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ribonucleotide_reductase_subunit_1

Euk-Vir

Macropodid_alphaherpesvirus_1

ribonucleotide_reductase_subunit_1__YP_009227272__Macropodid_alphaherpesvirus_1__137443

Identity

Accession:: YP_009227272 ↗
Protein ID:: ribonucleotide_reductase_subunit_1
Kingdom:: euk

Quality

81.9 mean pLDDT

Taxonomy

Heunggongvirae› Peploviricota› Herviviricetes› Herpesvirales› Orthoherpesviridae› Simplexvirus› Macropodid_alphaherpesvirus_1

TaxID: 137443

Cluster

View cluster (122 members)

3D Structure

Download PDB Download Scores JSON

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 450-595

PDB

Domain cluster: rep: IMGVR_UViG_3300042092_000730-3300042092-Ga0453238_010587_859_2079__D220-402

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF02867.21 best	Ribonuc_red_lgC	103.6	1.60e-29	98.0%	25.2%

CATH (2)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
2wghA00	3.20.70.20	Alpha Beta › Alpha-Beta Barrel › Anaerobic Ribonucleotide-triphosphate Reductase Large Chain ›	0.87	83.0	5.22e-01	100.0%	22.7%
2bx2L02	3.40.1260.20	Alpha Beta › 3-Layer(aba) Sandwich › Hypothetical Protein Ychn; Chain: A, › Ribonuclease E, catalytic domain	0.54	30.0	3.39e-01	74.0%	70.0%

ECOD (17)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
996122	2500.1.1.2 ↗	a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ribonuc_red_lgC	0.89	85.0	5.44e-01	100.0%	24.9%
3500621	2500.1.1.2 ↗	a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ribonuc_red_lgC	0.88	85.0	5.57e-01	100.0%	29.4%
3823652	2500.1.1.2 ↗	a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ribonuc_red_lgC	0.88	85.0	5.46e-01	100.0%	25.8%
4015532	2500.1.1.0 ↗	a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel	0.88	85.0	5.44e-01	100.0%	25.4%
4298539	2500.1.1.2 ↗	a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ribonuc_red_lgC	0.87	85.0	5.49e-01	100.0%	28.0%
4067125	2500.1.1.2 ↗	a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ribonuc_red_lgC	0.87	84.0	5.50e-01	100.0%	30.2%
4993733	2500.1.1.0 ↗	a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel	0.83	66.0	4.30e-01	100.0%	21.6%
3590466	2500.1.1.2 ↗	a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ribonuc_red_lgC	0.83	80.0	5.18e-01	100.0%	27.2%
3958480	2500.1.1.2 ↗	a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ribonuc_red_lgC	0.82	79.0	5.65e-01	100.0%	40.0%
4994375	2500.1.1.0 ↗	a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel	0.81	64.0	4.30e-01	100.0%	23.8%
4934525	2500.1.1.2 ↗	a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ribonuc_red_lgC	0.81	64.0	4.19e-01	100.0%	21.8%
4985374	2500.1.1.2 ↗	a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ribonuc_red_lgC	0.81	64.0	4.12e-01	100.0%	20.7%
4825675	2500.1.1.0 ↗	a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel	0.80	51.0	4.10e-01	97.9%	36.9%
4990406	2500.1.1.2 ↗	a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ribonuc_red_lgC	0.77	72.0	4.66e-01	100.0%	24.4%
3992823	2005.1.1.36 ↗	a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › SLC12	0.57	30.0	2.74e-01	77.4%	36.8%
3446291	2006.1.3.11 ↗	a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain › TOP6A-Spo11_Toprim	0.53	43.0	4.05e-01	100.0%	70.0%
4682182	2006.1.6.4 ↗	a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › Ku_N	0.53	34.0	3.32e-01	100.0%	54.7%

D2 medium residues 134-277

PDB

Domain cluster: rep: ribonucleotide_reductase_subunit_1__YP_009230170__Leporid_alphaherpesvirus_4__481315__D62-200

D3 medium residues 278-411

PDB

Domain cluster: rep: ribonucleotide_reductase_subunit_1__YP_401655__Human_gammaherpesvirus_4__10376__D15-179

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF00317.27 best	Ribonuc_red_lgN	50.9	1.80e-13	64.9%	96.1%

D4 medium residues 596-618_912-955

PDB

Domain cluster: representative

CATH (8)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
2wghA00	3.20.70.20	Alpha Beta › Alpha-Beta Barrel › Anaerobic Ribonucleotide-triphosphate Reductase Large Chain ›	0.84	74.0	4.13e-01	92.5%	50.0%
4y9tA01	3.40.50.2300	Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator	0.64	41.0	3.18e-01	82.1%	30.3%
1sbpA01	3.40.190.10	Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II	0.58	39.0	3.06e-01	89.6%	31.1%
2f5xA01	3.40.190.150	Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Bordetella uptake gene, domain 1	0.54	35.0	2.66e-01	91.0%	25.7%
4ua8A01	3.40.190.10	Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II	0.53	38.0	2.81e-01	89.6%	26.8%
3u7iA00	3.40.50.360	Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Flavodoxin domain	0.53	41.0	2.89e-01	83.6%	27.5%
3g23A01	3.40.50.10740	Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Murein tetrapeptidase LD-carboxypeptidase, N-terminal domain	0.52	37.0	2.87e-01	77.6%	31.5%
3it4B01	3.30.2330.10	Alpha Beta › 2-Layer Sandwich › arginine biosynthesis bifunctional protein fold › arginine biosynthesis bifunctional protein suprefamily	0.51	36.0	3.51e-01	77.6%	78.5%

ECOD (10)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
996122	2500.1.1.2 ↗	a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ribonuc_red_lgC	0.84	80.0	4.53e-01	100.0%	60.8%
4930986	2007.2.1.3 ↗	a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › Flavoproteins › FMN_red	0.62	43.0	3.15e-01	77.6%	26.3%
4959516	2007.2.1.3 ↗	a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › Flavoproteins › FMN_red	0.58	44.0	3.11e-01	83.6%	26.8%
3610560	327.7.1.0 ↗	a+b two layers › Alpha-lytic protease prodomain-like › Cation efflux protein cytoplasmic domain-like › Cation efflux protein cytoplasmic domain-like	0.56	44.0	3.70e-01	91.0%	50.4%
4092963	2006.1.6.38 ↗	a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like › DUF444	0.56	40.0	2.90e-01	77.6%	35.0%
5033001	7575.1.1.0 ↗	a/b three-layered sandwiches › Caspase-like › Caspase-like › Caspase-like	0.53	46.0	3.22e-01	100.0%	52.9%
3194939	7590.1.1.2 ↗	a/b three-layered sandwiches › Middle domain in Argonaute homologs › Middle domain in Argonaute homologs › Middle domain in Argonaute homologs › Piwi	0.53	40.0	2.98e-01	82.1%	66.9%
4957948	2007.2.1.3 ↗	a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › Flavoproteins › FMN_red	0.52	38.0	2.61e-01	83.6%	20.8%
4006576	3598.1.1.4 ↗	a/b three-layered sandwiches › Cellulose Synthase Subunit B a/b domain › Cellulose Synthase Subunit B a/b domain › Cellulose Synthase Subunit B a/b domain › PF29164	0.52	37.0	2.94e-01	77.6%	43.4%
3506145	2498.2.1.8 ↗	mixed a+b and a/b › Zincin-like › beta-N-acetylhexosaminidase-like domain › beta-N-acetylhexosaminidase-like domain › PF29164	0.51	36.0	2.89e-01	77.6%	42.0%

D5 medium residues 619-820_884-911

PDB

Domain cluster: rep: rr1__YP_009552690__Operophtera_brumata_nucleopolyhedrovirus__1046267__D445-618_684-706

Pfam (2)

Accession	Name	Score	E-value	Q cov	HMM cov
PF02867.21 best	Ribonuc_red_lgC	200.8	5.20e-59	88.3%	38.4%
PF02867.21	Ribonuc_red_lgC	24.4	1.60e-05	13.9%	5.9%

D6 medium residues 821-883

PDB

Domain cluster: rep: ribonucleotide_reductase_subunit_1__YP_182368__Gallid_alphaherpesvirus_1__10386__D639-699