P55407 (TRAR_RHISN) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Probable transcriptional activator protein traR

Gene names

Name:	traR
Ordered Locus Names:	NGR_a04090
ORF Names:	y4dH

Encoded on

Plasmid sym pNGR234a

Organism

Rhizobium sp. (strain NGR234) [Complete proteome] [HAMAP]

Taxonomic identifier

394 [NCBI]

Taxonomic lineage

Bacteria › Proteobacteria › Alphaproteobacteria › Rhizobiales › Rhizobiaceae › Sinorhizobium/Ensifer group › Sinorhizobium

Protein attributes

Sequence length	236 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Positive regulation of conjugal transfer. TraR activates target genes in the presence of AAI and also activates traR and traI themselves By similarity.
Sequence similarities	Belongs to the autoinducer-regulated transcriptional regulatory protein family. Contains 1 HTH luxR-type DNA-binding domain.

Ontologies

Keywords
Biological process	Conjugation Quorum sensing Transcription Transcription regulation
Ligand	DNA-binding
Molecular function	Activator
Technical term	3D-structure Complete proteome Plasmid
Gene Ontology (GO)
Biological process	conjugation Inferred from electronic annotation. Source: UniProtKB-KW quorum sensing Inferred from electronic annotation. Source: UniProtKB-KW transcription, DNA-dependent Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	intracellular Inferred from electronic annotation. Source: InterPro
Molecular function	sequence-specific DNA binding Inferred from electronic annotation. Source: InterPro sequence-specific DNA binding transcription factor activity Inferred from electronic annotation. Source: InterPro two-component response regulator 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

Chain

1 – 236

236

Probable transcriptional activator protein traR

PRO_0000184194

Regions

Domain

169 – 234

66

HTH luxR-type

DNA binding

193 – 212

20

H-T-H motif By similarity

Secondary structure

1

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236

Helix Strand Turn

Details...

Helix

7 – 16

10

Helix

22 – 33

12

Beta strand

38 – 44

7

Beta strand

49 – 53

5

Helix

59 – 63

5

Helix

68 – 70

3

Helix

73 – 80

8

Helix

99 – 109

11

Beta strand

116 – 120

5

Beta strand

127 – 137

11

Helix

147 – 166

20

Helix

172 – 174

3

Helix

178 – 188

11

Helix

193 – 199

7

Helix

204 – 218

15

Helix

223 – 232

10

Sequences

	Sequence		Length	Mass (Da)
	P55407 [UniParc]. Last modified November 1, 1997. Version 1. Checksum: CE2A8DDAB99F7652	FASTA	236	26,287
	10 20 30 40 50 60 MSVNGNLRSL IDMLEAAQDG HMIKIALRSF AHSCGYDRFA YLQKDGTQVR TFHSYPGPWE 70 80 90 100 110 120 SIYLGSDYFN IDPVLAEAKR RRDVFFWTAD AWPARGSSPL RRFRDEAISH GIRCGVTIPV 130 140 150 160 170 180 EGSYGSAMML TFASPERKVD ISGVLDPKKA VQLLMMVHYQ LKIIAAKTVL NPKQMLSPRE 190 200 210 220 230 MLCLVWASKG KTASVTANLT GINARTVQHY LDKARAKLDA ESVPQLVAIA KDRGLV

References

[1]	"Molecular basis of symbiosis between Rhizobium and legumes." Freiberg C.A., Fellay R., Bairoch A., Broughton W.J., Rosenthal A., Perret X. Nature 387:394-401(1997) [PubMed: 9163424] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: NGR234.
[2]	"Rhizobium sp. strain NGR234 possesses a remarkable number of secretion systems." Schmeisser C., Liesegang H., Krysciak D., Bakkou N., Le Quere A., Wollherr A., Heinemeyer I., Morgenstern B., Pommerening-Roeser A., Flores M., Palacios R., Brenner S., Gottschalk G., Schmitz R.A., Broughton W.J., Perret X., Strittmatter A.W., Streit W.R. Appl. Environ. Microbiol. 75:4035-4045(2009) [PubMed: 19376903] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: NGR234.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

U00090 Genomic DNA. Translation: AAB91637.1.

RefSeq

NP_443817.1. NC_000914.2.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
2Q0O	X-ray	2.00	A/B	1-236	[»]

ProteinModelPortal

P55407.

SMR

P55407. Positions 2-236.

ModBase

Search...

Protein-protein interaction databases

DIP

DIP-46219N.

STRING

P55407.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

GeneID

962574.

GenomeReviews

Gene locus NGR_a04090 in contig U00090_GR.

KEGG

rhi:NGR_a04090.

PATRIC

32301589. VBIRhiSp122450_0430.

Organism-specific databases

CMR

Search...

Phylogenomic databases

HOGENOM

HBG300402.

OMA

RTVQHYL.

ProtClustDB

CLSK861938.

Family and domain databases

InterPro

IPR016032. Sig_transdc_resp-reg_C-effctor.
IPR005143. TF_LuxR_autoind-bd_dom.
IPR000792. Tscrpt_reg_LuxR_C.
IPR011991. WHTH_trsnscrt_rep_DNA-bd.
[Graphical view]

Gene3D

G3DSA:3.30.450.80. TF_LuxR_autoind-bd_dom. 1 hit.
G3DSA:1.10.10.10. Wing_hlx_DNA_bd. 1 hit.

Pfam

PF03472. Autoind_bind. 1 hit.
PF00196. GerE. 1 hit.
[Graphical view]

SMART

SM00421. HTH_LUXR. 1 hit.
[Graphical view]

SUPFAM

SSF46894. Bipartite_resp_reg_C-effector. 1 hit.
SSF75516. TF_LuxR_autoind-bd_dom. 1 hit.

PROSITE

PS00622. HTH_LUXR_1. False negative.
PS50043. HTH_LUXR_2. 1 hit.
[Graphical view]

ProtoNet

Search...

Entry information

Entry name

TRAR_RHISN

Accession

Primary (citable) accession number: P55407

Entry history

Integrated into UniProtKB/Swiss-Prot:	November 1, 1997
Last sequence update:	November 1, 1997
Last modified:	January 25, 2012
This is version 67 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program