Detailed information    

experimental Experimentally validated

Overview

Name   epdL   Type   Machinery gene
Locus tag   MMJJ_RS05235 Genome accession   NZ_CP026606
Coordinates   967061..968710 (+) Length   549 a.a.
NCBI ID   WP_011169984.1    Uniprot ID   Q6M177
Organism   Methanococcus maripaludis strain DSM 2067     
Function   DNA uptake   
DNA binding and uptake

Function

The ΔepdJKL mutant exhibited a transformation efficiency that was 2 orders of magnitude lower than that of the wild type, confirming that the observed phenotypes were not due to secondary peptidase targets of EppA.


Genomic Context

Location: 962061..973710
Locus tag Gene name Coordinates (strand) Size (bp) Protein ID Product Description
  MMJJ_RS05215 (MMJJ_10520) - 962743..964089 (-) 1347 WP_011169988.1 RNase J family beta-CASP ribonuclease -
  MMJJ_RS05220 (MMJJ_10530) fni 964162..965229 (-) 1068 WP_104837970.1 type 2 isopentenyl-diphosphate Delta-isomerase -
  MMJJ_RS05225 (MMJJ_10540) - 965732..966013 (+) 282 WP_011169986.1 Gar1/Naf1 family protein -
  MMJJ_RS05230 (MMJJ_10550) - 966032..967051 (+) 1020 WP_104837971.1 transcription initiation factor IIB -
  MMJJ_RS05235 (MMJJ_10560) epdL 967061..968710 (+) 1650 WP_011169984.1 type II/IV secretion system ATPase subunit Machinery gene
  MMJJ_RS05240 (MMJJ_10570) epdK 968722..969780 (+) 1059 WP_013998533.1 type II secretion system F family protein Machinery gene
  MMJJ_RS05245 (MMJJ_10580) epdJ 969785..970681 (+) 897 WP_104837972.1 type II secretion system F family protein Machinery gene
  MMJJ_RS05250 (MMJJ_10590) - 970708..971295 (-) 588 WP_104837973.1 HD domain-containing protein -
  MMJJ_RS05255 (MMJJ_10600) tfe 971306..971863 (-) 558 WP_104837974.1 transcription factor E -
  MMJJ_RS05260 (MMJJ_10610) - 971867..972916 (-) 1050 WP_104837975.1 ATP-grasp domain-containing protein -

Sequence

Protein


Download         Length: 549 a.a.        Molecular weight: 61779.93 Da        Isoelectric Point: 5.7523

>NTDB_id=59 MMJJ_RS05235 WP_011169984.1 967061..968710(+) (epdL) [Methanococcus maripaludis strain DSM 2067]
MGLFDRIQSRDSNPSVAKKNNVSEKVSETPSILDNSEKVKKPEIKVGFSVNERAKQPVEEFERDSTSSILDKYFVKVDDI
DFDVIIEKENGVTLYKIPEITLMNTALAKFSDMDIKTIKAELSESTLQKLGQIQGYLKNYSEKNNLHLRDIEILHLSHYF
YLIIGKLGLLEIPLNDSKLEEVMVNGVESPSFVFHRKYQMCETNIRLDRHEATRVVESIAYLAGRTIDSRTPMLDAFLPD
GSRVNATMSDVTLGGNTITIRKFSEDPLTIVDLINFGTFDLELAAFLWQAVEGYFGAKPANTLIVGGTGSGKTTTLNVVS
MFSMYTDRLVTIEDTPELQVPLTHLIKMITRPGRPGIQGYEITMDDLIKNSLRMRPDRIFVGEVRGSEAHSLLVAMNTGH
DGCSGTLHANSADEALIRLINPPMNVPKVMMSSVDFIINQQRIKRNKKTVRRILGVVEIGGSGENITKTELFKYDGISDS
VVKTGICMWEEDVCQIAGITRDELMDDRINRKKVLKYMVNNNINDIRKVGDVLKQYQENPENVLKNILE

Nucleotide


Download         Length: 1650 bp        

>NTDB_id=59 MMJJ_RS05235 WP_011169984.1 967061..968710(+) (epdL) [Methanococcus maripaludis strain DSM 2067]
ATGGGGCTTTTTGACAGAATCCAAAGCAGAGATTCCAATCCATCTGTCGCTAAAAAAAATAATGTATCTGAAAAAGTATC
TGAAACCCCGAGCATACTTGATAATTCTGAAAAGGTCAAAAAACCCGAAATAAAAGTGGGTTTTTCAGTGAATGAACGGG
CAAAACAGCCAGTAGAAGAATTTGAAAGAGATTCTACAAGCTCAATACTTGATAAATACTTTGTAAAAGTTGATGACATT
GATTTTGATGTAATTATTGAAAAAGAAAATGGTGTCACACTATACAAGATTCCAGAAATCACTCTTATGAATACAGCTCT
TGCAAAATTTTCAGATATGGATATTAAAACAATAAAAGCGGAACTTTCAGAATCTACCCTTCAAAAATTAGGGCAGATTC
AAGGATACCTTAAAAATTATTCGGAAAAAAATAATTTACATTTAAGAGACATAGAAATACTCCATTTATCACACTATTTT
TACTTAATAATTGGAAAATTAGGGCTTTTAGAAATTCCATTAAATGATAGCAAATTAGAAGAAGTAATGGTAAATGGTGT
TGAATCACCTTCTTTTGTATTTCATAGAAAATACCAGATGTGTGAGACAAATATTAGACTTGATAGACACGAAGCAACGC
GGGTTGTTGAAAGCATTGCTTATCTTGCAGGCAGGACTATTGATTCAAGAACTCCAATGCTTGATGCATTTTTACCAGAT
GGAAGCAGGGTTAACGCTACAATGAGTGATGTTACATTGGGTGGAAATACAATTACCATTCGTAAGTTTAGTGAAGATCC
ATTAACTATTGTTGATTTGATTAATTTTGGAACTTTTGATTTAGAACTTGCGGCATTCCTCTGGCAGGCTGTTGAAGGGT
ACTTTGGTGCAAAACCTGCAAACACACTTATTGTAGGTGGAACTGGTTCGGGTAAAACTACAACTTTAAACGTTGTTTCA
ATGTTTTCGATGTATACCGATAGACTTGTAACTATTGAAGATACTCCAGAGTTACAGGTTCCACTAACGCACCTGATAAA
AATGATTACAAGACCTGGAAGACCGGGTATTCAAGGTTATGAAATCACGATGGATGACCTGATTAAAAATTCCTTAAGGA
TGAGGCCTGACAGGATATTTGTAGGGGAAGTTAGGGGTAGTGAAGCCCACTCATTGCTTGTTGCTATGAACACCGGGCAC
GATGGATGTTCCGGAACTCTGCACGCAAACAGCGCAGATGAAGCACTCATTAGGTTAATAAACCCTCCTATGAACGTTCC
AAAAGTTATGATGTCTTCAGTTGATTTTATCATAAACCAGCAGCGTATTAAACGTAATAAAAAAACTGTTAGAAGGATCC
TTGGTGTTGTTGAAATCGGAGGAAGTGGGGAAAATATTACAAAAACTGAGCTCTTTAAATACGATGGAATAAGCGACAGT
GTTGTAAAAACAGGAATTTGTATGTGGGAAGAAGACGTGTGCCAGATTGCAGGTATTACGAGAGATGAATTAATGGACGA
TAGAATCAATAGAAAGAAAGTACTAAAATATATGGTGAACAACAATATTAATGATATTAGAAAAGTAGGGGATGTACTTA
AGCAATATCAGGAAAATCCAGAAAATGTCTTGAAAAACATTTTGGAATAA

Domains

Predicted by InterproScan.

Type II/IV secretion system protein (T2SSE)

(176-445)


Secondary structure

Protein secondary structures were predicted by S4PRED and visualized by seqviz.



3D structure

Source ID Structure
  AlphaFold DB Q6M177

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

References

[1] Dallas R Fonseca et al. (2020) Type IV-Like Pili Facilitate Transformation in Naturally Competent Archaea. Journal of Bacteriology 202(21):e00355-20. [PMID: 32817089]