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3D

Euk-Vir

Bat_picornavirus_3

3D__YP_004782541__Bat_picornavirus_3__1074865

Identity

Accession:: YP_004782541 ↗
Protein ID:: 3D
Kingdom:: euk

Quality

95.8 mean pLDDT

Taxonomy

Orthornavirae› Pisuviricota› Pisoniviricetes› Picornavirales› Picornaviridae› Bat_picornavirus_3

TaxID: 1074865

Cluster

View cluster (450 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 374-460

PDB

Domain cluster: rep: putative_3D_RNA-dependent_RNA_polymerase__YP_009553719__tremovirus_B1__2058161__D405-481

D2 medium residues 1-51_111-178_269-291

PDB

Domain cluster: rep: RNA-dependent_RNA_polymerase_3D__NP_740737__Parechovirus_A__1803956__D11-60_159-185_260-299

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF00680.26 best	RdRP_1	38.0	1.20e-09	81.7%	25.6%

CATH (1)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
2iz4A01	2.10.70.10	Mainly Beta › Ribbon › Complement Module; domain 1 › Complement Module, domain 1	0.53	21.0	3.26e-01	95.1%	100.0%

ECOD (11)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
None	—		0.97	95.0	6.69e-01	100.0%	79.0%
1173784	304.48.1.8 ↗	a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RdRP_1	0.97	94.0	6.63e-01	100.0%	78.9%
5367	304.48.1.8 ↗	a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RdRP_1	0.91	88.0	6.16e-01	100.0%	79.4%
2541763	304.48.1.8 ↗	a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RdRP_1	0.89	85.0	6.03e-01	100.0%	79.7%
1875037	304.48.1.8 ↗	a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RdRP_1	0.81	75.0	5.36e-01	97.9%	76.6%
1699894	304.48.2.2 ↗	a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › 'palm' domain in birnaviruse RNA-dependent RNA polymerase › Permu_RdRp_palm	0.72	67.0	4.43e-01	98.6%	67.9%
1145898	304.48.2.1 ↗	a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › 'palm' domain in birnaviruse RNA-dependent RNA polymerase › Birna_RdRp_palm	0.71	65.0	4.36e-01	98.6%	81.5%
None	—		0.71	65.0	4.40e-01	99.3%	83.4%
5366	304.48.1.15 ↗	a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RdRP_3	0.68	56.0	3.99e-01	87.3%	70.6%
4871000	304.48.1.8 ↗	a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RdRP_1	0.65	59.0	4.70e-01	95.8%	91.3%
217141	304.48.1.15 ↗	a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RdRP_3	0.61	56.0	4.15e-01	100.0%	75.4%

D3 medium residues 52-110_179-202_239-268

PDB

Domain cluster: representative

CATH (2)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
6pmiF01	1.10.1740.10	Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif	0.54	23.0	2.72e-01	99.1%	50.0%
2pg0A01	1.10.540.10	Mainly Alpha › Orthogonal Bundle › Butyryl-Coa Dehydrogenase, subunit A; domain 1 › Acyl-CoA dehydrogenase/oxidase, N-terminal domain	0.51	38.0	3.82e-01	88.5%	76.9%

ECOD (6)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
1173784	304.48.1.8 ↗	a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RdRP_1	0.96	94.0	6.19e-01	100.0%	58.0%
5367	304.48.1.8 ↗	a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RdRP_1	0.90	85.0	5.70e-01	100.0%	59.5%
3705222	109.4.1.17 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Cullin	0.52	33.0	3.57e-01	84.1%	74.7%
None	—		0.51	40.0	2.84e-01	85.8%	91.2%
3435024	109.4.1.1262 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_1, PPR_2, PPR_long	0.51	29.0	1.96e-01	88.5%	13.3%
3484760	109.4.1.0 ↗	alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat	0.51	33.0	3.19e-01	84.1%	57.1%

D4 medium residues 203-238_292-373

PDB

Domain cluster: rep: RNA_dependent_RNA_polymerase__YP_529897__Newbury_agent_1__331642__D58-79_192-241_281-399

Pfam (2)

Accession	Name	Score	E-value	Q cov	HMM cov
PF00680.26 best	RdRP_1	39.1	5.60e-10	67.0%	17.3%
PF02123.22	RdRP_4	27.2	2.70e-06	66.1%	14.2%