Detailed information of regulator


Summary

Regulator ID REG0351 experimental
Regulator type protein
Regulatory pathway (from literatures) TCS-RR
KEGG pathway (determined by BlastKOALA) Two-component system (map02020); Biofilm formation - Vibrio cholerae (map05111); Biofilm formation - Pseudomonas aeruginosa (map02025); Biofilm formation - Escherichia coli (map02026)
Related T6SS T6SS00431 insolico (Type i4a); T6SS00432 insolico (Type i3)
Strain Pseudomonas brassicacearum subsp. brassicacearum NFM421
Replicon chromosome
Sequence Protein sequence (917 a.a.); Nucleotide sequence (2751 bp)
Description The expression of the hcp1 and hcp3 genes, encoding potentially secreted Hcp proteins, was downregulated in the gacS-negative variant V1, by comparison with the wild type by RT-PCR.
Reference
External database links

Locus tag (Gene) PSEBR_RS22825 (GacS)
Coordinates (Strand) 5188012..5190762 (+)
NCBI ID 503459407
RefSeq NC_015379
Uniprot ID A0A2M8SMN2_9PSED, F2KKL4_PSEBN
KEGG ID pba:PSEBR_a4261
KEGG pathway (determined by BlastKOALA) map02020; map05111; map02025; map02026
PDB ID -
  Target
Target Regulation (↓/↑) Target sequence
hcp1 transcript ↓ -
hcp2 transcript ↓ -
Pfam domain hit(s) of regulator

Domain Pfam ID E-value Aligned region
HATPase_c PF02518.28 4.8e-28 396..511
Response_reg PF00072.26 5.1e-28 669..783
HisKA PF00512.27 6.6e-22 285..349
sCache_4 PF09984.11 1.5e-15 36..168
HAMP PF00672.27 2.5e-11 190..240
Hpt PF01627.25 5.1e-11 829..910
Transmembrane helices

  • Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction                 Region     Sequence
Outside 1-9 VLKKLGIKG
Transmembrane helix 10-32 RVLLLTLLPTSLMALVLGGYFTW
Inside 33-168 MQQSDLHAQLLQRGEMIAEQLAPLVAPAMSRQDTDLLERIATQSLEQADVRAVTFLAPDRIPLAHAGPTMLNRAPEGNSTQLLQRTGNDATRYLLPVFGKHRNLAGELIPEEADRLLGWVELELSHSGMLLRGYRS
Transmembrane helix 169-188 LFASLLLIAAGLCLTGLLAL
Outside 189-916 RMGRTINRPLSQIKQAVAQLKDGHLETRLPPLGSQELDELASGINRMASTLQNAQEELQHSIDQATEDVRQNLETIEIQNIELDLARKEALEASRIKSEFLANMSHEIRTPLNGILGFTHLLQKSELTPRQLDYLGTIEKSADSLLGIINEILDFSKIEAGKLVLDSIPFNLRDLLQDTLTILAPAAHAKQLELVSLVYRDTPLSLVGDPLRLKQILTNLVSNAIKFTREGTIVARAMLEDEHEDSVQLRISIQDTGIGLSNQDVRALFQAFSQADNSLSRQPGGTGLGLVISKRLVEQMGGEIGVDSTPGEGSEFWISLRLPKTRDDAEDLPGPPLLGRRVAVLENHELARQALQHQLEDCGLQVTPFNTLESLTNGITVAHQTDQAIDLAVLGITSNDMPPERLNQHIWDLEHLGCKVLVLCPTTEQTLYHLSVPNPHSQLQAKPACTRKLRRALSDLVNPRPTRSEPHEPVSSRAPKVLCVDDNPANLLLVQTLLEDMGAKVLAVESGYAAVKAVQKETFDLVLMDVQMPGMDGRQSTEAIRQWESERHCTPLPIVALTAHAMANEKRALLQSGMDDYLTKPISERQLAQVVLKWTGLALRNQSPERSGDAQGGSELLVLDHEEGLRLAAGKADLAADMLAMLLASLEADREAIRQASEANDHNALIERVHRLHGATRYCGVPQLRAACQRSETLLKQQDPKATAALEELERAINRLASEARISA


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 0.9543 - -


  Protein sequence of regulator: 917 a.a.    .

>REG0351 NC_015379:5188012-5190762 [Pseudomonas brassicacearum subsp. brassicacearum NFM421]
VLKKLGIKGRVLLLTLLPTSLMALVLGGYFTWMQQSDLHAQLLQRGEMIAEQLAPLVAPAMSRQDTDLLERIATQSLEQA
DVRAVTFLAPDRIPLAHAGPTMLNRAPEGNSTQLLQRTGNDATRYLLPVFGKHRNLAGELIPEEADRLLGWVELELSHSG
MLLRGYRSLFASLLLIAAGLCLTGLLALRMGRTINRPLSQIKQAVAQLKDGHLETRLPPLGSQELDELASGINRMASTLQ
NAQEELQHSIDQATEDVRQNLETIEIQNIELDLARKEALEASRIKSEFLANMSHEIRTPLNGILGFTHLLQKSELTPRQL
DYLGTIEKSADSLLGIINEILDFSKIEAGKLVLDSIPFNLRDLLQDTLTILAPAAHAKQLELVSLVYRDTPLSLVGDPLR
LKQILTNLVSNAIKFTREGTIVARAMLEDEHEDSVQLRISIQDTGIGLSNQDVRALFQAFSQADNSLSRQPGGTGLGLVI
SKRLVEQMGGEIGVDSTPGEGSEFWISLRLPKTRDDAEDLPGPPLLGRRVAVLENHELARQALQHQLEDCGLQVTPFNTL
ESLTNGITVAHQTDQAIDLAVLGITSNDMPPERLNQHIWDLEHLGCKVLVLCPTTEQTLYHLSVPNPHSQLQAKPACTRK
LRRALSDLVNPRPTRSEPHEPVSSRAPKVLCVDDNPANLLLVQTLLEDMGAKVLAVESGYAAVKAVQKETFDLVLMDVQM
PGMDGRQSTEAIRQWESERHCTPLPIVALTAHAMANEKRALLQSGMDDYLTKPISERQLAQVVLKWTGLALRNQSPERSG
DAQGGSELLVLDHEEGLRLAAGKADLAADMLAMLLASLEADREAIRQASEANDHNALIERVHRLHGATRYCGVPQLRAAC
QRSETLLKQQDPKATAALEELERAINRLASEARISA*

  Nucleotide sequence of regulator: 2751 bp    .

>REG0351 NC_015379:5188012-5190762 [Pseudomonas brassicacearum subsp. brassicacearum NFM421]
GTGCTCAAGAAACTGGGAATCAAAGGCCGCGTGCTGTTGCTGACCCTGTTGCCAACCAGCCTGATGGCGCTGGTCCTGGG
CGGCTATTTCACCTGGATGCAGCAATCGGACCTGCACGCCCAGTTGTTGCAACGTGGCGAGATGATCGCCGAACAACTTG
CGCCACTGGTCGCCCCAGCCATGAGCCGCCAGGACACCGATCTGCTGGAGCGCATCGCCACCCAGTCCCTCGAACAGGCG
GACGTGCGCGCCGTAACCTTTCTCGCCCCCGACCGCATACCACTGGCCCACGCTGGCCCGACCATGCTCAACCGGGCACC
GGAGGGCAACAGCACGCAGCTACTGCAACGCACTGGCAACGACGCCACGCGCTACCTGCTGCCGGTATTCGGCAAGCACC
GCAACCTGGCGGGCGAACTGATTCCCGAAGAAGCCGACCGCCTGTTGGGCTGGGTCGAGTTGGAGTTGTCCCACAGCGGC
ATGTTGCTGCGTGGCTATCGCAGCCTGTTCGCCAGCCTGCTGCTGATCGCCGCCGGCCTGTGCCTGACCGGGTTGCTGGC
CCTGCGCATGGGCCGCACGATCAACCGTCCACTGAGCCAGATCAAGCAGGCCGTGGCGCAACTCAAGGACGGTCACCTGG
AAACCCGCCTGCCGCCGCTGGGCAGCCAGGAGCTGGACGAACTGGCCTCGGGCATCAACCGCATGGCCAGTACCTTGCAG
AACGCCCAGGAAGAATTGCAGCACAGCATCGACCAGGCCACCGAAGACGTACGCCAGAACCTGGAAACCATCGAGATCCA
GAACATCGAGCTGGACCTGGCCCGCAAGGAAGCCCTGGAAGCGAGCCGGATCAAATCCGAGTTCCTGGCGAACATGAGCC
ATGAAATCCGCACACCGCTCAACGGCATCCTCGGTTTTACCCACCTGTTGCAGAAAAGCGAACTGACCCCGCGCCAGCTC
GACTACCTGGGCACCATCGAGAAATCCGCCGACAGCCTGCTGGGGATCATCAACGAGATCCTCGACTTTTCGAAGATCGA
GGCCGGCAAGTTGGTGCTCGACAGCATTCCGTTCAACCTGCGCGACCTGCTGCAAGACACCCTGACCATCCTCGCCCCCG
CCGCCCATGCCAAGCAGTTGGAACTGGTGAGCCTGGTCTACCGGGACACGCCGCTGTCGCTGGTGGGCGATCCGCTGCGC
CTCAAGCAGATCCTGACCAACCTGGTGAGCAACGCCATCAAGTTCACCCGCGAGGGCACCATCGTCGCCCGGGCCATGCT
CGAAGACGAACACGAAGACAGCGTGCAGTTGCGCATCAGCATCCAGGACACGGGTATCGGCCTGTCCAACCAGGATGTGC
GAGCGCTGTTCCAGGCGTTCAGCCAGGCTGACAACTCACTGTCGCGGCAACCGGGGGGCACCGGGTTGGGCCTGGTGATT
TCCAAGCGCCTGGTGGAACAGATGGGCGGGGAGATCGGCGTCGACAGCACACCGGGCGAAGGCTCGGAGTTCTGGATCAG
CCTGCGCCTGCCCAAGACCCGCGACGATGCCGAGGACCTGCCCGGCCCGCCGTTGCTGGGCCGGCGCGTGGCGGTGCTGG
AGAATCACGAACTGGCCCGTCAGGCCTTGCAGCACCAGCTCGAAGACTGCGGCCTGCAAGTGACGCCGTTCAACACCCTG
GAAAGCCTGACCAACGGCATCACCGTCGCCCACCAGACCGATCAGGCGATCGACCTGGCCGTGCTGGGCATCACCAGCAA
CGACATGCCACCGGAGCGCCTCAACCAACACATCTGGGACCTTGAGCACCTGGGCTGCAAAGTACTCGTGCTGTGCCCCA
CCACCGAACAGACCCTGTACCACCTCTCGGTGCCCAACCCTCACAGCCAGCTCCAGGCCAAGCCGGCCTGCACCCGCAAG
TTGCGCCGCGCGCTTTCCGACCTGGTCAACCCGCGCCCGACCCGCAGCGAACCCCACGAGCCGGTTTCCAGCCGCGCCCC
GAAAGTGCTGTGCGTGGACGACAACCCGGCCAACCTGCTGCTGGTGCAGACCCTGCTCGAAGACATGGGCGCCAAGGTGC
TGGCCGTGGAAAGCGGCTATGCGGCGGTCAAGGCCGTGCAGAAGGAAACCTTCGACCTGGTCTTGATGGACGTGCAGATG
CCCGGCATGGACGGTCGCCAGAGCACCGAGGCGATCCGCCAGTGGGAAAGCGAGCGGCACTGCACGCCGCTGCCGATCGT
CGCCCTCACCGCCCACGCCATGGCCAACGAAAAGCGTGCCCTGCTGCAAAGCGGCATGGACGACTACCTGACCAAACCCA
TCAGCGAGCGGCAACTGGCCCAGGTGGTGCTCAAATGGACTGGCCTGGCCCTGCGCAACCAGTCACCGGAGCGCAGCGGC
GATGCCCAGGGCGGCAGCGAACTGCTGGTGCTCGATCACGAAGAAGGCCTGCGCCTGGCCGCCGGCAAGGCCGACCTGGC
GGCGGACATGCTGGCGATGCTGCTGGCGTCCCTGGAAGCCGACCGCGAAGCGATCCGCCAGGCCAGCGAGGCCAACGATC
ACAACGCACTGATCGAACGCGTCCACCGCCTGCACGGCGCCACCCGCTACTGCGGCGTACCGCAATTGCGGGCGGCCTGC
CAGCGCAGCGAAACCCTGCTCAAGCAACAGGATCCCAAGGCCACCGCCGCCCTGGAAGAATTGGAGCGGGCCATCAACCG
CCTGGCCAGCGAGGCCCGTATCAGCGCCTGA