Detailed information    

insolico Bioinformatically predicted

Overview

Name   comM   Type   Machinery gene
Locus tag   NF675_RS25535 Genome accession   NZ_CP099596
Coordinates   5769439..5770932 (+) Length   497 a.a.
NCBI ID   WP_252879084.1    Uniprot ID   -
Organism   Pseudomonas siliginis strain OTU6BAGNBB1     
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 5750897..5782550 5769439..5770932 within 0


Gene organization within MGE regions


Location: 5750897..5782550
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  NF675_RS25425 (NF675_25425) - 5751533..5751688 (-) 156 Protein_5003 sensor histidine kinase -
  NF675_RS25430 (NF675_25430) argH 5752006..5753400 (+) 1395 WP_039757402.1 argininosuccinate lyase -
  NF675_RS25435 (NF675_25435) - 5753520..5754179 (-) 660 WP_150742927.1 glutathione S-transferase -
  NF675_RS25440 (NF675_25440) - 5754303..5754593 (+) 291 WP_150637099.1 hypothetical protein -
  NF675_RS25445 (NF675_25445) - 5754791..5755036 (+) 246 WP_003229392.1 TIGR02647 family protein -
  NF675_RS25450 (NF675_25450) - 5755219..5758062 (+) 2844 WP_252879080.1 class I adenylate cyclase -
  NF675_RS25455 (NF675_25455) rnk 5758072..5758491 (-) 420 WP_024014769.1 nucleoside diphosphate kinase regulator -
  NF675_RS25460 (NF675_25460) - 5758746..5758967 (-) 222 WP_110599860.1 DUF1289 domain-containing protein -
  NF675_RS25465 (NF675_25465) cyaY 5758971..5759303 (-) 333 WP_041476930.1 iron donor protein CyaY -
  NF675_RS25470 (NF675_25470) - 5759618..5759788 (+) 171 WP_016772589.1 lipoprotein -
  NF675_RS25475 (NF675_25475) lysA 5759798..5761045 (+) 1248 WP_056791636.1 diaminopimelate decarboxylase -
  NF675_RS25480 (NF675_25480) dapF 5761049..5761879 (+) 831 WP_056791632.1 diaminopimelate epimerase -
  NF675_RS25485 (NF675_25485) - 5761893..5762618 (+) 726 WP_252879081.1 DUF484 family protein -
  NF675_RS25490 (NF675_25490) xerC 5762621..5763520 (+) 900 WP_095181255.1 tyrosine recombinase XerC -
  NF675_RS25495 (NF675_25495) - 5763517..5764227 (+) 711 WP_252879082.1 HAD-IA family hydrolase -
  NF675_RS25500 (NF675_25500) sutA 5764420..5764746 (-) 327 WP_056791627.1 transcriptional regulator SutA -
  NF675_RS25505 (NF675_25505) - 5764848..5765273 (-) 426 WP_016772582.1 secondary thiamine-phosphate synthase enzyme YjbQ -
  NF675_RS25510 (NF675_25510) - 5765489..5766826 (-) 1338 WP_041476939.1 ammonium transporter -
  NF675_RS25515 (NF675_25515) glnK 5766864..5767202 (-) 339 WP_002555808.1 P-II family nitrogen regulator -
  NF675_RS25520 (NF675_25520) - 5767597..5767857 (+) 261 WP_008086041.1 accessory factor UbiK family protein -
  NF675_RS25525 (NF675_25525) - 5768069..5768338 (-) 270 WP_252879083.1 HigA family addiction module antitoxin -
  NF675_RS25530 (NF675_25530) - 5768591..5769055 (+) 465 WP_082530345.1 hypothetical protein -
  NF675_RS25535 (NF675_25535) comM 5769439..5770932 (+) 1494 WP_252879084.1 YifB family Mg chelatase-like AAA ATPase Machinery gene
  NF675_RS25540 (NF675_25540) - 5770929..5772143 (-) 1215 WP_252879085.1 aldose 1-epimerase family protein -
  NF675_RS25545 (NF675_25545) - 5772339..5774315 (-) 1977 WP_016772578.1 methyl-accepting chemotaxis protein -
  NF675_RS25550 (NF675_25550) - 5774504..5775424 (-) 921 WP_024014781.1 LysR substrate-binding domain-containing protein -
  NF675_RS25555 (NF675_25555) - 5775585..5776979 (+) 1395 WP_252879086.1 NorM family multidrug efflux MATE transporter -
  NF675_RS25560 (NF675_25560) - 5777108..5778781 (-) 1674 WP_041476648.1 bifunctional diguanylate cyclase/phosphodiesterase -
  NF675_RS25565 (NF675_25565) rep 5779054..5781063 (+) 2010 WP_016772574.1 DNA helicase Rep -
  NF675_RS25570 (NF675_25570) - 5781121..5781693 (+) 573 WP_016772573.1 xanthine phosphoribosyltransferase -

Sequence

Protein


Download         Length: 497 a.a.        Molecular weight: 52840.97 Da        Isoelectric Point: 8.0086

>NTDB_id=700886 NF675_RS25535 WP_252879084.1 5769439..5770932(+) (comM) [Pseudomonas siliginis strain OTU6BAGNBB1]
MSLSIVHSRAQIGVEAPAVTVEVHLANGLPSLTMVGLPEAAVKESKDRVRSAIINSGLQFPARRITLNLAPADLPKDGGR
FDLAIALGILSASVQVPCLTLDEVECLGELALSGAVRPVRGVLPAALAARKAGRALVVPRANAEEACLASGLKVFAVDHL
LEAVAHFNGHTPVEPYVSDGLMHAAKPYPDLNEVQGQTAAKRALLIAAAGAHNLLFSGPPGTGKTLLASRLPGLLPPLSE
CEALEVAAIQSVASGVPLTHWPQRPFRQPHHSASGPALVGGSSKPQPGEITLAHHGVLFLDELPEFDRKVLEVLREPLES
GHIVIARAKDRVRFPARFQLVAAMNPCPCGYLGEPSGKCSCTPDMVQRYRNKLSGPLLDRIDLHLTVAREATALNPAAKP
GENSASAAALVAEARERQQKRQGCANAFLDLPGLKRHCKLSTADETWLESACERLTLSLRSAHRLLKVARTLADLEQADA
ITREHLAEALQYRPATP

Nucleotide


Download         Length: 1494 bp        

>NTDB_id=700886 NF675_RS25535 WP_252879084.1 5769439..5770932(+) (comM) [Pseudomonas siliginis strain OTU6BAGNBB1]
ATGTCCCTCTCCATTGTCCACAGTCGCGCCCAGATTGGCGTGGAAGCCCCCGCTGTTACCGTCGAAGTCCATCTGGCCAA
CGGTCTGCCGTCGCTGACCATGGTCGGCCTGCCTGAAGCGGCGGTGAAGGAGAGCAAGGATCGCGTACGCAGCGCGATCA
TCAATTCCGGACTGCAATTTCCGGCGCGGCGGATCACCTTGAATCTGGCGCCGGCGGACCTGCCCAAGGATGGCGGGCGG
TTTGATCTGGCGATTGCCTTGGGGATTCTGTCGGCGAGTGTGCAGGTGCCCTGCCTGACCCTGGACGAGGTGGAATGTCT
GGGTGAGTTGGCGCTGTCGGGTGCCGTGCGGCCGGTGCGTGGTGTGCTGCCGGCGGCACTGGCGGCGCGCAAGGCCGGGC
GGGCGCTGGTGGTGCCTCGAGCGAATGCAGAAGAGGCGTGCCTGGCATCCGGGCTCAAGGTGTTTGCGGTGGATCATTTG
CTGGAAGCGGTGGCGCATTTCAATGGGCACACGCCGGTCGAGCCTTACGTTTCCGATGGTTTGATGCACGCTGCCAAGCC
CTATCCCGACCTCAACGAAGTGCAGGGTCAAACAGCCGCAAAGCGCGCACTGCTGATTGCCGCAGCGGGAGCTCACAATT
TGTTGTTCAGCGGGCCACCGGGAACCGGCAAGACATTACTGGCCAGTCGTCTGCCGGGTTTGCTGCCGCCGCTTTCCGAA
TGCGAGGCGCTGGAAGTGGCAGCGATTCAATCGGTCGCCAGCGGGGTTCCCTTGACTCACTGGCCGCAGCGGCCGTTCAG
GCAACCGCACCATTCGGCTTCAGGGCCGGCATTGGTCGGTGGCAGCTCGAAACCGCAACCCGGCGAGATCACCCTCGCCC
ACCATGGCGTGCTGTTTCTCGATGAGTTGCCGGAGTTTGATCGCAAGGTGTTGGAAGTTTTACGCGAGCCTTTGGAGTCG
GGACATATCGTCATCGCGCGGGCCAAGGATCGCGTACGTTTCCCCGCGCGATTTCAATTGGTTGCCGCGATGAATCCGTG
TCCCTGTGGATATCTTGGCGAACCCAGCGGCAAATGCTCGTGCACACCGGATATGGTCCAACGCTATCGCAACAAGTTGT
CAGGGCCGCTGCTGGATCGTATCGATCTGCACCTGACCGTGGCGCGGGAGGCAACCGCGTTGAATCCGGCAGCCAAGCCC
GGCGAAAACAGCGCCAGCGCTGCGGCTTTGGTGGCCGAGGCTCGCGAACGACAGCAGAAGCGTCAGGGCTGTGCCAATGC
GTTTCTCGATCTGCCGGGATTGAAGCGGCACTGCAAGTTATCCACAGCCGATGAGACATGGCTGGAATCAGCCTGTGAAC
GGCTGACGCTTTCGCTGCGCTCGGCGCATCGCCTGCTCAAGGTCGCGCGCACACTGGCGGATCTTGAGCAGGCCGATGCG
ATTACCCGCGAGCATCTGGCCGAGGCACTGCAATACCGGCCGGCGACACCTTAA

Domains

Predicted by InterproScan.

Magnesium chelatase, subunit ChlI (Mg_chelatase)

(190-390)

Magnesium chelatase, subunit ChlI C-terminal (Mg_chelatase_C)

(401-493)

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

54.747

99.598

0.545
  comM Vibrio campbellii strain DS40M4

54.343

99.598

0.541
  comM Haemophilus influenzae Rd KW20

53.106

100

0.533
  comM Glaesserella parasuis strain SC1401

52.59

100

0.531
  comM Legionella pneumophila str. Paris

50.402

100

0.505
  comM Legionella pneumophila strain ERS1305867

50.402

100

0.505
  RA0C_RS07335 Riemerella anatipestifer ATCC 11845 = DSM 15868

45.491

100

0.457