O67475 (RIR2_AQUAE) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Ribonucleoside-diphosphate reductase subunit beta
EC=1.17.4.1

Alternative name(s):
Ribonucleotide reductase small subunit

Cleaved into the following chain:

1. Aae nrdB intein
   Alternative name(s):
   Aae RIR2 intein

Gene names

Name:	nrdB
Ordered Locus Names:	aq_1505

Organism

Aquifex aeolicus (strain VF5)

Taxonomic identifier

224324 [NCBI]

Taxonomic lineage

Bacteria › Aquificae › Aquificales › Aquificaceae › Aquifex

Protein attributes

Sequence length	696 AA.
Sequence status	Complete.
Sequence processing	The displayed sequence is further processed into a mature form.
Protein existence	Inferred from homology

General annotation (Comments)

Function	Provides the precursors necessary for DNA synthesis. Catalyzes the biosynthesis of deoxyribonucleotides from the corresponding ribonucleotides By similarity.
Catalytic activity	2'-deoxyribonucleoside diphosphate + thioredoxin disulfide + H2O = ribonucleoside diphosphate + thioredoxin.
Cofactor	Binds 2 iron ions per subunit By similarity.
Pathway	Genetic information processing; DNA replication.
Subunit structure	Tetramer of two alpha and two beta subunits By similarity.
Post-translational modification	This protein undergoes a protein self splicing that involves a post-translational excision of the intervening region (intein) followed by peptide ligation Potential.
Sequence similarities	Belongs to the ribonucleoside diphosphate reductase small chain family. Contains 1 DOD-type homing endonuclease domain.

Ontologies

Keywords
Biological process	DNA replication Intron homing
Ligand	Iron Metal-binding
Molecular function	Endonuclease Hydrolase Nuclease Oxidoreductase
PTM	Autocatalytic cleavage Protein splicing
Technical term	Complete proteome Reference proteome
Gene Ontology (GO)
Biological process	DNA replication Inferred from electronic annotation. Source: UniProtKB-KW deoxyribonucleoside diphosphate metabolic process Inferred from electronic annotation. Source: InterPro intein-mediated protein splicing Inferred from electronic annotation. Source: InterPro intron homing Inferred from electronic annotation. Source: UniProtKB-KW
Molecular function	endonuclease activity Inferred from electronic annotation. Source: UniProtKB-KW ribonucleoside-diphosphate reductase activity Inferred from electronic annotation. Source: EC transition metal ion binding 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 – 229	229	Ribonucleoside-diphosphate reductase subunit beta, 1st part Potential		PRO_0000030598
	Chain	230 – 575	346	Aae nrdB intein Potential		PRO_0000030599
	Chain	576 – 696	121	Ribonucleoside-diphosphate reductase subunit beta, 2nd part Potential		PRO_0000030600
Regions
	Domain	377 – 507	131	DOD-type homing endonuclease
Sites
	Active site	134	1	By similarity
	Metal binding	97	1	Iron 1 By similarity
	Metal binding	127	1	Iron 1 By similarity
	Metal binding	127	1	Iron 2 By similarity
	Metal binding	130	1	Iron 1 By similarity
	Metal binding	194	1	Iron 2 By similarity
	Metal binding	228	1	Iron 2 By similarity
	Metal binding	577	1	Iron 2 By similarity

Sequences

	Sequence		Length	Mass (Da)
	O67475 [UniParc]. Last modified August 1, 1998. Version 1. Checksum: E5929D55C455A5EB	FASTA	696	82,931
	10 20 30 40 50 60 MEKTEKNELV RKLIFNPQGD REASKRKIIK GNPTNIFELN EIKYSWAFDL YKLMGFTNFW 70 80 90 100 110 120 IPEEIQMLED RKQYETVLSD YEKRAYELVL SFLIALDSFQ VDMLKEFGRM ITAPEVEMAI 130 140 150 160 170 180 TAQEFQESVH AYSYQFILES VVDPVKADEI YNYWREDERL LERNKVIAEL YNEFIRKPNE 190 200 210 220 230 240 ENFIKATIGN YILESLYFYS GFAFFYTLGR QGKMRNTVQQ IKYINRDELC FIEGTEVLTK 250 260 270 280 290 300 RGFVDFRELR EDDLVAQYDI ETGEISWTKP YAYVERDYEG SMYRLKHPKS NWEVVATEGH 310 320 330 340 350 360 EFIVRNLKTG KERKEPIEKV KLHPYSAIPV AGRYTGEVEE YDLWELVSGK GITLKTRSAV 370 380 390 400 410 420 KNKLTPIEKL LIVLQADGTI DSKRNGKFTG FQQLKFFFSK YRKINEFEKI LNECAPYGIK 430 440 450 460 470 480 WKKYERQDGI AYTVYYPNDL PIKPTKFFDE WVRLDEITEE WIREFVEELV KWDGHIPKDR 490 500 510 520 530 540 NKKKVYYYST KEKRNKDFVQ ALCALGGMRT VVSRERNPKA KNPVYRIWIY LEDDYINTQT 550 560 570 580 590 600 MVKEEFYYKG KVYCVSVPKG NIVVRYKDSV CIAGNCHVTL FRNIINTLRK ENPELFTPEI 610 620 630 640 650 660 EKWIVEYFKY AVNEEIKWGQ YVTQNQILGI NDVLIERYIK YLGNLRITQI GFDPIYPEVT 670 680 690 ENPLKWIDEF RKINNTKTDF FQAKPQTYSK ANELKW

References

[1]	"The complete genome of the hyperthermophilic bacterium Aquifex aeolicus." Deckert G., Warren P.V., Gaasterland T., Young W.G., Lenox A.L., Graham D.E., Overbeek R., Snead M.A., Keller M., Aujay M., Huber R., Feldman R.A., Short J.M., Olsen G.J., Swanson R.V. Nature 392:353-358(1998) [PubMed: 9537320] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: VF5.
+	Additional computationally mapped references.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AE000657 Genomic DNA. Translation: AAC07431.1.
PIR	A70431.
RefSeq	NP_214040.1. NC_000918.1.
3D structure databases
ProteinModelPortal	O67475.
ModBase	Search...
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
GeneID	1193098.
GenomeReviews	Gene locus aq_1505 in contig AE000657_GR.
KEGG	aae:aq_1505.
NMPDR	fig|224324.1.peg.1055.
PATRIC	20960124. VBIAquAeo85532_1175.
Phylogenomic databases
PhylomeDB	O67475.
Enzyme and pathway databases
BioCyc	AAEO224324:AQ_1505-MONOMER.
Family and domain databases
InterPro	IPR009078. Ferritin/RR-like. IPR003587. Hedgehog_hint_N. IPR004042. Intein_endonuc. IPR006141. Intein_splice_site. IPR012348. Ribncl_red-rel. IPR000358. Ribonucl_redctse. [Graphical view]
Gene3D	G3DSA:1.10.620.20. Ribncl_red_rel. 2 hits.
KO	K00526.
PANTHER	PTHR23409. Ribonucl_redctse. 1 hit.
Pfam	PF00268. Ribonuc_red_sm. 1 hit. [Graphical view]
SMART	SM00306. HintN. 1 hit. [Graphical view]
SUPFAM	SSF47240. Ferritin/RR_like. 1 hit.
TIGRFAMs	TIGR01445. Intein_Nterm. 1 hit.
PROSITE	PS50818. INTEIN_C_TER. 1 hit. PS50819. INTEIN_ENDONUCLEASE. 1 hit. PS50817. INTEIN_N_TER. 1 hit. PS00368. RIBORED_SMALL. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

RIR2_AQUAE

Accession

Primary (citable) accession number: O67475

Entry history

Integrated into UniProtKB/Swiss-Prot:	September 26, 2001
Last sequence update:	August 1, 1998
Last modified:	January 25, 2012
This is version 87 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program