Detailed information of regulator


Summary

Regulator ID REG0152 experimental
Regulator type protein
Regulatory pathway (from literatures) QS regulatory pathway
KEGG pathway (determined by BlastKOALA) Biofilm formation - Pseudomonas aeruginosa (map02025)
Related T6SS T6SS00086 experimental (Type i4b)
Strain Pseudomonas syringae pv. syringae B728a
Replicon chromosome
Sequence Protein sequence (930 a.a.); Nucleotide sequence (2790 bp)
Description Results of the qRT-PCR studies of the B728a ΔretS strain exhibited a 2.8-fold increase in icmF transcript levels compared to those of wild-type B728a. The secretion of Hcp-VSV by the B728a ΔretS strain was reduced to nearly wild-type levels (2.5% of total Hcp-VSV in the culture) when intact retS was present in trans.
Reference
External database links

Locus tag (Gene) Psyr_4408 (retS)
Coordinates (Strand) 5270882..5273671 (+)
NCBI ID 489494774
RefSeq NC_007005
Uniprot ID Q4ZN34_PSEU2, A0A0Q0AN12_PSESX, A0A132FMG9_PSESY
KEGG ID psb:Psyr_4408
KEGG pathway (determined by BlastKOALA) map02025
PDB ID -
  Target
Target Regulation (↓/↑) Target sequence
T6SS transcription ↑ -
Pfam domain hit(s) of regulator

Domain Pfam ID E-value Aligned region
Response_reg PF00072.26 4e-22 792..906
Response_reg PF00072.26 3.4e-19 643..759
HisKA PF00512.27 5.4e-18 397..461
7TMR-DISMED2 PF07696.13 1.5e-17 31..158
7TMR-DISM_7TM PF07695.13 2.2e-17 172..372
HATPase_c PF02518.28 1.7e-13 508..623
Transmembrane helices

  • Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction                 Region     Sequence
Inside 1-2 VR
Transmembrane helix 3-25 WLRIAIASTVGLLTLLFMLSAQA
Outside 26-168 EHGAGWSTLLDEKAHLTLDEIRSARYQNQFSPIELERVTAADRDSALWLHYRLQPTQHEQLLRIFAPDLSSADMYVMDGDRQIDHVRTGNDVPIEDQRLPSNDFLLPVPQSSAPLDIYLRLVSAQKMRPSITLEPAIASAANE
Transmembrane helix 169-186 TQPLLFGLLFGALSMLIV
Inside 187-198 QNLTRYGHTRSR
Transmembrane helix 199-221 SNLWLAACESLLGLSALLLLNLL
Outside 222-235 RPIDPWNIAQTPSA
Transmembrane helix 236-258 HLALLLAAVAGLIYTYCFFVHRN
Inside 259-264 ARKLDR
Transmembrane helix 265-282 LLLGNAVLMGIGALLVLF
Outside 283-285 DEK
Transmembrane helix 286-308 LPINFLTFGLVSLTTLSILAVSM
Inside 309-319 WHWQKGYRSAR
Transmembrane helix 320-342 LFVLGMITFNIGYMVVLPGLLWL
Outside 343-347 SLVPP
Transmembrane helix 348-370 QWLILALLSVFCISGVLMSLALS
Inside 371-929 ERHRSITEDRFSISRDQAASTAEINAKAEFLAKISHEIRTPMNGVLGMTELLLGTPLSVKQRDYVQTIHSAGNELLTLINEILDITKLESGQIELDDVQFDIGALVEDCLNIFRAKAEQQQVELISQIQPQVPRVINGDPTRLRQTLLSLLENALKKTDEGEILLAVSLESSKSGNTRLRISVQDSGESLSDEEREELLHAELHSRNFLASSRLGGHLGLVIARQLIVLMDGEFGIQNTGAQGNTLWLNLPLDAKLLEQPTIDLDSPLKDARVLVVDDNDTCRKVLVQQCSAWGLNVSAVASGKEALALLRTKAHLRDYFDVVLLDQNMPGMTGMQLAAKIKEDPSLNHDILLIMLTGISNAPSKIIARNSGIKRILAKPVAGYTLKTTLADELTQLNKGVVSNKPGPVVTPPVNVPGDFRILVAEDNSISTKVIRGMLGKLNLNPDTASNGEEALRAMKAQRYDLVLMDCEMPILDGFSATEQLRAWEVGNQRVRTPVVALTAHILTEHKDRARQAGMDGHMAKPIELSQLRELVEHWVAHRDKARGLTSDGEHYRQN


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
SP(Sec/SPI) 0.9394 pos: 25-26. AQA-EH. VRWLRIAIASTVGLLTLLFMLSAQA


  Protein sequence of regulator: 930 a.a.    .

>REG0152 NC_007005:5270882-5273671 [Pseudomonas syringae pv. syringae B728a]
VRWLRIAIASTVGLLTLLFMLSAQAEHGAGWSTLLDEKAHLTLDEIRSARYQNQFSPIELERVTAADRDSALWLHYRLQP
TQHEQLLRIFAPDLSSADMYVMDGDRQIDHVRTGNDVPIEDQRLPSNDFLLPVPQSSAPLDIYLRLVSAQKMRPSITLEP
AIASAANETQPLLFGLLFGALSMLIVQNLTRYGHTRSRSNLWLAACESLLGLSALLLLNLLRPIDPWNIAQTPSAHLALL
LAAVAGLIYTYCFFVHRNARKLDRLLLGNAVLMGIGALLVLFDEKLPINFLTFGLVSLTTLSILAVSMWHWQKGYRSARL
FVLGMITFNIGYMVVLPGLLWLSLVPPQWLILALLSVFCISGVLMSLALSERHRSITEDRFSISRDQAASTAEINAKAEF
LAKISHEIRTPMNGVLGMTELLLGTPLSVKQRDYVQTIHSAGNELLTLINEILDITKLESGQIELDDVQFDIGALVEDCL
NIFRAKAEQQQVELISQIQPQVPRVINGDPTRLRQTLLSLLENALKKTDEGEILLAVSLESSKSGNTRLRISVQDSGESL
SDEEREELLHAELHSRNFLASSRLGGHLGLVIARQLIVLMDGEFGIQNTGAQGNTLWLNLPLDAKLLEQPTIDLDSPLKD
ARVLVVDDNDTCRKVLVQQCSAWGLNVSAVASGKEALALLRTKAHLRDYFDVVLLDQNMPGMTGMQLAAKIKEDPSLNHD
ILLIMLTGISNAPSKIIARNSGIKRILAKPVAGYTLKTTLADELTQLNKGVVSNKPGPVVTPPVNVPGDFRILVAEDNSI
STKVIRGMLGKLNLNPDTASNGEEALRAMKAQRYDLVLMDCEMPILDGFSATEQLRAWEVGNQRVRTPVVALTAHILTEH
KDRARQAGMDGHMAKPIELSQLRELVEHWVAHRDKARGLTSDGEHYRQN*

  Nucleotide sequence of regulator: 2790 bp    .

>REG0152 NC_007005:5270882-5273671 [Pseudomonas syringae pv. syringae B728a]
GTGCGCTGGCTCAGGATTGCCATAGCCTCAACCGTCGGACTGCTGACTCTGCTGTTCATGCTTTCGGCACAGGCCGAGCA
TGGTGCAGGCTGGTCGACGCTGCTCGACGAAAAGGCCCACCTGACGCTGGATGAAATCCGCTCGGCGCGCTATCAGAATC
AATTCAGCCCCATCGAGCTGGAACGTGTCACGGCTGCGGATCGCGACAGCGCATTATGGCTGCACTACCGCCTGCAACCG
ACCCAGCACGAGCAATTGCTGCGCATCTTCGCCCCGGACCTGTCCAGCGCCGACATGTATGTCATGGACGGCGATCGACA
GATTGATCATGTACGCACGGGCAATGACGTACCGATTGAAGATCAGCGACTGCCGTCCAACGATTTCCTGCTGCCGGTTC
CGCAAAGCTCGGCCCCGCTGGATATCTACCTGAGGCTGGTCTCCGCGCAGAAAATGCGCCCCAGCATTACCCTTGAACCG
GCCATCGCAAGCGCCGCCAATGAGACTCAGCCATTGCTGTTCGGGCTGCTGTTTGGCGCACTGTCCATGCTGATCGTGCA
GAACCTGACGCGTTACGGGCACACCCGGTCGCGCAGCAATCTGTGGCTGGCCGCCTGCGAATCATTACTCGGGCTCAGTG
CCCTGTTGCTCCTCAACCTGCTGCGCCCGATCGACCCGTGGAATATCGCGCAAACCCCGAGCGCGCACCTGGCACTGTTG
CTGGCCGCTGTCGCAGGCCTGATCTACACCTACTGTTTCTTCGTCCACCGCAATGCCCGCAAGCTCGATCGCCTGTTGCT
GGGCAACGCAGTGCTCATGGGGATCGGCGCCCTGCTGGTGCTGTTCGACGAAAAGCTGCCGATCAATTTCCTGACGTTCG
GCCTGGTCTCGTTGACGACATTGAGCATTCTGGCGGTGTCGATGTGGCACTGGCAGAAGGGCTATCGCTCGGCACGCCTG
TTTGTCCTGGGGATGATCACCTTCAATATCGGCTACATGGTGGTCCTGCCCGGCCTGCTGTGGCTGAGCCTGGTGCCGCC
GCAATGGCTCATACTGGCGCTGCTCAGCGTGTTCTGCATCAGCGGTGTGCTGATGAGCCTGGCGCTCAGCGAACGCCATC
GCAGCATCACCGAAGACCGTTTCAGCATCAGCCGCGATCAGGCGGCCAGCACCGCCGAAATCAACGCCAAAGCCGAGTTT
CTGGCCAAGATCAGCCACGAGATTCGCACCCCGATGAATGGCGTGCTGGGCATGACCGAGCTGCTGCTCGGCACCCCGCT
GTCGGTCAAGCAGCGCGATTACGTGCAGACCATCCACAGTGCCGGTAACGAACTGCTGACGCTGATCAACGAGATTCTCG
ACATCACCAAGCTCGAGTCAGGGCAGATCGAACTGGACGACGTGCAGTTCGACATCGGCGCGCTGGTCGAGGACTGCCTG
AATATCTTCCGCGCCAAGGCCGAGCAGCAACAGGTCGAACTGATCAGCCAGATCCAGCCGCAGGTGCCACGTGTCATCAA
TGGTGATCCGACTCGCCTGCGCCAGACATTGCTGAGCCTGCTGGAAAATGCCCTGAAGAAGACCGACGAAGGGGAAATTC
TGCTGGCCGTATCCCTTGAGTCATCGAAAAGCGGCAATACGCGGCTGCGTATTTCGGTGCAGGACAGCGGCGAATCGCTT
TCCGACGAAGAGCGTGAAGAGCTGCTGCACGCCGAACTGCACAGCCGTAACTTCCTGGCCAGCAGCCGGCTCGGCGGCCA
CCTCGGGCTGGTGATCGCTCGTCAGTTGATCGTACTGATGGATGGCGAGTTCGGCATTCAGAACACGGGTGCGCAAGGTA
ATACGCTGTGGCTGAACCTGCCGCTGGACGCAAAGCTGCTTGAACAGCCGACCATCGATCTGGACAGCCCGCTCAAAGAC
GCCAGGGTGCTGGTGGTCGACGACAACGACACGTGCCGCAAAGTGCTGGTCCAGCAATGCAGCGCCTGGGGCCTGAATGT
CAGCGCCGTGGCGTCCGGCAAGGAGGCACTGGCCCTGCTCAGAACCAAGGCGCACCTGCGCGACTATTTCGATGTGGTCC
TGCTCGATCAGAACATGCCAGGCATGACCGGCATGCAACTGGCCGCCAAGATCAAGGAAGATCCAAGCCTGAATCACGAC
ATTCTGTTGATCATGCTGACCGGCATCAGCAATGCGCCCAGCAAGATCATCGCGCGCAACTCCGGCATCAAGCGCATTCT
GGCCAAACCGGTGGCAGGCTACACGCTCAAGACCACGCTGGCCGATGAACTGACTCAGTTGAACAAGGGTGTCGTGTCGA
ACAAGCCTGGCCCGGTCGTGACTCCGCCGGTCAACGTCCCTGGCGACTTCCGGATTCTGGTGGCCGAAGACAACAGCATT
TCGACCAAGGTCATCCGCGGCATGCTCGGCAAGCTCAACCTCAACCCCGATACCGCGAGTAATGGCGAAGAAGCGTTACG
TGCCATGAAGGCGCAGCGTTATGACCTGGTGTTGATGGACTGCGAGATGCCGATACTCGACGGCTTCTCGGCCACCGAGC
AATTGCGCGCCTGGGAAGTCGGCAATCAGCGTGTACGTACCCCGGTCGTTGCACTGACCGCGCATATTCTCACCGAGCAC
AAGGACCGCGCGCGCCAGGCCGGCATGGACGGCCACATGGCCAAGCCCATCGAATTGTCCCAGTTGCGCGAACTGGTCGA
GCACTGGGTGGCGCACCGTGACAAGGCCCGCGGGCTGACCTCGGACGGCGAGCACTATCGGCAAAACTGA