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RNA_dependent_RNA_polymerase

Euk-Vir

Botrytis_cinerea_mitovirus_4

RNA_dependent_RNA_polymerase__YP_009182163__Botrytis_cinerea_mitovirus_4__1629667

Identity

Accession:: YP_009182163 ↗
Protein ID:: RNA_dependent_RNA_polymerase
Kingdom:: euk

Quality

79.7 mean pLDDT

Taxonomy

Orthornavirae› Lenarviricota› Howeltoviricetes› Cryppavirales› Mitoviridae› Unuamitovirus› Botrytis_cinerea_mitovirus_4

TaxID: 1629667

Cluster

View cluster (26 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 medium residues 1-130

PDB

Domain cluster: rep: RNA-dependent_RNA_polymerase__YP_009465715__Erysiphe_necator_mitovirus_1__2052561__D5-113

D2 medium residues 163-222

PDB

Domain cluster: representative

CATH (8)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
2kw6A00	6.10.140.1300	Special › Helix non-globular › Helix Hairpins ›	0.55	43.0	4.22e-01	86.7%	87.7%
3lqhA02	1.20.920.10	Mainly Alpha › Up-down Bundle › Histone Acetyltransferase; Chain A › Bromodomain-like	0.54	48.0	3.99e-01	100.0%	73.6%
5jpnB01	1.20.91.20	Mainly Alpha › Up-down Bundle › Influenza Virus Matrix Protein; Chain A, domain 1 › Anaphylotoxins (complement system)	0.54	39.0	3.77e-01	93.3%	66.7%
5fhiA02	1.20.1050.10	Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 ›	0.53	44.0	3.44e-01	95.0%	81.3%
2dchX01	3.10.28.10	Alpha Beta › Roll › Endonuclease I-creI › Homing endonucleases	0.52	41.0	3.64e-01	90.0%	97.8%
5ibkB00	1.20.1280.50	Mainly Alpha › Up-down Bundle › Monooxygenase ›	0.52	36.0	3.89e-01	100.0%	97.8%
2wusS00	1.10.260.40	Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains	0.52	42.0	3.89e-01	95.0%	90.2%
1vpwA01	1.10.260.40	Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains	0.50	33.0	3.36e-01	70.0%	70.2%

ECOD (2)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3243910	145.1.1.1 ↗	alpha arrays › F-box domain › F-box domain › F-box domain › F-box	0.61	39.0	4.21e-01	81.7%	80.0%
4001028	10.28.1.1 ↗	beta sandwiches › jelly-roll › Jelly-roll domain in Zinc finger protein ZPR1 › Jelly-roll domain in Zinc finger protein ZPR1 › jr-ZPR1	0.55	44.0	3.43e-01	91.7%	40.0%

D3 medium residues 223-274_309-356

PDB

Domain cluster: rep: RNA-dependent_RNA_polymerase__YP_009336749__Hubei_narna-like_virus_22__1922953__D130-171_213-274

Pfam (2)

Accession	Name	Score	E-value	Q cov	HMM cov
PF05919.17 best	Mitovir_RNA_pol	61.9	8.20e-17	54.0%	8.8%
PF05919.17	Mitovir_RNA_pol	46.7	3.50e-12	49.0%	9.3%

CATH (5)

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 ›	0.76	65.0	5.35e-01	93.0%	68.2%
5iroD00	2.60.40.3530	Mainly Beta › Sandwich › Immunoglobulin-like ›	0.59	28.0	2.87e-01	94.0%	42.2%
2kz0A01	3.30.300.90	Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › BolA-like	0.53	31.0	3.56e-01	93.0%	81.7%
5h20A00	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	0.52	30.0	2.99e-01	90.0%	53.4%
1cksB00	3.30.170.10	Alpha Beta › 2-Layer Sandwich › Cyclin-Dependent Kinase Subunit Type 2 › Cyclin-dependent kinase, regulatory subunit	0.52	31.0	3.44e-01	94.0%	75.6%

ECOD (19)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3589612	304.48.1.1 ↗	a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1	0.81	70.0	4.78e-01	93.0%	51.8%
3983816	304.48.1.1 ↗	a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1	0.81	69.0	5.03e-01	91.0%	54.0%
3945039	304.48.1.1 ↗	a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1	0.79	68.0	4.65e-01	92.0%	50.3%
4461237	4967.1.1.0 ↗	alpha bundles › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases	0.79	68.0	4.25e-01	93.0%	31.3%
223786	304.48.1.16 ↗	a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RdRP_4	0.75	64.0	4.44e-01	93.0%	46.7%
4070164	304.48.1.1 ↗	a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1	0.75	64.0	4.32e-01	93.0%	37.8%
4152428	304.48.1.1 ↗	a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1	0.74	65.0	4.44e-01	96.0%	73.0%
4262041	304.48.1.1 ↗	a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1	0.68	58.0	4.28e-01	93.0%	51.4%
3586357	3785.1.1.1 ↗	a+b three layers › Suppressor of Fused, C-terminal domain › Suppressor of Fused, C-terminal domain › Suppressor of Fused, C-terminal domain › SARA_C	0.67	34.0	3.05e-01	91.0%	33.1%
4890630	304.48.1.1 ↗	a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1	0.61	51.0	3.84e-01	91.0%	49.0%
3711833	7015.1.1.0 ↗	alpha bundles › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain	0.54	37.0	3.15e-01	70.0%	52.7%
3463329	327.18.1.1 ↗	a+b two layers › Alpha-lytic protease prodomain-like › 40S ribosomal protein S7-A › 40S ribosomal protein S7-A › Ribosomal_S7e	0.53	30.0	2.95e-01	94.0%	50.0%
3501234	5001.1.1.1 ↗	alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1	0.53	40.0	2.82e-01	82.0%	85.6%
3178390	373.1.1.0 ↗	few secondary structure elements › Zn2/Cys6 DNA-binding domain › Zn2/Cys6 DNA-binding domain › Zn2/Cys6 DNA-binding domain	0.52	33.0	3.88e-01	92.0%	96.9%
3680555	284.1.3.0 ↗	a+b two layers › FKBP-like › FKBP-like › WNK1 autoinhibitory domain	0.52	35.0	3.63e-01	70.0%	77.9%
4669204	101.1.2.0 ↗	alpha arrays › HTH › HTH › winged helix domain	0.52	40.0	2.64e-01	83.0%	96.9%
3700547	109.4.1.22 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Adaptin_N	0.51	32.0	1.99e-01	85.0%	9.8%
3370453	2484.1.1.1 ↗	mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › HSP70	0.51	34.0	2.65e-01	99.0%	31.9%
3480534	101.1.2.0 ↗	alpha arrays › HTH › HTH › winged helix domain	0.50	36.0	3.39e-01	96.0%	61.7%

D4 medium residues 275-308_357-437

PDB

Domain cluster: rep: KR816341.1__AKQ06880.1__X__00021__D162-195_238-325

Pfam (2)

Accession	Name	Score	E-value	Q cov	HMM cov
PF05919.17 best	Mitovir_RNA_pol	156.7	1.60e-45	70.4%	16.1%
PF05919.17	Mitovir_RNA_pol	43.3	3.60e-11	29.6%	7.4%

D5 medium residues 438-532

PDB

Domain cluster: representative

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF05919.17 best	Mitovir_RNA_pol	35.3	1.00e-08	100.0%	19.7%

CATH (6)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
2imsA00	1.10.437.10	Mainly Alpha › Orthogonal Bundle › Apoptosis Regulator Bcl-x › Blc2-like	0.60	47.0	3.95e-01	84.2%	52.8%
2wzkA02	1.20.1310.10	Mainly Alpha › Up-down Bundle › 5 helical Cullin repeat like › Cullin Repeats	0.54	41.0	3.75e-01	82.1%	94.5%
4kvmA01	1.25.40.1040	Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat ›	0.53	45.0	2.90e-01	94.7%	27.3%
1ldjA04	1.20.1310.10	Mainly Alpha › Up-down Bundle › 5 helical Cullin repeat like › Cullin Repeats	0.53	41.0	3.92e-01	85.3%	70.4%
2hgkA01	1.20.1440.40	Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › YqcC-like	0.52	36.0	3.56e-01	94.7%	66.7%
4jxtA00	1.25.40.90	Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat ›	0.50	42.0	3.89e-01	97.9%	96.2%

ECOD (7)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3824324	109.4.1.17 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Cullin	0.59	40.0	3.02e-01	70.5%	43.3%
3812874	109.4.1.1260 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, PPR_3, PPR_long	0.58	51.0	3.97e-01	97.9%	72.4%
3935982	109.4.1.17 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Cullin	0.56	45.0	3.06e-01	88.4%	48.7%
3336338	109.4.1.1330 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR_1, PPR_2, PPR_3, PPR_long	0.55	45.0	4.08e-01	96.8%	64.4%
3368892	109.4.1.189 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR_2	0.55	47.0	3.70e-01	96.8%	55.3%
3736681	101.1.1.0 ↗	alpha arrays › HTH › HTH › Three-helical HTH	0.55	39.0	4.05e-01	73.7%	87.1%
5051562	138.1.1.2 ↗	alpha arrays › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain › DNA polymerase III clamp loader subunits, C-terminal domain › Rep_fac_C	0.54	40.0	4.13e-01	80.0%	85.6%

D6 medium residues 533-621_696-731

PDB

D7 medium residues 622-677

PDB