Detailed information of regulator


Summary

Regulator ID REG0356 experimental
Regulator type protein
Regulatory pathway (from literatures) TCS-RR
KEGG pathway (determined by BlastKOALA) -
Related T6SS T6SS01037 insolico (Type i1)
Strain Dickeya zeae EC1
Replicon chromosome
Sequence Protein sequence (494 a.a.); Nucleotide sequence (1482 bp)
Description Transcriptome analysis showed that T6SS was the most affected secretion system, with reductions in the ΔvfmH mutant ranging from 6.6 to 1196.9‐fold. We next confirmed this result by qRT‐PCR analysis on nine T6SS genes and found that their expression levels were significantly reduced by 2.6–8.8‐fold.
Reference
External database links

Locus tag (Gene) W909_RS11820 (VfmH)
Coordinates (Strand) 2699617..2701098 (+)
NCBI ID 515507611
RefSeq NZ_CP006929
Uniprot ID A0A0A8FEH8_9GAMM
KEGG ID dzc:W909_12200
KEGG pathway (determined by BlastKOALA) -
PDB ID -
  Target
Target Regulation (↓/↑) Target sequence
T6SS transcripts ↓ -
Pfam domain hit(s) of regulator

Domain Pfam ID E-value Aligned region
PepSY_TM PF03929.18 1.1e-60 45..428
Transmembrane helices

  • Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction                 Region     Sequence
Inside 1-47 MSESKTVTTRIHQAETLTDVSPVQNASHDNLVRSQRIAMQALLMRLH
Transmembrane helix 48-70 FYIGLFVGPFIFIAALTGTLYVL
Outside 71-190 TPQIETKLYSQQLFTDTSGTPQLLSHQIDAAAHALGDKAQYARLTAVRPAPGAGQTTRVMYSLPELGPSESFAVFVDPVSLDIRGALTVYGTSGILPFRTALDYLHRNLLLGDIGRHYSE
Transmembrane helix 191-210 LAASWLWIAALGGGYIWLST
Inside 211-241 RKVQPRSRRRSTSKRPSPVRQRQGLRRNHAS
Transmembrane helix 242-264 LGLLLLLGLLFFSATGLTWSRWA
Outside 265-404 GDNVAQLRAVLGWQTPSVNTHLDTVPNTPASPHAEHHMMSMPAMPSPVTPQIFDNVLAAARDAGIDAGKIEIRPSLKPQRAWTVSEIDRSWPTQVDSAAVDPTTFHVIDKVRFADYPLAAKLTRWGIDAHMGVLFGLPNQ
Transmembrane helix 405-427 LLLAAFGLGLCCLIVWGYRMWWI
Inside 428-454 RRPAYASARNPVQTLTTAFLQLAVPLR
Transmembrane helix 455-477 LLVLVISGVLMVSLPVMGVSLVL
Outside 478-493 FLVVDIWRWSRHRHVG


Signal peptides
  • Sec/SPI: "standard" secretory signal peptides transported by the Sec translocon and cleaved by Signal Peptidase I (Lep).
  • Sec/SPII: lipoprotein signal peptides transported by the Sec translocon and cleaved by Signal Peptidase II (Lsp).
  • Tat/SPI: Tat signal peptides transported by the Tat translocon and cleaved by Signal Peptidase I (Lep).
Prediction        Probability Cleavage site Signal peptide sequence
Other 0.9974 - -


  Protein sequence of regulator: 494 a.a.    .

>REG0356 NZ_CP006929:2699617-2701098 [Dickeya zeae EC1]
MSESKTVTTRIHQAETLTDVSPVQNASHDNLVRSQRIAMQALLMRLHFYIGLFVGPFIFIAALTGTLYVLTPQIETKLYS
QQLFTDTSGTPQLLSHQIDAAAHALGDKAQYARLTAVRPAPGAGQTTRVMYSLPELGPSESFAVFVDPVSLDIRGALTVY
GTSGILPFRTALDYLHRNLLLGDIGRHYSELAASWLWIAALGGGYIWLSTRKVQPRSRRRSTSKRPSPVRQRQGLRRNHA
SLGLLLLLGLLFFSATGLTWSRWAGDNVAQLRAVLGWQTPSVNTHLDTVPNTPASPHAEHHMMSMPAMPSPVTPQIFDNV
LAAARDAGIDAGKIEIRPSLKPQRAWTVSEIDRSWPTQVDSAAVDPTTFHVIDKVRFADYPLAAKLTRWGIDAHMGVLFG
LPNQLLLAAFGLGLCCLIVWGYRMWWIRRPAYASARNPVQTLTTAFLQLAVPLRLLVLVISGVLMVSLPVMGVSLVLFLV
VDIWRWSRHRHVG*

  Nucleotide sequence of regulator: 1482 bp    .

>REG0356 NZ_CP006929:2699617-2701098 [Dickeya zeae EC1]
ATGTCCGAGTCAAAAACAGTCACCACCCGCATCCATCAGGCAGAAACACTCACGGATGTGTCGCCCGTGCAAAACGCGAG
CCACGACAATCTGGTTCGGTCTCAACGTATCGCGATGCAGGCATTATTGATGCGTTTGCATTTTTATATTGGACTATTTG
TTGGCCCGTTTATCTTTATTGCAGCCCTGACGGGCACGCTCTATGTGCTAACTCCCCAGATTGAAACAAAGCTCTATTCC
CAGCAGTTGTTTACCGATACCAGCGGAACGCCGCAGTTGCTGTCGCACCAAATTGACGCGGCAGCGCATGCGCTGGGTGA
TAAGGCGCAATATGCCCGACTGACCGCCGTTCGACCCGCACCTGGTGCCGGGCAGACGACGCGGGTGATGTATTCTCTGC
CAGAACTCGGCCCATCAGAAAGTTTTGCGGTCTTCGTGGACCCGGTATCCCTTGATATTCGTGGCGCACTGACCGTCTAT
GGCACCAGTGGTATTTTGCCGTTTCGCACCGCGCTGGATTATCTGCATCGCAACCTGTTGCTGGGCGATATTGGTCGCCA
TTACAGCGAACTGGCCGCCTCCTGGCTATGGATTGCAGCACTGGGAGGGGGTTATATCTGGCTCTCGACCCGCAAAGTAC
AGCCTCGTTCACGTCGTCGTTCCACCAGCAAGCGCCCAAGCCCCGTCCGGCAACGTCAGGGATTACGCCGCAATCATGCG
TCCCTCGGCCTGCTGTTGCTGCTTGGATTGCTCTTCTTTTCAGCAACCGGTCTGACCTGGTCACGCTGGGCAGGTGACAA
TGTTGCCCAGCTTCGCGCTGTACTCGGCTGGCAAACCCCATCGGTGAATACCCATCTGGATACGGTGCCGAACACGCCAG
CGTCACCACATGCAGAACATCACATGATGTCTATGCCTGCGATGCCCTCCCCTGTCACACCGCAGATCTTCGATAACGTG
CTAGCCGCCGCCAGAGACGCGGGTATTGATGCCGGGAAAATAGAGATTCGCCCATCACTCAAACCTCAGCGAGCCTGGAC
TGTCAGCGAAATTGATCGGTCATGGCCAACACAGGTTGATTCGGCTGCCGTTGACCCAACAACGTTCCACGTCATAGATA
AAGTCCGCTTTGCCGACTATCCACTGGCCGCCAAACTGACTCGCTGGGGCATTGACGCTCATATGGGCGTACTATTCGGC
CTGCCCAACCAGTTGTTGCTCGCTGCTTTTGGACTCGGGCTTTGCTGCCTGATTGTCTGGGGATATCGCATGTGGTGGAT
ACGACGTCCGGCATATGCCTCTGCCCGCAACCCGGTACAGACCTTAACCACAGCGTTCTTGCAATTGGCTGTACCTCTGC
GACTGCTGGTGTTAGTCATTTCAGGTGTGCTGATGGTTAGCCTGCCCGTCATGGGGGTCAGTCTGGTGCTATTTCTGGTC
GTCGATATCTGGCGATGGTCACGACATCGGCACGTTGGGTAA