RegulonDB

Gene
Name:	ydcI
Synonym(s):	ECK1416, G6737, b1422
Genome position(nucleotides):	1494148 <-- 1495071
Strand:	reverse
Sequence:	Get nucleotide sequence FastaFormat
GC content %:	50.54
External database links:

ASAP:	ABE-0004746
ECHOBASE:	EB3515
ECOLIHUB:	ydcI
OU-MICROARRAY:	b1422
STRING:	511145.b1422
COLOMBOS:	ydcI

Product

Name:

DNA-binding transcriptional dual regulator YdcI

Synonym(s):

YdcI

Sequence:

Get amino acid sequence Fasta Format

Cellular location:

cytosol

Molecular weight:

33.402

Isoelectric point:

8.126

Motif(s):

Type	Positions	Sequence	Comment
	11 -> 68	IRLRHLHTFVAVAQQGTLGRAAETLNLSQPALSKTLNELEQLTGARLFERGRQGAQLT	UniProt: HTH lysR-type.
	13 -> 72	LRHLHTFVAVAQQGTLGRAAETLNLSQPALSKTLNELEQLTGARLFERGRQGAQLTLPGE
	28 -> 47	LGRAAETLNLSQPALSKTLN	UniProt: H-T-H motif.
	101 -> 305	DVVRVGALPTAALGILPSVIGQFHQQQKETTLQVATMSNPMILAGLKTGEIDIGIGRMSDPELMTGLNYELLFLESLKLVVRPNHPLLQENVTLSRVLEWPVVVSPEGTAPRQHSDALVQSQGCKIPSGCIETLSASLSRQLTVEYDYVWFVPSGAVKDDLRHATLVALPVPGHGAGEPIGILTRVDATFSSGCQLMINAIRKSM

Classification:

Multifun Terms (GenProtEC)
		2 - information transfer --> 2.2 - RNA related --> 2.2.2 - Transcription related
		3 - regulation --> 3.1 - type of regulation --> 3.1.2 - transcriptional level --> 3.1.2.2 - activator
		3 - regulation --> 3.1 - type of regulation --> 3.1.2 - transcriptional level --> 3.1.2.3 - repressor
Gene Ontology Terms (GO)
	cellular_component	GO:0005829 - cytosol
	molecular_function	GO:0003677 - DNA binding GO:0003700 - DNA-binding transcription factor activity GO:0043565 - sequence-specific DNA binding
	biological_process	GO:0006351 - transcription, DNA-templated GO:0006355 - regulation of transcription, DNA-templated GO:0045892 - negative regulation of transcription, DNA-templated

Note(s):

Note(s): ...[more].

Evidence:

[COMP-HINF-FN-FROM-SEQ] Human inference of function from sequence
[EXP-IDA-PURIFIED-PROTEIN-HH] Assay of protein purified to homogeneity from a heterologous host
[EXP-IPI] Inferred from physical interaction

Reference(s):

[1] Gao Y., et al., 2018
[2] Perez-Rueda E., et al., 2000
[3] Perez-Rueda E., et al., 2004
[4] Solomon L., et al., 2014

External database links:

ALPHAFOLD:

ECOCYC:

ECOLIWIKI:

INTERPRO:

INTERPRO:

INTERPRO:

INTERPRO:

MODBASE:

PFAM:

PFAM:

PRIDE:

PRINTS:

PROSITE:

REFSEQ:

SMR:

UNIPROT:

Type	Name	Post Left	Strand	Notes	Evidence (Confirmed, Strong, Weak)	References
promoter	ydcIp4	1495117	reverse	nd	[COMP-AINF]	[5]
promoter	ydcJp10	1495133	forward	nd	[COMP-AINF]	[5]
promoter	ydcJp11	1495154	forward	nd	[COMP-AINF]	[5]

Reference(s)
[1] Gao Y., Yurkovich JT., Seo SW., Kabimoldayev I., Drager A., Chen K., Sastry AV., Fang X., Mih N., Yang L., Eichner J., Cho BK., Kim D., Palsson BO., 2018, Systematic discovery of uncharacterized transcription factors in Escherichia coli K-12 MG1655., Nucleic Acids Res 46(20):10682-10696
[2] Perez-Rueda E., Collado-Vides J., 2000, The repertoire of DNA-binding transcriptional regulators in Escherichia coli K-12., Nucleic Acids Res 28(8):1838-47
[3] Perez-Rueda E., Collado-Vides J., Segovia L., 2004, Phylogenetic distribution of DNA-binding transcription factors in bacteria and archaea., Comput Biol Chem 28(5-6):341-50
[4] Solomon L., Shah A., Hannagan S., Wilson JW., 2014, Bacterial genus-specific tolerance for YdcI expression., Curr Microbiol 69(5):640-8
[5] Huerta AM., Collado-Vides J., 2003, Sigma70 promoters in Escherichia coli: specific transcription in dense regions of overlapping promoter-like signals., J Mol Biol 333(2):261-78