCGGGCAACCGCATGCGCGCCGGGCGCTGGAGATCGCCGCGGCCGGCGGCCATCACC
TGTTGCTGGTCGGCAGCCCTGGCTGCGGCAAGACCTTGCTGGCCTCGCGCCTGCCCAGTCTGTTGCCGGACGCCAGCGAG
GCCGAGGCGCTGGAAACCGCCGCCATCACCTCCATCAGCGGACGCGGCCTGGACCTGGCGCGCTGGCGGCAACGTCCTTA
TCGCGCCCCGCACCATACCGCCAGCGCGGTGGCGCTGGTGGGCGGTGGCACCCATCCGCGCCCGGGTGAGATCTCATTGG
CGCACAACGGGGTACTGTTCCTGGACGAGCTACCCGAATGGCAGCGGCAGACCCTGGAAGTGCTGCGCGAGCCACTGGAG
TCCGGCGTGGTCACCATCTCGCGGGCCGCGCGCAGCATGGACTTCCCGGCGCGGTTCCAGTTGGTCGCCGCAATGAATCC
CTGCCCGTGCGGCTGGGCCGGCGACGCCAGCGGGCGATGCCGCTGCAGTGGTGACGCCATCCGCCGGTATCGCAGCCGCA
TCTCCGGGCCGCTGCTGGATCGCATCGACCTGCACGTCGACGTGCCGCGCCTGCCGCCGCAGGCACTGCGCAGCGGTGCG
ACCGGCGAGGACAGTGCCAGCGTGCGTGCACGCGTTGCCGCCGCACGCGAACGCCAGCAGGCACGTGCACAGGTGCCCAA
TGCCCGCCTGGACCAGGCCGCCACTGACCGCCACTGCCGGTTGGGCAATGACGATCAGCTGCTGCTGGAACGCGCCATCG
AACATCTGCAGCTGTCCGCACGGTCGATGCACCGCATCCTGCGCGTTTCGCGCACCATCGCCGATCTCGACGACAGCGCC
GACATCGCCACCCGTCACCTCACCGAAGCCATCGGCTACCGCAAACTCGACCGCGCTCTCGATACCTCCAGCGCCGCATG
A

Domains

Predicted by InterproScan.

Magnesium chelatase, subunit ChlI (Mg_chelatase)

(190-394)

Magnesium chelatase, subunit ChlI C-terminal (Mg_chelatase_C)

(402-494)

Subunit ChlI of Mg-chelatase (ChlI)

(21-142)


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 Vibrio cholerae strain A1552

55.336

100

0.553
  comM Haemophilus influenzae Rd KW20

54.118

100

0.545
  comM Vibrio campbellii strain DS40M4

53.711

100

0.543
  comM Glaesserella parasuis strain SC1401

53.953

100

0.54
  comM Legionella pneumophila str. Paris

53.187

99.209

0.528
  comM Legionella pneumophila strain ERS1305867

53.187

99.209

0.528
  RA0C_RS07335 Riemerella anatipestifer ATCC 11845 = DSM 15868

46.047

100

0.46