P0CG99 (RIR1A_MYCS2) Reviewed, UniProtKB/Swiss-Prot

Names and origin

Protein names

Recommended name:
Ribonucleoside-diphosphate reductase subunit alpha 1
EC=1.17.4.1

Alternative name(s):
Ribonucleotide reductase R1 subunit 1

Gene names

Name:	nrdE1
Ordered Locus Names:	MSMEG_1019, MSMEI_0990

Organism

Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155) [Reference proteome] [HAMAP]

Taxonomic identifier

246196 [NCBI]

Taxonomic lineage

cellular organisms › Bacteria › Actinobacteria › Actinobacteria › Actinobacteridae › Actinomycetales › Corynebacterineae › Mycobacteriaceae › Mycobacterium › Mycobacterium smegmatis

Protein attributes

Sequence length	722 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

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	Tetramer of two alpha and two beta subunits By similarity.
Miscellaneous	Pupylation of this protein has been demonstrated, although it is unknown if the protein concerned is the product of this gene, of the identical gene MSMEG_2299 (AC P0CH00), or of both genes.
Sequence similarities	Belongs to the ribonucleoside diphosphate reductase large chain family.
Sequence caution	The sequence ABK71849.1 differs from that shown. Reason: Erroneous initiation. Translation N-terminally extended.

Ontologies

Keywords
Biological process	DNA replication
Ligand	ATP-binding Nucleotide-binding
Molecular function	Oxidoreductase
PTM	Disulfide bond Isopeptide bond Ubl conjugation
Technical term	Allosteric enzyme Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	DNA replication Inferred from electronic annotation. Source: UniProtKB-UniPathway
Cellular_component	ribonucleoside-diphosphate reductase complex Inferred from electronic annotation. Source: InterPro
Molecular_function	ATP binding Inferred from electronic annotation. Source: UniProtKB-KW ribonucleoside-diphosphate reductase activity, thioredoxin disulfide as acceptor 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 – 722	722	Ribonucleoside-diphosphate reductase subunit alpha 1		PRO_0000396103
Regions
	Region	185 – 186	2	Substrate binding By similarity
	Region	394 – 398	5	Substrate binding By similarity
	Region	596 – 600	5	Substrate binding By similarity
Sites
	Active site	394	1	Proton acceptor By similarity
	Active site	396	1	Cysteine radical intermediate By similarity
	Active site	398	1	Proton acceptor By similarity
	Binding site	169	1	Substrate By similarity
	Binding site	214	1	Substrate; via amide nitrogen By similarity
	Site	186	1	Important for hydrogen atom transfer By similarity
	Site	193	1	Allosteric effector binding By similarity
	Site	223	1	Allosteric effector binding By similarity
	Site	423	1	Important for hydrogen atom transfer By similarity
	Site	700	1	Important for electron transfer By similarity
	Site	701	1	Important for electron transfer By similarity
	Site	717	1	Interacts with thioredoxin/glutaredoxin By similarity
	Site	720	1	Interacts with thioredoxin/glutaredoxin By similarity
Amino acid modifications
	Disulfide bond	186 ↔ 423		Redox-active By similarity
	Cross-link	310		Isoglutamyl lysine isopeptide (Lys-Gln) (interchain with Q-Cter in protein Pup)

Sequences

	Sequence		Length	Mass (Da)
	P0CG99 [UniParc]. Last modified August 10, 2010. Version 1. Checksum: 9D24EFB724737F9A	FASTA	722	82,106
	10 20 30 40 50 60 MPPTVTAAEP VTTTGHVLPG EADYHALNAM LNLYDADGKI QFEKDREAAK QYFLQHVNQN 70 80 90 100 110 120 TVFFHSQDEK LDYLIENEYY EREVLDQYSR DFIKSLLDRA YAKKFRFPTF LGAFKYYTSY 130 140 150 160 170 180 TLKTFDGKRY LERFEDRVVM VALTLAAGDT ELAEKLVDEI IDGRFQPATP TFLNSGKKQR 190 200 210 220 230 240 GEPVSCFLLR IEDNMESIGR SINSALQLSK RGGGVALLLS NIREHGAPIK NIENQSSGVI 250 260 270 280 290 300 PIMKLLEDSF SYANQLGARQ GAGAVYLHAH HPDIYRFLDT KRENADEKIR IKTLSLGVVI 310 320 330 340 350 360 PDITFELAKK NEDMYLFSPY DVERVYGVPF ADVSVTEKYY EMVDDARIRK TKINAREFFQ 370 380 390 400 410 420 TLAELQFESG YPYIMFEDTV NRSNPIAGKI THSNLCSEIL QVSTPSEFND DLSYAKVGKD 430 440 450 460 470 480 ISCNLGSLNI AKAMDSPDFA QTIEVAIRAL TAVSDQTHIT SVPSIEQGNN DSHAIGLGQM 490 500 510 520 530 540 NLHGYLARER IYYGSEEGID FTNIYFYTVL FHALRASNKI AIERGTHFKG FEKSKYASGE 550 560 570 580 590 600 FFDKYTDQVW EPKTDKVRRL FADADIHIPT QDDWKQLKES VQKHGIYNQN LQAVPPTGSI 610 620 630 640 650 660 SYINHSTSSI HPVASKIEIR KEGKIGRVYY PAPYMTNDNL DYYQDAYEIG YEKIIDTYAA 670 680 690 700 710 720 ATQHVDQGLS LTLFFKDTAT TRDVNKAQIY AWRKGIKTLY YIRLRQMALE GTEVEGCVSC ML

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	Fleischmann R.D., Dodson R.J., Haft D.H., Merkel J.S., Nelson W.C., Fraser C.M. Submitted (OCT-2006) to the EMBL/GenBank/DDBJ databases Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 700084 / mc(2)155.
[2]	"Interrupted coding sequences in Mycobacterium smegmatis: authentic mutations or sequencing errors?" Deshayes C., Perrodou E., Gallien S., Euphrasie D., Schaeffer C., Van-Dorsselaer A., Poch O., Lecompte O., Reyrat J.-M. Genome Biol. 8:R20.1-R20.9(2007) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 700084 / mc(2)155.
[3]	"Ortho-proteogenomics: multiple proteomes investigation through orthology and a new MS-based protocol." Gallien S., Perrodou E., Carapito C., Deshayes C., Reyrat J.-M., Van Dorsselaer A., Poch O., Schaeffer C., Lecompte O. Genome Res. 19:128-135(2009) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 700084 / mc(2)155.
[4]	"Expansion of the mycobacterial 'PUPylome'." Watrous J., Burns K., Liu W.T., Patel A., Hook V., Bafna V., Barry C.E. III, Bark S., Dorrestein P.C. Mol. Biosyst. 6:376-385(2010) [PubMed] [Europe PMC] [Abstract] Cited for: PUPYLATION AT LYS-310, IDENTIFICATION BY MASS SPECTROMETRY.

Cross-references

Sequence databases
EMBL GenBank DDBJ	CP000480 Genomic DNA. Translation: ABK71849.1. Different initiation. CP001663 Genomic DNA. Translation: AFP37470.1.
RefSeq	YP_006565765.1. NC_018289.1. YP_006567006.1. NC_018289.1. YP_885419.1. NC_008596.1. YP_886648.1. NC_008596.1.
3D structure databases
ModBase	Search...
Protocols and materials databases
StructuralBiologyKnowledgebase	Search...
Genome annotation databases
EnsemblBacteria	ABK71849; ABK71849; MSMEG_1019.
GeneID	13428160. 13428758. 4531391. 4535428.
KEGG	msg:MSMEI_0990. msg:MSMEI_2241. msm:MSMEG_1019. msm:MSMEG_2299.
PATRIC	18074490. VBIMycSme59918_1006.
Phylogenomic databases
HOGENOM	HOG000246165.
KO	K00525.
Enzyme and pathway databases
BioCyc	MSME246196:GJ4Y-1019-MONOMER. MSME246196:GJ4Y-2299-MONOMER.
UniPathway	UPA00326.
Family and domain databases
InterPro	IPR013346. NrdE_NrdA. IPR026459. RNR_1b_NrdE. IPR000788. RNR_lg_C. IPR013509. RNR_lsu_N. IPR013554. RNR_N. IPR008926. RNR_R1-su_N. [Graphical view]
Pfam	PF02867. Ribonuc_red_lgC. 1 hit. PF00317. Ribonuc_red_lgN. 1 hit. PF08343. RNR_N. 1 hit. [Graphical view]
PRINTS	PR01183. RIBORDTASEM1.
SUPFAM	SSF48168. Ribonucleo_red_N. 1 hit.
TIGRFAMs	TIGR02506. NrdE_NrdA. 1 hit. TIGR04170. RNR_1b_NrdE. 1 hit.
PROSITE	PS00089. RIBORED_LARGE. 1 hit. [Graphical view]
ProtoNet	Search...

Entry information

Entry name

RIR1A_MYCS2

Accession

Primary (citable) accession number: P0CG99
Secondary accession number(s): A0QR81, I7F7C8

Entry history

Integrated into UniProtKB/Swiss-Prot:	August 10, 2010
Last sequence update:	August 10, 2010
Last modified:	May 1, 2013
This is version 26 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Prokaryotic Protein Annotation Program