Curation Information

Publication
Genome-wide gene regulation of biosynthesis and energy generation by a novel transcriptional repressor in Geobacter species.;Ueki T, Lovley DR;Nucleic acids research 2010 Jan; 38(3):810-21 [19939938]
TF
HgtR [Q747A3, view regulon]
Reported TF sp.
Geobacter sulfurreducens strain DL1
Reported site sp.
Geobacter sulfurreducens strain DL1
Created by
Erill Lab
Curation notes
-

Experimental Process

Site binding verified by EMSA with HgtR. Electron source-dependent expression verified by primer extension. Sites verified with MSA with known gltA site.

Transcription Factor Binding Sites


AAATTGTATACAGTATACTAAA
GATTTGTATACTGTATACAAAA
AAATTGTATACAGTATACGCAA
TCCCTGTATACTGTATACAATA
AAATTGTATACAGTATACTAAA
GATTTGTATACTGTATACAAAA
AAATTGTATACAGTATACGCAA
TCCCTGTATACTGTATACAATA

Gene Regulation

Regulated genes for each binding site are displayed below. Gene regulation diagrams show binding sites, positively-regulated genes, negatively-regulated genes, both positively and negatively regulated genes, genes with unspecified type of regulation. For each indvidual site, experimental techniques used to determine the site are also given.

Site sequence Regulated genes Gene diagram Experimental techniques TF function TF type
AAATTGTATACAGTATACTAAA gltA,
... ... gltA GSU1105 GSU1104 GSU1103 GSU1107 GSU1108
Experimental technique details EMSA (ECO:0001807) - Experimental technique details Multiple sequence alignment (MSA) (ECO:0005556) - Experimental technique details Primer Extension assay (ECO:0005657) - repressor not specified
GATTTGTATACTGTATACAAAA atpG,
... ... atpG GSU0107 GSU0106 atpX atpF atpH atpA atpD atpC pdxA GSU0116 GSU0117
Experimental technique details EMSA (ECO:0001807) - Experimental technique details Multiple sequence alignment (MSA) (ECO:0005556) - Experimental technique details Primer Extension assay (ECO:0005657) - repressor not specified
AAATTGTATACAGTATACGCAA nuoA-1,
... ... nuoA-1 hemL atpZ atpI atpB atpE pepA degP nuoB nuoC nuoD nuoE-1 nuoF-1 nuoG-1 nuoH-1 nuoI-1 nuoJ-1 nuoK-1 nuoL-1 nuoM-1 nuoN-1 prx-3 yqaA GSU0354 GSU0355
Experimental technique details EMSA (ECO:0001807) - Experimental technique details Multiple sequence alignment (MSA) (ECO:0005556) - Experimental technique details Primer Extension assay (ECO:0005657) - repressor not specified
TCCCTGTATACTGTATACAATA GSU3370,
... ... GSU3370 GSU3371 cls-2
Experimental technique details EMSA (ECO:0001807) - Experimental technique details Multiple sequence alignment (MSA) (ECO:0005556) - Experimental technique details Primer Extension assay (ECO:0005657) - repressor not specified