Reviewed, UniProtKB/Swiss-Prot Q7T6Y8 (RIR1_MIMIV)

Names and origin

Protein names

Recommended name:
    Ribonucleoside-diphosphate reductase large subunit
    EC=1.17.4.1
Alternative name(s):
    Ribonucleotide reductase large subunit

Gene names

Name:	RNR1
Ordered Locus Names:	MIMI_R313

Organism

Acanthamoeba polyphaga mimivirus (APMV) [Complete proteome]

Taxonomic identifier

212035 [NCBI]

Taxonomic lineage

Viruses › dsDNA viruses, no RNA stage › Mimiviridae › Mimivirus

Virus host

Acanthamoeba polyphaga (Amoeba) [TaxID: 5757]

Protein attributes

Sequence length	881 AA.
Sequence status	Complete.
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.
Enzyme regulation	Under complex allosteric control mediated by deoxynucleoside triphosphates and ATP binding. The type of nucleotide bound at the specificity site determines substrate preference. It seems probable that ATP makes the enzyme reduce CDP and UDP, dGTP favors ADP reduction and dTTP favors GDP reduction By similarity.
Pathway	Genetic information processing; DNA replication.
Subunit structure	Heterodimer of a large and a small chain By similarity.
Sequence similarities	Belongs to the ribonucleoside diphosphate reductase large chain family. Contains 1 ATP-cone domain.

Ontologies

Keywords
Biological process	DNA replication
Developmental stage	Early protein
Ligand	ATP-binding Nucleotide-binding
Molecular function	Oxidoreductase
PTM	Disulfide bond
Technical term	Allosteric enzyme Complete proteome
Gene Ontology (GO)
Biological process	DNA replication Inferred from electronic annotation. Source: UniProtKB-KW oxidation reduction Inferred from electronic annotation. Source: UniProtKB-KW
Cellular component	ribonucleoside-diphosphate reductase complex Inferred from electronic annotation. Source: InterPro
Molecular function	ATP binding Inferred from electronic annotation. Source: UniProtKB-KW protein binding Inferred from electronic annotation. Source: InterPro ribonucleoside-diphosphate reductase activity Inferred from electronic annotation. Source: EC
Complete GO annotation...

Sequence annotation (Features)

	Feature key	Position(s)	Length	Description	Graphical view	Feature identifier
Molecule processing
	Chain	1 – 881	881	Ribonucleoside-diphosphate reductase large subunit		PRO_0000187229
Regions
	Domain	69 – 160	92	ATP-cone
	Region	286 – 287	2	Substrate binding By similarity
	Region	493 – 497	5	Substrate binding By similarity
	Region	675 – 679	5	Substrate binding By similarity
Sites
	Active site	493	1	Proton acceptor By similarity
	Active site	495	1	Cysteine radical intermediate By similarity
	Active site	497	1	Proton acceptor By similarity
	Binding site	271	1	Substrate By similarity
	Binding site	315	1	Substrate; via amide nitrogen By similarity
	Site	287	1	Important for hydrogen atom transfer By similarity
	Site	294	1	Allosteric effector binding By similarity
	Site	324	1	Allosteric effector binding By similarity
	Site	510	1	Important for hydrogen atom transfer By similarity
	Site	809	1	Important for electron transfer By similarity
	Site	810	1	Important for electron transfer By similarity
	Site	876	1	Interacts with thioredoxin/glutaredoxin By similarity
	Site	879	1	Interacts with thioredoxin/glutaredoxin By similarity
Amino acid modifications
	Disulfide bond	287 ↔ 510		Redox-active By similarity

Sequences

	Sequence		Length	Mass (Da)
	Q7T6Y8-1 [UniParc]. Last modified December 7, 2004. Version 2. Checksum: BC4A893F2212E068	FASTA	881	101,472
	10 20 30 40 50 60 MNSKNSIILD NLADVSDIID YEQNSIDYQR SIKNIEQLKS TEATEITNKL AINKAKKSSN 70 80 90 100 110 120 ILLEVPKETI YLDHNGSIQV ITSEIIRTYV EKIFEKMEVT HLDIDKMTKN IFPKLKSINT 130 140 150 160 170 180 IKDIDNQIIS TASEMVTDHY DYPKIAVWIL MTNLHDNTSD DFLETAEKLY NNKSESNKNA 190 200 210 220 230 240 PIISENIYNF IKKHIKEINR VIRYDRDYNL TIFGFRTLEK SYLKRINKKI VERPQHLFMR 250 260 270 280 290 300 VAITLHYRKN DLDRIFETYK YLSKGYFTHA TPTLFNAGTT HEQLSSCFLL GIGDSLEEIS 310 320 330 340 350 360 ECWKECALIS KHAGGIGIHM TNIRVEGAYI ASTQGEAGGL RVLTIFNDIS RYANQGGKRP 370 380 390 400 410 420 GSFAIFIEPW HGDIFFFLDL KKNTGAETER ARDLFLGLMI NDIFMERVYK DDVWSLMCPS 430 440 450 460 470 480 QCPNLLNKYG DEFTKEYLKY ESEGIYLKQI RAIDLWFKIM ESQIETGVPY VMFKDAINDK 490 500 510 520 530 540 SNQINIGVVN GSNLCCEIVE VSDKNNFSVC NLSSICLPRF VKIIDEVPTF NYQKLFKISR 550 560 570 580 590 600 ILTRNLNNII DINFYPLDKT RITNLRDRPI GIGVQGLADV FAMFKTPFDS EIARDLNRKI 610 620 630 640 650 660 FETIYYGALT ESNKLAREFG TYQTYQGSPI SQGKFQFDLW NFDKSQLSGM WDWELLRQEI 670 680 690 700 710 720 LNHGVRNSLV TTCMPTASTS QIMGWNECIE PYTENIYSRS TMAGEYFVIN KHLIKDLIEL 730 740 750 760 770 780 GVWNSEMVDL IKYYKGSVAN IPNIPDNIKA IYRTVWEIPQ KSIIEMAADR APFVDQTQSM 790 800 810 820 830 840 NLYIDKPSFA RLNSCLFYAW RKGLKTGMYY LRSKPASSAN QFGIDIDKIK EIESKNGIKK 850 860 870 880 QEDTFDLTDL TNTINQQVSG MVCRFVPAHL RKPGECLSCD G

References

[1]	"The 1.2-megabase genome sequence of Mimivirus." Raoult D., Audic S., Robert C., Abergel C., Renesto P., Ogata H., La Scola B., Susan M., Claverie J.-M. Science 306:1344-1350(2004) [PubMed: 15486256] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: Rowbotham-Bradford.

Cross-references

Sequence databases
EMBL GenBank DDBJ	AY653733 Genomic DNA. Translation: AAQ09572.2.
RefSeq	YP_142667.1.
3D structure databases
SMR	Q7T6Y8. Positions 145-814.
ModBase	Search...
Genome annotation databases
GeneID	3162147.
Enzyme and pathway databases
BRENDA	1.17.4.1. 281366.
Family and domain databases
InterPro	IPR005144. ATP-cone. IPR013346. NrdE_NrdA. IPR013509. Ribncl_Rdtase_lsu_N. IPR000788. Ribncl_red_lg_C. IPR008926. Ribnucl_Rdtase_R1-su_N. [Graphical view]
PANTHER	PTHR11573. Ribncl_red_lg_C. 1 hit.
Pfam	PF02867. Ribonuc_red_lgC. 1 hit. PF00317. Ribonuc_red_lgN. 1 hit. [Graphical view]
PRINTS	PR01183. RIBORDTASEM1.
TIGRFAMs	TIGR02506. NrdE_NrdA. 1 hit.
PROSITE	PS51161. ATP_CONE. 1 hit. PS00089. RIBORED_LARGE. False negative. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

RIR1_MIMIV

Accession

Primary (citable) accession number: Q7T6Y8

Entry history

Integrated into UniProtKB/Swiss-Prot:	September 13, 2005
Last sequence update:	December 7, 2004
Last modified:	February 9, 2010
This is version 42 of the entry and version 2 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation project

Virus (Virus annotation project)