Detailed information    

insolico Bioinformatically predicted

Overview

Name   comM   Type   Machinery gene
Locus tag   QMK55_RS12390 Genome accession   NZ_CP125378
Coordinates   2717273..2718766 (+) Length   497 a.a.
NCBI ID   WP_320329266.1    Uniprot ID   -
Organism   Pseudomonas sp. P8_229     
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)
ICE 2693074..2737913 2717273..2718766 within 0


Gene organization within MGE regions


Location: 2693074..2737913
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  QMK55_RS12260 (QMK55_12255) rsd 2693643..2694101 (-) 459 WP_102354813.1 sigma D regulator -
  QMK55_RS12265 (QMK55_12260) - 2694288..2694839 (-) 552 WP_102354812.1 disulfide bond formation protein B -
  QMK55_RS12270 (QMK55_12265) - 2695058..2696296 (-) 1239 WP_102354811.1 heme biosynthesis protein HemY -
  QMK55_RS12275 (QMK55_12270) - 2696293..2697435 (-) 1143 WP_102354810.1 uroporphyrinogen-III C-methyltransferase -
  QMK55_RS12280 (QMK55_12275) - 2697452..2698219 (-) 768 WP_320329261.1 uroporphyrinogen-III synthase -
  QMK55_RS12285 (QMK55_12280) hemC 2698216..2699157 (-) 942 WP_102354808.1 hydroxymethylbilane synthase -
  QMK55_RS12290 (QMK55_12285) - 2699296..2700042 (-) 747 WP_003229385.1 LytR/AlgR family response regulator transcription factor -
  QMK55_RS28610 - 2700039..2700188 (-) 150 Protein_2411 sensor histidine kinase -
  QMK55_RS12295 (QMK55_12290) argH 2700515..2701909 (+) 1395 WP_102354807.1 argininosuccinate lyase -
  QMK55_RS12300 (QMK55_12295) - 2702040..2702699 (-) 660 WP_320329262.1 glutathione S-transferase -
  QMK55_RS12305 (QMK55_12300) - 2702823..2703107 (+) 285 WP_102354805.1 hypothetical protein -
  QMK55_RS12310 (QMK55_12305) - 2703362..2703607 (+) 246 WP_047596728.1 TIGR02647 family protein -
  QMK55_RS12315 (QMK55_12310) - 2703790..2706633 (+) 2844 WP_102354804.1 class I adenylate cyclase -
  QMK55_RS12320 (QMK55_12315) rnk 2706641..2707060 (-) 420 WP_038359156.1 nucleoside diphosphate kinase regulator -
  QMK55_RS12325 (QMK55_12320) - 2707316..2707531 (-) 216 WP_102354803.1 DUF1289 domain-containing protein -
  QMK55_RS12330 (QMK55_12325) cyaY 2707534..2707860 (-) 327 WP_102354802.1 iron donor protein CyaY -
  QMK55_RS12335 (QMK55_12330) lptM 2708180..2708353 (+) 174 WP_007911098.1 LPS translocon maturation chaperone LptM -
  QMK55_RS12340 (QMK55_12335) lysA 2708363..2709610 (+) 1248 WP_320329263.1 diaminopimelate decarboxylase -
  QMK55_RS12345 (QMK55_12340) dapF 2709614..2710444 (+) 831 WP_102354800.1 diaminopimelate epimerase -
  QMK55_RS12350 (QMK55_12345) - 2710458..2711183 (+) 726 WP_102354799.1 DUF484 family protein -
  QMK55_RS12355 (QMK55_12350) xerC 2711186..2712082 (+) 897 WP_102354798.1 tyrosine recombinase XerC -
  QMK55_RS12360 (QMK55_12355) - 2712082..2712789 (+) 708 WP_320329264.1 HAD-IA family hydrolase -
  QMK55_RS12365 (QMK55_12360) sutA 2713024..2713350 (-) 327 WP_007920420.1 transcriptional regulator SutA -
  QMK55_RS12370 (QMK55_12365) - 2713453..2713878 (-) 426 WP_034152034.1 secondary thiamine-phosphate synthase enzyme YjbQ -
  QMK55_RS12375 (QMK55_12370) - 2714094..2715431 (-) 1338 WP_102354795.1 ammonium transporter -
  QMK55_RS12380 (QMK55_12375) glnK 2715469..2715807 (-) 339 WP_002555808.1 P-II family nitrogen regulator -
  QMK55_RS12385 (QMK55_12380) - 2716221..2716481 (+) 261 WP_320329265.1 accessory factor UbiK family protein -
  QMK55_RS12390 (QMK55_12385) comM 2717273..2718766 (+) 1494 WP_320329266.1 YifB family Mg chelatase-like AAA ATPase Machinery gene
  QMK55_RS12395 (QMK55_12390) - 2718938..2720914 (-) 1977 WP_320329267.1 methyl-accepting chemotaxis protein -
  QMK55_RS12400 (QMK55_12395) - 2721104..2722024 (-) 921 WP_102354774.1 LysR substrate-binding domain-containing protein -
  QMK55_RS12405 (QMK55_12400) - 2722183..2723580 (+) 1398 WP_320330253.1 NorM family multidrug efflux MATE transporter -
  QMK55_RS12410 (QMK55_12405) - 2723689..2725362 (-) 1674 WP_320329268.1 bifunctional diguanylate cyclase/phosphodiesterase -
  QMK55_RS12415 (QMK55_12410) rep 2725617..2727626 (+) 2010 WP_102354771.1 DNA helicase Rep -
  QMK55_RS12420 (QMK55_12415) - 2727681..2728253 (+) 573 WP_025113230.1 xanthine phosphoribosyltransferase -
  QMK55_RS12425 (QMK55_12420) - 2728562..2730484 (-) 1923 WP_320329269.1 acetyl-CoA hydrolase/transferase C-terminal domain-containing protein -
  QMK55_RS12430 (QMK55_12425) - 2730620..2731039 (-) 420 WP_102359139.1 c-type cytochrome -
  QMK55_RS12435 (QMK55_12430) - 2731221..2731769 (-) 549 WP_025112726.1 cupin domain-containing protein -
  QMK55_RS12440 (QMK55_12435) alr 2731859..2732932 (-) 1074 WP_320329270.1 alanine racemase -
  QMK55_RS12445 (QMK55_12440) - 2733027..2733380 (-) 354 WP_320329271.1 RidA family protein -
  QMK55_RS12450 (QMK55_12445) dadA 2733352..2734656 (-) 1305 WP_102359137.1 D-amino acid dehydrogenase -
  QMK55_RS12455 (QMK55_12450) - 2734813..2735301 (+) 489 WP_003177284.1 Lrp/AsnC ligand binding domain-containing protein -
  QMK55_RS12460 (QMK55_12455) - 2735421..2735774 (-) 354 WP_102358975.1 YkgJ family cysteine cluster protein -
  QMK55_RS12465 (QMK55_12460) - 2735922..2737232 (+) 1311 WP_320329272.1 FAD-binding oxidoreductase -
  QMK55_RS12470 (QMK55_12465) - 2737347..2737592 (-) 246 WP_102356268.1 DUF1127 domain-containing protein -

Sequence

Protein


Download         Length: 497 a.a.        Molecular weight: 52940.00 Da        Isoelectric Point: 8.0040

>NTDB_id=831624 QMK55_RS12390 WP_320329266.1 2717273..2718766(+) (comM) [Pseudomonas sp. P8_229]
MSLSIVHSRAQIGVEAPAVTVEVHLANGLPSLTMVGLPEAAVKESKDRVRSAIINSGLQFPARRITLNLAPADLPKDGGR
FDLAIALGILSASVQVPCLTLDDVECLGELALSGAVRPVRGVLPAALAARKAGRALVVPRANAEEACLASGLKVFAVDHL
LEAVAHFNGHTPVEPYVSDGLIHAARPYPDLNEVQGQKAAKRALLIAAAGAHNLLFSGPPGTGKTLLASRLPGLLPPLSE
CEALEVAAIQSVASGAPLTHWPQRPFRQPHHSASGPALVGGSSKPQPGEITLAHHGVLFLDELPEFDRKVLEVLREPLES
GQIVIARAKDRVRFPARFQLVAAMNPCPCGYLGEPSGKCSCTPDMVQRYRNKLSGPLLDRIDLHLTVAREATALNPAVPP
GEDSASAAAVVAEARERQQKRQGCANAFLDLPGLKRHCKLSTADETWLESACERLTLSLRSAHRLLKVARTLADLGQENE
IRREHLAEALQYRPATQ

Nucleotide


Download         Length: 1494 bp        

>NTDB_id=831624 QMK55_RS12390 WP_320329266.1 2717273..2718766(+) (comM) [Pseudomonas sp. P8_229]
ATGTCCCTCTCCATCGTCCACAGTCGCGCCCAGATTGGCGTGGAAGCCCCCGCTGTCACCGTCGAAGTCCATCTGGCCAA
CGGCCTGCCGTCGCTGACCATGGTCGGCCTGCCCGAAGCCGCAGTGAAGGAGAGCAAGGATCGGGTGCGCAGCGCGATCA
TCAATTCCGGTCTGCAGTTTCCGGCGCGGCGGATCACCTTGAATCTGGCGCCGGCGGATTTGCCCAAGGATGGCGGGCGG
TTTGATCTGGCGATCGCCCTTGGGATTCTGTCGGCGAGTGTGCAGGTGCCGTGCCTGACGCTGGATGATGTGGAATGCCT
GGGTGAGTTGGCGTTATCCGGCGCGGTGCGCCCGGTGCGCGGGGTGTTGCCGGCGGCACTGGCGGCGCGCAAGGCCGGGC
GGGCACTGGTGGTGCCGCGGGCGAATGCCGAGGAGGCGTGCCTGGCCTCGGGCTTGAAGGTGTTTGCGGTAGATCATCTG
CTGGAGGCGGTGGCGCATTTCAACGGGCACACGCCGGTTGAACCTTACGTGTCGGACGGTTTGATCCATGCCGCCAGACC
CTATCCCGACCTCAACGAAGTCCAGGGGCAAAAGGCCGCCAAGCGGGCGCTGCTGATTGCCGCAGCGGGCGCGCATAACC
TGTTGTTCAGTGGGCCTCCGGGTACCGGCAAGACGTTGCTGGCCAGCCGACTACCGGGATTGCTCCCACCGTTGTCCGAG
TGCGAGGCGCTGGAGGTGGCGGCGATTCAATCGGTCGCCAGTGGCGCGCCGCTGACGCATTGGCCACAACGTCCCTTTCG
TCAGCCGCACCACTCGGCATCGGGGCCGGCACTGGTCGGCGGCAGCTCCAAACCGCAACCCGGCGAAATCACTCTCGCCC
ACCATGGCGTGCTGTTTCTCGATGAACTGCCTGAGTTTGATCGCAAGGTTCTGGAGGTTCTGCGCGAGCCTCTGGAATCC
GGACAAATCGTGATCGCCCGAGCCAAGGATCGCGTGCGATTCCCGGCGCGTTTCCAGTTGGTGGCGGCGATGAACCCGTG
CCCCTGTGGATATCTTGGCGAGCCCAGCGGCAAGTGCTCATGCACCCCAGACATGGTGCAGCGCTATCGCAACAAACTGT
CGGGACCGTTGCTGGATCGGATCGACCTGCACCTGACGGTGGCGCGGGAAGCGACGGCACTGAATCCGGCAGTGCCGCCA
GGAGAGGACAGCGCCAGTGCAGCAGCCGTGGTGGCCGAAGCGCGTGAGCGCCAACAAAAGCGTCAGGGTTGTGCCAATGC
GTTTCTCGATCTGCCGGGGTTGAAGCGGCACTGCAAATTATCCACAGCCGACGAGACCTGGCTGGAGTCAGCCTGTGAAC
GGCTGACCCTGTCGCTGCGCTCGGCGCATCGACTTCTCAAGGTCGCCAGGACGTTGGCCGATCTGGGGCAGGAAAACGAG
ATCCGGCGCGAGCATCTGGCAGAGGCGTTGCAATATCGGCCGGCAACACAATGA

Domains

Predicted by InterproScan.

Subunit ChlI of Mg-chelatase (ChlI)

(21-142)

Magnesium chelatase, subunit ChlI (Mg_chelatase)

(190-390)

Magnesium chelatase, subunit ChlI C-terminal (Mg_chelatase_C)

(401-493)


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

54.274

100

0.549
  comM Vibrio campbellii strain DS40M4

54.141

99.598

0.539
  comM Glaesserella parasuis strain SC1401

53.2

100

0.535
  comM Haemophilus influenzae Rd KW20

53.2

100

0.535
  comM Legionella pneumophila str. Paris

50.201

100

0.503
  comM Legionella pneumophila strain ERS1305867

50.201

100

0.503
  RA0C_RS07335 Riemerella anatipestifer ATCC 11845 = DSM 15868

45.691

100

0.459