←Back to structures

RNA-dependent_RNA_polymerase

Euk-Vir

Beihai_narna-like_virus_24

RNA-dependent_RNA_polymerase__YP_009333245__Beihai_narna-like_virus_24__1922452

Identity

Accession:: YP_009333245 ↗
Protein ID:: RNA-dependent_RNA_polymerase
Kingdom:: euk

Quality

81.0 mean pLDDT

Cluster

Singleton — not in a non-trivial cluster

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 455-541

PDB

Domain cluster: representative

CATH (10)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3k1rA01	1.20.1160.20	Mainly Alpha › Up-down Bundle › Paired amphipathic helix 2 (pah2 repeat) ›	0.57	41.0	4.26e-01	95.4%	81.5%
2yjkC00	1.20.1260.10	Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle	0.56	39.0	3.31e-01	73.6%	87.9%
4kvmA01	1.25.40.1040	Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat ›	0.55	48.0	2.99e-01	97.7%	22.5%
1xriA00	3.90.190.10	Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily	0.54	43.0	3.63e-01	86.2%	91.4%
4e19A00	3.30.420.10	Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H	0.54	46.0	4.10e-01	97.7%	80.5%
5bp8A02	1.50.10.20	Mainly Alpha › Alpha/alpha barrel › Glycosyltransferase ›	0.53	46.0	3.37e-01	100.0%	53.5%
7qihA01	1.25.40.10	Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain	0.53	42.0	4.04e-01	100.0%	75.2%
1kpsB00	1.25.40.200	Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Ran-GTPase activating protein 1, C-terminal domain	0.52	45.0	3.82e-01	100.0%	89.1%
1d8cA03	1.20.1220.12	Mainly Alpha › Up-down Bundle › Malate Synthase G; Chain: A; Domain 4 › Malate synthase, domain III	0.52	41.0	3.60e-01	86.2%	91.1%
7nazA01	1.25.40.10	Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain	0.52	41.0	2.96e-01	87.4%	40.0%

ECOD (6)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3710693	109.4.1.0 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat	0.64	53.0	3.65e-01	96.6%	26.3%
3221179	2007.2.3.0 ↗	a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › (Phosphotyrosine protein) phosphatases II	0.55	47.0	3.67e-01	95.4%	76.3%
3997924	109.4.1.301 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Hid1	0.54	47.0	2.87e-01	98.9%	30.4%
3951455	109.4.1.277 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › T7SS_EccA1_N	0.52	41.0	2.90e-01	87.4%	28.4%
3618077	603.1.1.149 ↗	alpha bundles › STAT-like › t-snare proteins › t-snare proteins › Frag1	0.51	36.0	3.28e-01	74.7%	94.4%
3905342	3579.1.1.1 ↗	extended segments › NADH-quinone oxidoreductase subunit J › NADH-quinone oxidoreductase subunit J › NADH-quinone oxidoreductase subunit J › Oxidored_q3	0.51	35.0	2.82e-01	74.7%	36.5%

D2 high residues 545-702

PDB

Domain cluster: rep: RNA-dependent_RNA_polymerase__YP_009342440__Wuhan_insect_virus_18__1923722__D703-884

ECOD (1)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
4329001	5065.1.1.2 ↗	alpha bundles › Type II ABC importer transmembrane domain fold › Type II ABC importer transmembrane domain fold › Type II ABC importer transmembrane domain fold › FecCD	0.53	39.0	3.11e-01	76.6%	84.5%

D3 medium residues 72-89_196-227_261-317

PDB

Domain cluster: representative

CATH (9)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
2r7rA05	1.10.357.80	Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 ›	0.74	68.0	5.71e-01	100.0%	92.6%
6z74C02	1.20.120.530	Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › GntR ligand-binding domain-like	0.58	42.0	3.72e-01	76.6%	100.0%
3rc3A01	1.10.1740.140	Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A ›	0.55	32.0	3.29e-01	80.4%	59.2%
2w00A02	3.90.640.50	Alpha Beta › Alpha-Beta Complex › Actin; Chain A, domain 4 ›	0.55	24.0	2.87e-01	78.5%	57.5%
2cwlB01	1.20.1260.10	Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle	0.55	42.0	3.17e-01	82.2%	82.7%
3r2kA00	1.20.1260.10	Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle	0.54	40.0	3.65e-01	80.4%	97.4%
2p5kA00	1.10.10.10	Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain	0.54	27.0	3.33e-01	79.4%	77.8%
2kr7A02	2.40.10.330	Mainly Beta › Beta Barrel › Thrombin, subunit H ›	0.53	21.0	2.73e-01	83.2%	61.4%
1p65A00	6.10.140.90	Special › Helix non-globular › Helix Hairpins ›	0.52	27.0	3.50e-01	75.7%	93.0%

ECOD (5)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3397393	603.1.1.101 ↗	alpha bundles › STAT-like › t-snare proteins › t-snare proteins › 7tm_6	0.56	46.0	3.17e-01	89.7%	79.7%
3614219	1189.1.1.0 ↗	alpha bundles › VSG (variant surface glycoprotein) N-terminal domain and haptoglobin-hemoglobin receptor › VSG (variant surface glycoprotein) N-terminal domain and haptoglobin-hemoglobin receptor › VSG (variant surface glycoprotein) N-terminal domain and haptoglobin-hemoglobin receptor	0.53	43.0	3.01e-01	88.8%	73.2%
4990979	7516.1.1.51 ↗	a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Glyco_transf_21	0.53	47.0	3.31e-01	100.0%	87.8%
4043003	601.7.1.6 ↗	alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain › GlnD_UR_UTase	0.52	38.0	3.34e-01	78.5%	58.8%
5029865	5059.1.1.0 ↗	alpha bundles › Drug/Metabolite transporter › Drug/Metabolite transporter › Drug/Metabolite transporter	0.50	43.0	3.94e-01	95.3%	86.8%

D4 medium residues 228-260_318-415_440-452

PDB

Domain cluster: rep: RNA-dependent_RNA_polymerase__YP_009342440__Wuhan_insect_virus_18__1923722__D388-416_481-565_595-607