P21867 (RAFR_ECOLX) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
HTH-type transcriptional regulator RafR

Alternative name(s):
Raffinose operon repressor

Gene names

Name:

rafR

Encoded on

Plasmid pRSD2

Organism

Escherichia coli

Taxonomic identifier

562 [NCBI]

Taxonomic lineage

cellular organisms › Bacteria › Proteobacteria › Gammaproteobacteria › Enterobacteriales › Enterobacteriaceae › Escherichia

Protein attributes

Sequence length	336 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Evidence at protein level

General annotation (Comments)

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.
Subunit structure	Homotetramer.
Sequence similarities	Contains 1 HTH lacI-type DNA-binding domain.

Ontologies

Keywords
Biological process	Transcription Transcription regulation
Ligand	DNA-binding
Molecular function	Repressor
Technical term	Direct protein sequencing Plasmid
Gene Ontology (GO)
Biological_process	transcription, DNA-dependent Inferred from electronic annotation. Source: UniProtKB-KW
Cellular_component	intracellular Inferred from electronic annotation. Source: InterPro
Molecular_function	DNA binding Inferred from electronic annotation. Source: UniProtKB-KW sequence-specific DNA binding transcription factor activity Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Initiator methionine	1	1	Removed Ref.1
	Chain	2 – 336	335	HTH-type transcriptional regulator RafR		PRO_0000107982
Regions
	Domain	2 – 55	54	HTH lacI-type
	DNA binding	3 – 22	20	H-T-H motif By similarity
Experimental info
	Mutagenesis	50	1	A → E: Loss of activity.

Sequences

	Sequence		Length	Mass (Da)
	P21867 [UniParc]. Last modified January 23, 2007. Version 3. Checksum: 60D313A0EDA71564	FASTA	336	36,774
	10 20 30 40 50 60 MSLKAIATTL GISVTTVSRA LGGFSDVAAS TRERVEAEAR RRGYRPNTQA RRLKTGKTDA 70 80 90 100 110 120 IGLVYPENDV PFNSGVFMDM VSCISRELAY HDIDLLLIAD DEHADCHSYM RLVESRRIDA 130 140 150 160 170 180 LIIAHTLDDD PRITHLHKAG IPFLALGRVP QGLPCAWFDF DNHAGTWQAT QKLIALGHKS 190 200 210 220 230 240 IALLSENTSH SYVIARRQGW LDALHEHGLK DPLLRLVSPT RRAGYLAVME LMSLPAPPTA 250 260 270 280 290 300 IITDNDLSGD GAAMALQLRG RLSGKEAVSL VVYDGLPQDS IIELDVAAVI QSTRSLVGRQ 310 320 330 ISDMVYQIIN GASPESLQIT WTPIFYPGST VHSPSF

References

[1]	"Regulatory elements of the raffinose operon: nucleotide sequences of operator and repressor genes." Aslanidis C., Schmitt R. J. Bacteriol. 172:2178-2180(1990) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], PROTEIN SEQUENCE OF 2-6.

Cross-references

Sequence databases
EMBL GenBank DDBJ	M29849 Genomic DNA. Translation: AAA24500.1.
PIR	A35160.
3D structure databases
ProteinModelPortal	P21867.
ModBase	Search...
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Family and domain databases
Gene3D	1.10.260.40. 1 hit.
InterPro	IPR010982. Lambda_DNA-bd_dom. IPR001761. Peripla_BP/Lac1_sug-bd_dom. IPR000843. Tscrpt_reg_HTH_LacI. [Graphical view]
Pfam	PF00356. LacI. 1 hit. PF00532. Peripla_BP_1. 1 hit. [Graphical view]
SMART	SM00354. HTH_LACI. 1 hit. [Graphical view]
SUPFAM	SSF47413. Lambda_like_DNA. 1 hit.
PROSITE	PS00356. HTH_LACI_1. False negative. PS50932. HTH_LACI_2. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

RAFR_ECOLX

Accession

Primary (citable) accession number: P21867

Entry history

Integrated into UniProtKB/Swiss-Prot:	May 1, 1991
Last sequence update:	January 23, 2007
Last modified:	April 3, 2013
This is version 72 of the entry and version 3 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program