Detailed information    

insolico Bioinformatically predicted

Overview

Name   comM   Type   Machinery gene
Locus tag   JH304_RS20430 Genome accession   NZ_CP066933
Coordinates   4632167..4633687 (+) Length   506 a.a.
NCBI ID   WP_116670835.1    Uniprot ID   -
Organism   Xanthomonas campestris pv. campestris strain 10108     
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 4587065..4644767 4632167..4633687 within 0


Gene organization within MGE regions


Location: 4587065..4644767
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  JH304_RS20255 (JH304_20210) tyrS 4594156..4595367 (-) 1212 WP_011038916.1 tyrosine--tRNA ligase -
  JH304_RS20260 (JH304_20215) - 4595540..4596958 (+) 1419 WP_011038917.1 M23 family metallopeptidase -
  JH304_RS20265 (JH304_20220) - 4597162..4598295 (+) 1134 WP_011038918.1 anhydro-N-acetylmuramic acid kinase -
  JH304_RS20270 (JH304_20225) - 4598528..4598755 (-) 228 WP_011038919.1 hypothetical protein -
  JH304_RS20275 (JH304_20230) - 4598814..4600109 (-) 1296 WP_019238047.1 MFS transporter -
  JH304_RS20280 (JH304_20235) - 4600121..4600333 (+) 213 WP_145998831.1 hypothetical protein -
  JH304_RS20285 (JH304_20240) - 4600374..4601174 (-) 801 WP_100666359.1 exodeoxyribonuclease III -
  JH304_RS20290 (JH304_20245) pyrE 4601296..4601955 (+) 660 WP_050912485.1 orotate phosphoribosyltransferase -
  JH304_RS20295 (JH304_20250) - 4601981..4602643 (+) 663 WP_012439447.1 hypothetical protein -
  JH304_RS20300 (JH304_20255) - 4602758..4603555 (+) 798 WP_075286268.1 AAA family ATPase -
  JH304_RS20305 (JH304_20260) - 4603555..4604484 (+) 930 WP_100666360.1 ParB/RepB/Spo0J family partition protein -
  JH304_RS20310 (JH304_20265) - 4604510..4604797 (+) 288 Protein_3931 helix-hairpin-helix domain-containing protein -
  JH304_RS20315 (JH304_20270) - 4604893..4605621 (+) 729 WP_011038927.1 suppressor of fused domain protein -
  JH304_RS20320 (JH304_20275) - 4605665..4606630 (+) 966 WP_100666361.1 SDR family NAD(P)-dependent oxidoreductase -
  JH304_RS20325 (JH304_20280) - 4606710..4607432 (+) 723 WP_042595586.1 glycosyltransferase family 2 protein -
  JH304_RS20330 (JH304_20285) - 4607432..4607773 (+) 342 WP_011038930.1 lipid-A-disaccharide synthase N-terminal domain-containing protein -
  JH304_RS20335 (JH304_20290) - 4607992..4608438 (+) 447 WP_011038931.1 hypothetical protein -
  JH304_RS20340 (JH304_20295) - 4608752..4611094 (-) 2343 WP_184395600.1 phosphomannomutase/phosphoglucomutase -
  JH304_RS20345 (JH304_20300) dut 4611110..4611577 (-) 468 WP_029217103.1 dUTP diphosphatase -
  JH304_RS20350 (JH304_20305) coaBC 4611565..4612824 (-) 1260 WP_011038934.1 bifunctional phosphopantothenoylcysteine decarboxylase/phosphopantothenate--cysteine ligase CoaBC -
  JH304_RS20355 (JH304_20310) radC 4612921..4613598 (+) 678 WP_011038935.1 DNA repair protein RadC -
  JH304_RS20360 (JH304_20315) argS 4613686..4615374 (+) 1689 WP_100666362.1 arginine--tRNA ligase -
  JH304_RS20365 (JH304_20320) - 4615421..4616281 (+) 861 WP_011038937.1 SPOR domain-containing protein -
  JH304_RS20370 (JH304_20325) - 4616288..4616845 (+) 558 WP_040941980.1 hypothetical protein -
  JH304_RS20375 (JH304_20330) - 4616870..4617625 (+) 756 WP_011038939.1 SDR family NAD(P)-dependent oxidoreductase -
  JH304_RS20380 (JH304_20335) - 4617986..4619110 (-) 1125 WP_011038940.1 acyltransferase -
  JH304_RS20385 - 4619300..4619518 (+) 219 WP_016944942.1 hypothetical protein -
  JH304_RS20390 (JH304_20345) - 4619788..4621122 (-) 1335 WP_012439462.1 glycosyltransferase -
  JH304_RS20395 (JH304_20350) - 4621115..4625038 (-) 3924 WP_230428460.1 non-ribosomal peptide synthetase -
  JH304_RS20400 (JH304_20355) speA 4625983..4627869 (-) 1887 WP_011038943.1 arginine decarboxylase -
  JH304_RS20405 (JH304_20360) speE 4628111..4628968 (+) 858 WP_011038944.1 polyamine aminopropyltransferase -
  JH304_RS20410 (JH304_20365) - 4629083..4629865 (-) 783 WP_011038945.1 hypothetical protein -
  JH304_RS20415 (JH304_20370) - 4630404..4631063 (+) 660 WP_012439467.1 RIO1 family regulatory kinase/ATPase -
  JH304_RS20420 (JH304_20375) - 4631349..4631723 (-) 375 WP_029217016.1 P-II family nitrogen regulator -
  JH304_RS20425 (JH304_20380) - 4631878..4632150 (+) 273 WP_011038948.1 accessory factor UbiK family protein -
  JH304_RS20430 (JH304_20385) comM 4632167..4633687 (+) 1521 WP_116670835.1 YifB family Mg chelatase-like AAA ATPase Machinery gene
  JH304_RS20435 (JH304_20390) - 4634045..4634554 (+) 510 WP_016944613.1 lipocalin family protein -
  JH304_RS20440 (JH304_20395) - 4634565..4634741 (-) 177 WP_012439469.1 hypothetical protein -
  JH304_RS20445 (JH304_20400) - 4635123..4636682 (+) 1560 WP_012439470.1 EAL domain-containing protein -
  JH304_RS20450 (JH304_20405) - 4637304..4638425 (-) 1122 WP_012439472.1 acyl-CoA desaturase -
  JH304_RS20455 (JH304_20410) - 4638435..4639511 (-) 1077 WP_012439473.1 ferredoxin reductase -
  JH304_RS20460 (JH304_20415) fabR 4639605..4640252 (+) 648 WP_011038955.1 HTH-type transcriptional repressor FabR -
  JH304_RS20465 (JH304_20420) - 4640628..4641287 (+) 660 WP_011038956.1 UdgX family uracil-DNA binding protein -
  JH304_RS20475 (JH304_20430) - 4642368..4643489 (+) 1122 WP_012439475.1 slipin family protein -
  JH304_RS20480 (JH304_20435) - 4643547..4644767 (+) 1221 WP_016944610.1 RtcB family protein -

Sequence

Protein


Download         Length: 506 a.a.        Molecular weight: 53855.54 Da        Isoelectric Point: 8.3405

>NTDB_id=523369 JH304_RS20430 WP_116670835.1 4632167..4633687(+) (comM) [Xanthomonas campestris pv. campestris strain 10108]
MSLALVHSRARVGVHAPEVRVEVHLSGGLPSTQIVGLPEAAVRESRERVRAALLCAQFEFPARRITINLAPADLPKDGGR
FDLPIALGILAASGQIDRQALADYEFLGELALTGELRGIDGVLPAALAAAQAGRRLIVPLANGAEAAIAGHVQAFTARTL
LEVCAALNGTQPPPAAELAIVALGARALPDMADVRGQPHARRALEIAAAGGHHLLLVGSPGCGKTLLASRLPSLLPDASE
AEALETAAITSISGRGLDLARWRQRPYRAPHHTASAVALVGGGTHPRPGEISLAHNGVLFLDELPEWQRQTLEVLREPLE
SGVVTISRAARSMDFPARFQLVAAMNPCPCGWAGDASGRCRCSGDAIRRYRSRISGPLLDRIDLHVDVPRLPPQALRSGA
TGEDSASVRARVAAARERQQARAQVPNARLDQAATDRHCRLGNDDQLLLERAIEHLQLSARSMHRILRVSRTIADLDDSA
DIATRHLTEAIGYRKLDRALDTSSAA

Nucleotide


Download         Length: 1521 bp        

>NTDB_id=523369 JH304_RS20430 WP_116670835.1 4632167..4633687(+) (comM) [Xanthomonas campestris pv. campestris strain 10108]
ATGAGTCTGGCGCTGGTGCACAGCCGTGCCCGCGTGGGAGTGCACGCGCCTGAAGTCCGGGTGGAAGTGCATCTCTCCGG
CGGCCTGCCTTCCACCCAGATCGTGGGCCTGCCCGAGGCCGCGGTGCGCGAGTCACGCGAACGGGTCCGTGCCGCCTTGC
TGTGCGCACAGTTCGAATTCCCCGCACGCCGCATCACCATCAACCTGGCGCCGGCGGATCTACCCAAGGACGGCGGGCGC
TTCGACCTGCCGATCGCGCTCGGCATCCTTGCGGCCAGCGGGCAGATCGACCGCCAGGCCCTGGCCGACTACGAATTCCT
CGGCGAGCTGGCCCTCACCGGCGAGCTGCGCGGCATCGATGGGGTGCTGCCTGCGGCCCTGGCCGCCGCGCAGGCCGGGC
GGCGCCTGATCGTGCCGCTGGCCAACGGCGCCGAGGCGGCCATCGCCGGACACGTGCAGGCCTTTACCGCGCGCACCTTG
CTGGAAGTGTGCGCCGCACTCAACGGCACCCAGCCACCACCGGCCGCCGAACTGGCGATCGTCGCGCTCGGCGCCCGCGC
ACTACCGGACATGGCCGACGTGCGCGGGCAACCGCATGCGCGCCGGGCGTTGGAGATCGCCGCGGCCGGCGGCCATCACC
TGTTGCTGGTCGGCAGCCCTGGCTGCGGCAAGACCTTGCTGGCCTCGCGCCTACCCAGTCTATTGCCGGACGCCAGCGAG
GCCGAGGCGCTGGAAACCGCCGCCATCACCTCCATCAGCGGACGCGGCCTGGACCTGGCGCGCTGGCGGCAACGCCCGTA
TCGCGCACCGCACCATACCGCCAGCGCGGTGGCGCTGGTGGGCGGTGGCACCCATCCGCGCCCGGGTGAGATCTCATTGG
CGCACAACGGGGTGCTGTTCCTGGACGAGCTACCCGAATGGCAGCGGCAGACCCTGGAAGTGCTGCGCGAGCCACTGGAG
TCCGGCGTGGTCACCATCTCGCGGGCTGCGCGCAGCATGGACTTCCCGGCGCGGTTCCAACTGGTCGCCGCAATGAACCC
CTGCCCGTGCGGCTGGGCCGGCGATGCCAGCGGGCGATGCCGCTGCAGTGGTGACGCCATCCGCCGGTATCGCAGCCGCA
TCTCCGGGCCACTGCTGGATCGCATCGACCTGCACGTCGACGTGCCGCGCCTGCCGCCGCAGGCACTGCGCAGCGGTGCG
ACCGGCGAGGACAGTGCCAGCGTGCGTGCACGCGTTGCCGCCGCACGCGAACGCCAGCAGGCACGTGCGCAGGTGCCCAA
TGCCCGGCTGGACCAGGCCGCCACTGACCGCCACTGCCGGTTGGGCAATGACGATCAGCTGCTGCTGGAACGCGCCATCG
AACATCTGCAGCTGTCCGCGCGCTCGATGCATCGCATCCTGCGCGTCTCGCGCACCATCGCCGATCTCGACGATAGCGCC
GACATCGCCACCCGTCACCTCACCGAAGCCATCGGCTACCGCAAACTCGACCGCGCCCTAGATACCTCCAGCGCCGCATA
A

Domains

Predicted by InterproScan.

Magnesium chelatase, subunit ChlI (Mg_chelatase)

(190-394)

Subunit ChlI of Mg-chelatase (ChlI)

(21-142)

Magnesium chelatase, subunit ChlI C-terminal (Mg_chelatase_C)

(402-494)


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

54.15

100

0.542
  comM Legionella pneumophila str. Paris

53.094

99.012

0.526
  comM Legionella pneumophila strain ERS1305867

53.094

99.012

0.526
  RA0C_RS07335 Riemerella anatipestifer ATCC 11845 = DSM 15868

46.245

100

0.462