Detailed information of regulator


Summary

Regulator ID REG0076 experimental
Regulator type protein
Regulatory pathway (from literatures) c-di-GMP regulatory pathway
KEGG pathway (determined by BlastKOALA) Biofilm formation - Pseudomonas aeruginosa (map02025)
Related T6SS T6SS00014 experimental (Type i4b)
Strain Pseudomonas putida KT2440
Replicon chromosome
Sequence Protein sequence (694 a.a.); Nucleotide sequence (2082 bp)
Description BifA, a cyclic-Di-GMP phosphodiesterase can lower the intracellular level of c-di-GMP.
Reference
External database links

Locus tag (Gene) PP_0914 (BifA)
Coordinates (Strand) 1055990..1058071 (-)
NCBI ID 26987650
RefSeq NC_002947
Uniprot ID Q88PD6_PSEPK
KEGG ID ppu:PP_0914
KEGG pathway (determined by BlastKOALA) map02025
PDB ID -
  Target
Target Regulation (↓/↑) Target sequence
the levels of c-di-GMP ↓ -
Pfam domain hit(s) of regulator

Domain Pfam ID E-value Aligned region
EAL PF00563.22 1e-76 437..672
GGDEF PF00990.23 2.6e-36 260..417
Transmembrane helices

  • Transmembrane helices are predicted using TMHMM 2.0 software.

Prediction                 Region     Sequence
Outside 1-22 MPCAWIKETPLKLELRNSLSVK
Transmembrane helix 23-45 LLRVVLLSALAVGVVLSCAQIIY
Inside 46-166 DTYKTRQAVDSDAQRILDMFRDPSTQAVYSLDREMGMQVMEGLFQDESVRMASIGHPNETMLAEKSRPLQDMSMRWLTDLILGQERTYTTQLVGRGPYSEYYGDLSITLDTSSYGKDFLIN
Transmembrane helix 167-189 AVIIFISGVLRAMAMGLVLYLVY
Outside 190-693 HWLLTKPLSKIIEHLTQINPDRPSQHQIPLLKGHEKNELGLWVNTANQLLASIERNTHLRHEAENSLQRMAQYDFLTGLPNRQQLQQQLDKILVDGGRLQHRVAVLCVGLDDFKGINEQFSYQVGDQLLLALADRLRAHSGRLGALARLGGDQFALVQANIEQPYEAAELAQSILDDLEVPFDLDHEQIRLRATIGITLFPEDGDSTEKLLQKAEQTMTLAKARSRNRYQFYIASVDSEMRRRRELEKDLREALPRNQLYLVYQPQISYRDHRVVGVEALLRWQHPELGMVPPDQFIPLAEQNGSIISIGEWVLDQACRQLREWHDQGFSDLRMAVNLSTVQLHHSELPRVVNNLLQAYRLPPRSLELEVTETGLMEDISTAAQHLLSLRRSGALIAIDDFGTGYSSLSYLKSLPLDKIKIDKSFVQDLLDDDDDATIVRAIIQLGKSLGMQVIAEGVETAEQETYIVAQGCHEGQGYHYSKPLSARELTHFLKQAQRNRVSVS


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
LIPO(Sec/SPII) 0.5395 pos: 39-40. VLS-CA. MPCAWIKETPLKLELRNSLSVKLLRVVLLSALAVGVVLS


  Protein sequence of regulator: 694 a.a.    .

>REG0076 NC_002947:c1058071-1055990 [Pseudomonas putida KT2440]
MPCAWIKETPLKLELRNSLSVKLLRVVLLSALAVGVVLSCAQIIYDTYKTRQAVDSDAQRILDMFRDPSTQAVYSLDREM
GMQVMEGLFQDESVRMASIGHPNETMLAEKSRPLQDMSMRWLTDLILGQERTYTTQLVGRGPYSEYYGDLSITLDTSSYG
KDFLINAVIIFISGVLRAMAMGLVLYLVYHWLLTKPLSKIIEHLTQINPDRPSQHQIPLLKGHEKNELGLWVNTANQLLA
SIERNTHLRHEAENSLQRMAQYDFLTGLPNRQQLQQQLDKILVDGGRLQHRVAVLCVGLDDFKGINEQFSYQVGDQLLLA
LADRLRAHSGRLGALARLGGDQFALVQANIEQPYEAAELAQSILDDLEVPFDLDHEQIRLRATIGITLFPEDGDSTEKLL
QKAEQTMTLAKARSRNRYQFYIASVDSEMRRRRELEKDLREALPRNQLYLVYQPQISYRDHRVVGVEALLRWQHPELGMV
PPDQFIPLAEQNGSIISIGEWVLDQACRQLREWHDQGFSDLRMAVNLSTVQLHHSELPRVVNNLLQAYRLPPRSLELEVT
ETGLMEDISTAAQHLLSLRRSGALIAIDDFGTGYSSLSYLKSLPLDKIKIDKSFVQDLLDDDDDATIVRAIIQLGKSLGM
QVIAEGVETAEQETYIVAQGCHEGQGYHYSKPLSARELTHFLKQAQRNRVSVS*

  Nucleotide sequence of regulator: 2082 bp    .

>REG0076 NC_002947:c1058071-1055990 [Pseudomonas putida KT2440]
ATGCCATGCGCATGGATTAAGGAAACCCCATTGAAGCTGGAATTGCGGAACAGCTTGTCGGTCAAGTTGCTCAGGGTCGT
GCTGCTGTCGGCGCTGGCGGTCGGCGTCGTGCTCAGCTGTGCGCAAATCATCTATGACACCTACAAGACCCGCCAGGCCG
TGGACAGCGACGCCCAGCGCATCCTCGACATGTTCCGCGATCCTTCGACCCAGGCGGTTTACAGCCTCGACCGTGAAATG
GGCATGCAGGTCATGGAAGGCCTGTTCCAGGACGAATCAGTGCGCATGGCCTCCATTGGCCATCCCAACGAAACCATGCT
GGCAGAAAAGTCCCGCCCGCTGCAGGACATGTCCATGCGCTGGCTCACCGACCTCATCCTCGGCCAGGAGCGCACCTACA
CCACGCAACTGGTCGGCCGTGGACCTTACAGCGAATACTACGGCGACCTCAGCATTACCCTCGATACCTCCTCCTACGGC
AAAGATTTCCTGATCAACGCGGTGATCATCTTCATATCCGGCGTGCTGCGGGCCATGGCCATGGGCCTGGTGCTTTACCT
GGTCTACCACTGGCTGCTGACCAAACCGCTGTCGAAGATCATCGAGCACCTCACCCAGATCAACCCTGACCGCCCCAGCC
AGCACCAGATACCGCTGCTCAAGGGCCACGAGAAAAACGAGCTGGGCCTGTGGGTTAACACCGCCAACCAGTTGCTGGCC
TCGATCGAGCGCAACACCCATTTGCGCCACGAGGCGGAAAACAGCCTGCAGCGCATGGCCCAGTACGACTTCCTCACCGG
CCTGCCCAACCGCCAGCAACTGCAGCAGCAACTGGACAAGATCCTCGTCGACGGCGGCCGCCTGCAGCACCGTGTGGCAG
TGCTGTGCGTTGGCCTGGACGACTTCAAGGGTATCAACGAACAATTCAGCTACCAGGTCGGTGACCAGTTGCTGCTGGCC
CTGGCCGATCGACTACGCGCCCACAGCGGCCGCCTGGGCGCTCTGGCGCGGCTGGGCGGCGACCAGTTCGCCCTGGTACA
GGCCAATATCGAGCAGCCCTATGAGGCTGCCGAACTGGCGCAAAGCATTCTTGACGACCTGGAAGTACCGTTCGACCTCG
ACCACGAGCAAATCCGCCTGCGCGCGACCATCGGCATCACCCTCTTCCCCGAAGACGGTGACAGCACCGAAAAACTGCTG
CAGAAAGCCGAACAGACCATGACCCTGGCCAAGGCCCGCTCGCGCAACCGCTACCAGTTCTATATCGCCAGCGTCGACAG
CGAGATGCGTCGCCGTCGCGAACTGGAAAAGGACCTGCGTGAAGCCCTGCCCCGCAACCAGCTGTACCTGGTGTACCAGC
CACAGATCAGCTACCGCGACCACCGAGTGGTCGGCGTAGAGGCCCTGCTACGCTGGCAGCACCCGGAACTGGGCATGGTG
CCACCCGACCAGTTCATCCCCTTGGCCGAGCAGAACGGCAGCATCATCAGCATCGGCGAATGGGTGCTTGACCAGGCCTG
TCGGCAACTGCGCGAATGGCACGACCAGGGCTTCAGCGACCTGCGCATGGCGGTCAACCTGTCTACCGTGCAACTGCACC
ACAGCGAGCTGCCACGGGTGGTCAACAACCTGCTGCAAGCCTATCGCCTACCACCGCGCAGCCTGGAACTGGAAGTCACC
GAAACCGGCCTGATGGAAGACATCAGCACCGCCGCCCAGCACCTGTTGAGCCTGCGCCGCTCCGGGGCGCTGATTGCCAT
CGACGACTTCGGCACCGGCTACTCGTCCCTCAGCTATCTGAAGTCGCTGCCCCTGGACAAGATCAAGATCGACAAGAGTT
TCGTTCAGGACCTGCTCGACGACGATGACGACGCCACCATCGTTCGCGCCATCATCCAGCTGGGCAAGAGCCTGGGGATG
CAGGTGATCGCCGAGGGCGTGGAAACGGCCGAGCAGGAAACCTACATCGTGGCCCAGGGTTGCCACGAGGGCCAGGGCTA
CCACTACAGCAAGCCCCTTTCGGCCCGTGAACTGACCCACTTCCTCAAACAAGCGCAACGCAACCGGGTTTCGGTGTCCT
GA