Click here to switch to the map view.

The map label for this gene is rafR [H]

Identifier: 238892310

GI number: 238892310

Start: 57381

End: 58376

Strand: Direct

Name: rafR [H]

Synonym: KP1_0061

Alternate gene names: 238892310

Gene position: 57381-58376 (Clockwise)

Preceding gene: 238892309

Following gene: 238892311

Centisome position: 1.09

GC content: 62.35

Gene sequence:

>996_bases
ATGTCGCTGAAAGCCATTGCCAAACAACTTGGGATCTCCGTCACGACCGTCAGCCGGGCGTTGAACGGCTACGACGATGT
GTCGCAGGAGACCCGCGCCCGGGTTGAGGCTGAAGCGCAGCGCCGGGGCTATCGCCCCAACACTTTCGCCCGCCGTCTGA
AAATGGGCACCATCGATGCCGTTGGTCTCGTCTTTCCTGTCCGCCCCGCGCCGCTCAACAATAACGTTTTTCTCGAGATG
GTCGGGGAGATCAGCCATGAGCTGGCGCGCCATGACATTGATTTGTTGCTGATCGCCGATGATGAGCAGGCGGATAAACA
TGGCTATATGCGCATGGTGCAGGGCCGTCGCGTCGATGCATTAATCGTGGCCCATACTCTGGATGACGATCCGCGGCTGG
CGCAGCTGCAGGCCTCCGGCTTTCCGTTTCTGGCGCTCGGCCGTAGCCGCCTGGCGCAGCCCTACGCCTGGTTTGATTTC
GATAACTATGCCGGCACCTGCCGTGCCACCCGCCATCTGATTCAACAGGGCCACCAGCGTATCGCTCTGCTGGGCGAGAA
CAACAATCAGGCGTTTATTTTGCAAAGGCGTAACGGCTACCTCGATGCCCTGCGCGAGGCGGGGTTATCCGATGCATGGC
TGCGTAGCGTGCCGGCGACGCGCCGCGGCGGCTATCAGGCCACGCTGGAGCTGCTGCGTCTGCCTGAGCCGCCTACCGCG
ATTATCACCGACTGCAACACCCATGGCGATGGCGCCGCGATGGCGCTCGCCCACCTGGGGCGTTTAACCGGCGACAACCG
TGTCGCCCTGGTGGTATACGACGGGCTGCCGCAGGACAGCATCATTGAGACCGATGTCGCCGCGGTGATCCAGTCCACGC
GCCAGGGCGTGGGAAGGCAGATTGCCGATATGGTGCGTCGCTTAATCGCCGGGGAGGATCTCGCCACGCTGCAGGTGCTA
TGGCAGCCGGAATTTATCCCGGGTGAAACCGCCTGA

Upstream 100 bases:

>100_bases
TGAGCAAAACTGACATCGCGTCGGCGGGGGACGCGCGCTCGCTGGACGTCATAGCCATATTGCGGGAAACTAGCTTTCCT
ATGCGAAAACAGGGATTTTT

Downstream 100 bases:

>100_bases
TCTTACCCCTTTTTAACCCGTAATTCTGAAGCCGATCACGGATCCGAAACGTTTTGGTTGGCATCCGAAACGTTTCGGAT
CAACAGTAAGACATTCCTTG

Product: repressor of galETK operon

Products: NA

Alternate protein names: Raffinose operon repressor [H]

Number of amino acids: Translated: 331; Mature: 330

Protein sequence:

>331_residues
MSLKAIAKQLGISVTTVSRALNGYDDVSQETRARVEAEAQRRGYRPNTFARRLKMGTIDAVGLVFPVRPAPLNNNVFLEM
VGEISHELARHDIDLLLIADDEQADKHGYMRMVQGRRVDALIVAHTLDDDPRLAQLQASGFPFLALGRSRLAQPYAWFDF
DNYAGTCRATRHLIQQGHQRIALLGENNNQAFILQRRNGYLDALREAGLSDAWLRSVPATRRGGYQATLELLRLPEPPTA
IITDCNTHGDGAAMALAHLGRLTGDNRVALVVYDGLPQDSIIETDVAAVIQSTRQGVGRQIADMVRRLIAGEDLATLQVL
WQPEFIPGETA

Sequences:

>Translated_331_residues
MSLKAIAKQLGISVTTVSRALNGYDDVSQETRARVEAEAQRRGYRPNTFARRLKMGTIDAVGLVFPVRPAPLNNNVFLEM
VGEISHELARHDIDLLLIADDEQADKHGYMRMVQGRRVDALIVAHTLDDDPRLAQLQASGFPFLALGRSRLAQPYAWFDF
DNYAGTCRATRHLIQQGHQRIALLGENNNQAFILQRRNGYLDALREAGLSDAWLRSVPATRRGGYQATLELLRLPEPPTA
IITDCNTHGDGAAMALAHLGRLTGDNRVALVVYDGLPQDSIIETDVAAVIQSTRQGVGRQIADMVRRLIAGEDLATLQVL
WQPEFIPGETA
>Mature_330_residues
SLKAIAKQLGISVTTVSRALNGYDDVSQETRARVEAEAQRRGYRPNTFARRLKMGTIDAVGLVFPVRPAPLNNNVFLEMV
GEISHELARHDIDLLLIADDEQADKHGYMRMVQGRRVDALIVAHTLDDDPRLAQLQASGFPFLALGRSRLAQPYAWFDFD
NYAGTCRATRHLIQQGHQRIALLGENNNQAFILQRRNGYLDALREAGLSDAWLRSVPATRRGGYQATLELLRLPEPPTAI
ITDCNTHGDGAAMALAHLGRLTGDNRVALVVYDGLPQDSIIETDVAAVIQSTRQGVGRQIADMVRRLIAGEDLATLQVLW
QPEFIPGETA

Specific function: The raffinose (raf) operon is negatively controlled by the specific binding of raf repressor to raf operator (rafO) DNA. Binds raffinose as an inducer [H]

COG id: NA

COG function: NA

Gene ontology:

Cell location: Cytoplasmic

Metaboloic importance: Non_Essential [C]

Operon status: Not Known

Operon components: None

Similarity: Contains 1 HTH lacI-type DNA-binding domain [H]

Homologues:

Organism=Escherichia coli, GI1789202, Length=236, Percent_Identity=31.7796610169492, Blast_Score=94, Evalue=1e-20,
Organism=Escherichia coli, GI1787948, Length=307, Percent_Identity=27.0358306188925, Blast_Score=88, Evalue=9e-19,
Organism=Escherichia coli, GI1787580, Length=320, Percent_Identity=26.25, Blast_Score=86, Evalue=4e-18,
Organism=Escherichia coli, GI1790369, Length=333, Percent_Identity=24.9249249249249, Blast_Score=85, Evalue=8e-18,
Organism=Escherichia coli, GI1788474, Length=282, Percent_Identity=28.0141843971631, Blast_Score=84, Evalue=1e-17,
Organism=Escherichia coli, GI1787906, Length=277, Percent_Identity=27.7978339350181, Blast_Score=78, Evalue=9e-16,
Organism=Escherichia coli, GI1790194, Length=301, Percent_Identity=25.9136212624585, Blast_Score=76, Evalue=3e-15,
Organism=Escherichia coli, GI1789068, Length=311, Percent_Identity=26.3665594855305, Blast_Score=75, Evalue=6e-15,
Organism=Escherichia coli, GI48994940, Length=325, Percent_Identity=26.4615384615385, Blast_Score=74, Evalue=1e-14,

Paralogues:

None

Copy number: NA

Swissprot (AC and ID): NA

Other databases:

- InterPro:   IPR000843
- InterPro:   IPR010982
- InterPro:   IPR001761 [H]

Pfam domain/function: PF00356 LacI; PF00532 Peripla_BP_1 [H]

EC number: NA

Molecular weight: Translated: 36566; Mature: 36435

Theoretical pI: Translated: 6.73; Mature: 6.73

Prosite motif: PS50932 HTH_LACI_2

Important sites: NA

Signals:

None

Transmembrane regions:

None

Cys/Met content:

0.6 %Cys     (Translated Protein)
2.1 %Met     (Translated Protein)
2.7 %Cys+Met (Translated Protein)
0.6 %Cys     (Mature Protein)
1.8 %Met     (Mature Protein)
2.4 %Cys+Met (Mature Protein)

Secondary structure:

>Translated Secondary Structure
MSLKAIAKQLGISVTTVSRALNGYDDVSQETRARVEAEAQRRGYRPNTFARRLKMGTIDA
CCHHHHHHHHCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCCE
VGLVFPVRPAPLNNNVFLEMVGEISHELARHDIDLLLIADDEQADKHGYMRMVQGRRVDA
EEEEEECCCCCCCCCHHHHHHHHHHHHHHHCCCEEEEEECCCCCCHHHHHHHHCCCCEEE
LIVAHTLDDDPRLAQLQASGFPFLALGRSRLAQPYAWFDFDNYAGTCRATRHLIQQGHQR
EEEEEECCCCCCEEEEECCCCCEEEECHHHHCCCEEEEECCCCCCHHHHHHHHHHCCCCE
IALLGENNNQAFILQRRNGYLDALREAGLSDAWLRSVPATRRGGYQATLELLRLPEPPTA
EEEEECCCCEEEEEECCCCHHHHHHHCCCCHHHHHCCCCCCCCCHHHHHHHHHCCCCCCE
IITDCNTHGDGAAMALAHLGRLTGDNRVALVVYDGLPQDSIIETDVAAVIQSTRQGVGRQ
EEECCCCCCCHHHHHHHHHHHCCCCCEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHH
IADMVRRLIAGEDLATLQVLWQPEFIPGETA
HHHHHHHHHCCCCCEEEEEEECCCCCCCCCC
>Mature Secondary Structure 
SLKAIAKQLGISVTTVSRALNGYDDVSQETRARVEAEAQRRGYRPNTFARRLKMGTIDA
CHHHHHHHHCCCHHHHHHHHCCCHHHHHHHHHHHHHHHHHCCCCCCHHHHHHHCCCCCE
VGLVFPVRPAPLNNNVFLEMVGEISHELARHDIDLLLIADDEQADKHGYMRMVQGRRVDA
EEEEEECCCCCCCCCHHHHHHHHHHHHHHHCCCEEEEEECCCCCCHHHHHHHHCCCCEEE
LIVAHTLDDDPRLAQLQASGFPFLALGRSRLAQPYAWFDFDNYAGTCRATRHLIQQGHQR
EEEEEECCCCCCEEEEECCCCCEEEECHHHHCCCEEEEECCCCCCHHHHHHHHHHCCCCE
IALLGENNNQAFILQRRNGYLDALREAGLSDAWLRSVPATRRGGYQATLELLRLPEPPTA
EEEEECCCCEEEEEECCCCHHHHHHHCCCCHHHHHCCCCCCCCCHHHHHHHHHCCCCCCE
IITDCNTHGDGAAMALAHLGRLTGDNRVALVVYDGLPQDSIIETDVAAVIQSTRQGVGRQ
EEECCCCCCCHHHHHHHHHHHCCCCCEEEEEEECCCCCCCHHHHHHHHHHHHHHHHHHHH
IADMVRRLIAGEDLATLQVLWQPEFIPGETA
HHHHHHHHHCCCCCEEEEEEECCCCCCCCCC

PDB accession: NA

Resolution: NA

Structure class: Alpha Beta

Cofactors: NA

Metal ions: NA

Kcat value (1/min): NA

Specific activity: NA

Km value (mM): NA

Substrates: DNA [C]

Specific reaction: Protein + DNA = Protein-DNA [C]

General reaction: NA

Inhibitor: NA

Structure determination priority: 10.0

TargetDB status: NA

Availability: NA

References: 2180920 [H]