Detailed information of regulator


Summary

Regulator ID REG0007 experimental
Regulator type protein
Regulatory pathway (from literatures) RsmA regulatory pathway
KEGG pathway (determined by BlastKOALA) RNA degradation (map03018)
Related T6SS T6SS01211 experimental (Type i1); T6SS01212 experimental (Type i4a); T6SS01213 experimental (Type i3)
Strain Pseudomonas aeruginosa PAK
Replicon chromosome
Sequence Protein sequence (702 a.a.); Nucleotide sequence (2106 bp)
Description C-terminal RNA binding KH-S1 domain of Polynucleotide phosphorylase (PNPase), increases RsmY/Z RNA stabilities. P.aeruginosa PAK use PAO1 gene annotation as gene description.; C-terminal RNA binding KH-S2 domain of Polynucleotide phosphorylase (PNPase), increases RsmY/Z RNA stabilities.
Reference
External database links

Locus tag (Gene) Y880_04683 (pnp)
Coordinates (Strand) 4637120..4639225 (-)
NCBI ID 489185761
RefSeq NZ_CP020659
Uniprot ID V6AMJ2_PSEAI, A0A1C7B5W0_PSEAI, A0A1F0IVG4_9PSED, PNP_PSEAB, PNP_PSEAE, PNP_PSEA8
KEGG ID pau:PA14_62710, pag:PLES_51251, pae:PA4740
KEGG pathway (determined by BlastKOALA) map03018
PDB ID -
  Target
Target Regulation (↓/↑) Target sequence
PA0527.1 (RsmY) ↑ -
PA3621.1 (RsmZ) ↑ -
Pfam domain hit(s) of regulator

Domain Pfam ID E-value Aligned region
PNPase PF03726.16 7.5e-23 242..321
RNase_PH PF01138.23 2.1e-22 325..457
RNase_PH PF01138.23 4.9e-21 15..143
S1 PF00575.25 1e-17 620..691
KH_1 PF00013.31 5.9e-12 558..613
RNase_PH_C PF03725.17 1.4e-11 146..210
RNase_PH_C PF03725.17 1e-05 460..529
Transmembrane helices

  • Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction                 Region     Sequence
Outside 1-701 VNPVTKQFQFGQSTVTLETGRIARQATGAVLVTMDDVSVLVTVVGAKSPAEGRDFFPLSVHYQEKTYAAGRIPGGFFKREGRPSEKETLTSRLIDRPIRPLFPEGFMNEVQVVCTVVSTNKKSDPDIAAMIGTSAALAISGIPFAGPIGAARVGFHPEIGYILNPTYEQLQSSSLDMVVAGTEDAVLMVESEADELTEDQMLGAVLFAHDEFQAVIRAVKELAAEAGKPAWDWKAPAENTVLVNAIKAELGEAISQAYTITIKQDRYNRLGELRDQAVALFAGEEEGKFPASEVKDVFGLLEYRTVRENIVNGKPRIDGRDTRTVRPLRIEVGVLGKTHGSALFTRGETQALVVATLGTARDAQLLDTLEGERKDAFMLHYNFPPFSVGECGRMGSPGRREIGHGRLARRGVAAMLPTQDEFPYTIRVVSEITESNGSSSMASVCGASLALMDAGVPVKAPVAGIAMGLVKEGEKFAVLTDILGDEDHLGDMDFKVAGTDKGVTALQMDIKINGITEEIMEIALGQALEARLNILGQMNQVIAKPRAELSENAPTMLQMKIDSDKIRDVIGKGGATIRGICEETKASIDIEDDGSVKIYGETKEAAEAAKLRVLAITAEAEIGKIYVGKVERIVDFGAFVNILPGKDGLVHISQISDKRIDKVTDVLQEGQEVKVLVLDVDNRGRIKLSIKDVAAAEASGV


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 0.9669 - -


  Protein sequence of regulator: 702 a.a.    .

>REG0007 NZ_CP020659:c4639225-4637120 [Pseudomonas aeruginosa PAK]
VNPVTKQFQFGQSTVTLETGRIARQATGAVLVTMDDVSVLVTVVGAKSPAEGRDFFPLSVHYQEKTYAAGRIPGGFFKRE
GRPSEKETLTSRLIDRPIRPLFPEGFMNEVQVVCTVVSTNKKSDPDIAAMIGTSAALAISGIPFAGPIGAARVGFHPEIG
YILNPTYEQLQSSSLDMVVAGTEDAVLMVESEADELTEDQMLGAVLFAHDEFQAVIRAVKELAAEAGKPAWDWKAPAENT
VLVNAIKAELGEAISQAYTITIKQDRYNRLGELRDQAVALFAGEEEGKFPASEVKDVFGLLEYRTVRENIVNGKPRIDGR
DTRTVRPLRIEVGVLGKTHGSALFTRGETQALVVATLGTARDAQLLDTLEGERKDAFMLHYNFPPFSVGECGRMGSPGRR
EIGHGRLARRGVAAMLPTQDEFPYTIRVVSEITESNGSSSMASVCGASLALMDAGVPVKAPVAGIAMGLVKEGEKFAVLT
DILGDEDHLGDMDFKVAGTDKGVTALQMDIKINGITEEIMEIALGQALEARLNILGQMNQVIAKPRAELSENAPTMLQMK
IDSDKIRDVIGKGGATIRGICEETKASIDIEDDGSVKIYGETKEAAEAAKLRVLAITAEAEIGKIYVGKVERIVDFGAFV
NILPGKDGLVHISQISDKRIDKVTDVLQEGQEVKVLVLDVDNRGRIKLSIKDVAAAEASGV*

  Nucleotide sequence of regulator: 2106 bp    .

>REG0007 NZ_CP020659:c4639225-4637120 [Pseudomonas aeruginosa PAK]
GTGAACCCGGTAACCAAGCAATTCCAGTTCGGTCAGTCGACCGTCACTCTCGAGACCGGCCGTATCGCTCGCCAGGCCAC
CGGCGCCGTACTGGTCACCATGGACGACGTCAGCGTGCTGGTCACCGTGGTCGGCGCCAAGTCGCCGGCCGAAGGCCGCG
ACTTCTTCCCGCTGTCCGTGCACTACCAGGAAAAGACCTACGCCGCAGGCCGTATCCCCGGCGGTTTCTTCAAGCGTGAA
GGACGTCCTTCCGAGAAGGAAACCCTGACCTCGCGCCTGATCGACCGTCCGATCCGTCCGCTGTTCCCCGAAGGTTTCAT
GAATGAAGTGCAGGTCGTCTGCACCGTCGTTTCCACCAACAAGAAGTCCGATCCGGACATCGCCGCGATGATCGGCACCT
CCGCCGCCCTGGCGATCTCCGGCATTCCGTTCGCCGGCCCGATCGGCGCCGCCCGCGTCGGTTTCCACCCGGAAATCGGC
TACATCCTCAACCCCACCTACGAGCAACTGCAGAGTTCCAGCCTCGACATGGTCGTGGCCGGTACCGAAGACGCCGTGCT
GATGGTGGAGTCCGAGGCCGACGAACTGACCGAAGACCAGATGCTCGGTGCCGTGCTGTTCGCCCACGACGAGTTCCAGG
CGGTGATCCGTGCCGTCAAGGAGCTGGCCGCCGAAGCTGGCAAGCCGGCCTGGGACTGGAAAGCCCCGGCGGAAAACACC
GTGCTGGTCAACGCCATCAAGGCAGAGCTGGGCGAAGCGATCTCCCAGGCCTATACCATCACCATCAAGCAGGACCGCTA
CAACCGTCTGGGCGAGCTGCGCGACCAGGCCGTGGCCCTGTTCGCCGGCGAGGAAGAGGGCAAGTTCCCGGCTTCCGAGG
TCAAGGACGTATTCGGCCTGCTGGAATACCGCACCGTTCGCGAGAACATCGTCAACGGCAAGCCGCGTATCGACGGTCGT
GACACCCGTACCGTGCGTCCGCTGCGCATCGAAGTCGGCGTGCTCGGCAAGACCCACGGTTCCGCGCTGTTCACCCGTGG
CGAAACCCAGGCCCTGGTCGTCGCGACCCTCGGCACCGCGCGCGATGCCCAGTTGCTGGATACCCTGGAAGGCGAGCGCA
AGGACGCCTTCATGCTGCACTACAACTTCCCGCCGTTCTCGGTAGGCGAGTGCGGCCGCATGGGCAGCCCGGGTCGTCGT
GAAATCGGCCATGGCCGTCTGGCCCGTCGTGGCGTCGCCGCCATGCTGCCGACCCAGGACGAGTTCCCCTACACCATTCG
CGTGGTTTCCGAGATCACCGAGTCCAACGGTTCCAGCTCGATGGCCTCCGTGTGCGGCGCCTCCCTGGCGCTGATGGATG
CCGGTGTGCCGGTCAAGGCGCCGGTCGCCGGTATCGCCATGGGCCTGGTCAAGGAAGGCGAGAAGTTCGCCGTCCTGACC
GACATCCTCGGTGACGAAGACCACCTGGGCGACATGGACTTCAAGGTTGCCGGTACCGACAAGGGCGTCACCGCCCTGCA
GATGGACATCAAGATCAACGGTATCACCGAAGAGATCATGGAGATCGCCCTGGGCCAGGCCCTGGAAGCTCGCCTGAACA
TCCTCGGCCAGATGAACCAGGTCATCGCCAAGCCGCGCGCCGAGCTGTCCGAGAACGCCCCGACCATGCTGCAGATGAAG
ATCGACTCGGACAAGATCCGCGACGTCATCGGCAAGGGCGGCGCGACCATCCGTGGTATCTGCGAAGAGACCAAGGCCTC
GATCGACATCGAGGACGATGGCAGCGTGAAGATCTACGGCGAAACCAAGGAAGCCGCCGAGGCCGCCAAGCTGCGCGTCC
TGGCGATCACCGCGGAAGCCGAGATCGGCAAGATCTACGTCGGCAAGGTGGAGCGCATCGTCGACTTCGGTGCCTTCGTC
AACATCCTGCCGGGCAAGGACGGCCTGGTGCACATCTCGCAGATCAGCGACAAGCGCATCGACAAGGTCACCGACGTGCT
GCAGGAAGGCCAGGAAGTGAAGGTCCTGGTGCTCGACGTGGACAACCGTGGCCGCATCAAGCTGTCGATCAAGGACGTGG
CTGCCGCCGAAGCTTCCGGCGTGTAA