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ORF1_protein

Euk-Vir

Cacao_swollen_shoot_Ghana_R_virus

ORF1_protein__YP_009553043__Cacao_swollen_shoot_Ghana_R_virus__2056886

Identity

Accession:: YP_009553043 ↗
Protein ID:: ORF1_protein
Kingdom:: euk

Quality

82.7 mean pLDDT

Taxonomy

Pararnavirae› Artverviricota› Revtraviricetes› Ortervirales› Caulimoviridae› Badnavirus› Cacao_swollen_shoot_Ghana_R_virus

TaxID: 2056886

Cluster

View cluster (31 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 1-88

PDB

Domain cluster: representative

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF07028.17 best	DUF1319	31.6	2.30e-07	76.1%	57.8%

CATH (28)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
1ykhA00	6.10.140.200	Special › Helix non-globular › Helix Hairpins ›	0.80	58.0	5.65e-01	75.0%	100.0%
2yfaA02	1.20.1440.210	Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) ›	0.80	47.0	4.28e-01	85.2%	45.7%
3fppA03	6.10.140.1990	Special › Helix non-globular › Helix Hairpins ›	0.79	52.0	5.28e-01	97.7%	68.2%
7wivA01	3.40.50.300	Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases	0.76	55.0	3.70e-01	75.0%	22.1%
2r9iA00	1.10.287.80	Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ATP synthase, gamma subunit, helix hairpin domain	0.73	55.0	6.07e-01	87.5%	100.0%
1avoB00	1.20.120.180	Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Proteasome activator pa28, C-terminal domain	0.72	60.0	5.15e-01	92.0%	57.1%
6cgaC02	1.20.58.860	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 ›	0.72	59.0	6.23e-01	100.0%	98.7%
2wauA02	1.20.58.830	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 ›	0.71	46.0	4.10e-01	80.7%	47.5%
2v0oB00	1.20.1270.60	Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain	0.70	63.0	4.46e-01	100.0%	51.3%
1wpaA01	6.10.140.340	Special › Helix non-globular › Helix Hairpins ›	0.70	51.0	4.94e-01	77.3%	99.0%
1wdzA00	1.20.1270.60	Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain	0.69	63.0	4.58e-01	100.0%	58.0%
2yevC00	6.10.280.110	Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 ›	0.69	46.0	5.32e-01	80.7%	96.8%
5j1gA00	1.20.58.60	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 ›	0.69	62.0	4.56e-01	100.0%	83.3%
3hr0B01	1.10.287.1060	Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like	0.68	50.0	5.31e-01	77.3%	89.9%
2y39A00	1.20.120.1490	Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) ›	0.68	51.0	4.78e-01	79.5%	66.4%
4hr1A00	1.20.1270.410	Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 ›	0.68	49.0	4.42e-01	75.0%	61.9%
1fs0G02	1.10.287.80	Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ATP synthase, gamma subunit, helix hairpin domain	0.67	47.0	4.73e-01	73.9%	93.3%
4fzsA00	1.20.1270.60	Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain	0.66	58.0	4.45e-01	98.9%	67.0%
1st6A03	1.20.120.810	Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Vinculin, Vh2 four-helix bundle	0.65	51.0	3.79e-01	86.4%	32.8%
6g94A00	1.20.950.20	Mainly Alpha › Up-down Bundle › Fumarate Reductase Cytochrome B subunit › Transmembrane di-heme cytochromes, Chain C	0.63	44.0	3.51e-01	71.6%	40.7%
1l8dA00	1.10.287.510	Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin	0.62	48.0	4.54e-01	98.9%	69.9%
4lwsA00	1.10.287.1060	Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like	0.62	55.0	5.30e-01	96.6%	89.0%
4wpcA00	1.20.1270.60	Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain	0.62	54.0	3.82e-01	98.9%	48.1%
6xj1A01	1.20.1270.60	Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain	0.61	54.0	3.94e-01	98.9%	64.1%
3uumA00	1.20.58.60	Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 ›	0.61	49.0	4.42e-01	89.8%	63.1%
5u56A02	1.20.1050.10	Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 ›	0.59	42.0	3.85e-01	73.9%	60.7%
1fxkB00	1.10.287.370	Mainly Alpha › Orthogonal Bundle › Helix Hairpins ›	0.57	49.0	4.54e-01	93.2%	89.0%
3lnrA00	1.20.120.1530	Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) ›	0.53	47.0	3.80e-01	95.5%	59.4%

ECOD (16)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3258119	3826.1.1.0 ↗	alpha bundles › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR)	0.88	66.0	4.70e-01	77.3%	55.6%
3196934	5086.1.1.0 ↗	alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins	0.85	61.0	4.92e-01	73.9%	71.0%
3964578	5094.1.1.1 ↗	a+b duplicates or obligate multimers › OmpH-like › OmpH-like › OmpH-like › OmpH	0.76	56.0	4.67e-01	75.0%	47.1%
3177702	4177.1.1.0 ↗	alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like	0.71	51.0	3.74e-01	75.0%	40.4%
3184140	5086.1.1.87 ↗	alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › ING	0.71	62.0	5.65e-01	94.3%	83.5%
4178099	632.22.1.176 ↗	alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats › PF27734	0.68	62.0	5.05e-01	97.7%	62.6%
5056868	2004.1.1.87 ↗	a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SMC_N	0.68	61.0	3.96e-01	100.0%	28.5%
4980098	3834.1.1.0 ↗	alpha bundles › TcA alpha pore-forming domain › TcA alpha pore-forming domain › TcA alpha pore-forming domain	0.67	61.0	4.29e-01	100.0%	57.7%
4259224	3755.3.1.0 ↗	alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin	0.66	60.0	4.95e-01	100.0%	58.1%
3387205	3922.1.1.0 ↗	alpha bundles › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3	0.65	50.0	4.97e-01	80.7%	81.1%
3443143	3755.3.1.0 ↗	alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin	0.65	51.0	4.11e-01	98.9%	43.4%
3599499	3755.3.1.0 ↗	alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin	0.63	56.0	4.74e-01	98.9%	73.3%
3711734	3755.3.1.297 ↗	alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › KIF9	0.62	55.0	4.47e-01	97.7%	73.9%
3609435	3922.1.1.0 ↗	alpha bundles › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3 › Helical domain in structural maintenance of chromosomes protein 3	0.62	43.0	4.32e-01	72.7%	100.0%
3654776	605.1.1.0 ↗	alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase	0.61	48.0	4.00e-01	85.2%	49.7%
2324035	601.7.1.40 ↗	alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain › Cas13a_C	0.54	48.0	3.39e-01	98.9%	41.5%

D2 medium residues 89-138

PDB

Domain cluster: rep: hypothetical_protein__YP_009345069__Cacao_mild_mosaic_virus__1940252__D94-143

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF07028.17 best	DUF1319	32.2	1.40e-07	76.0%	34.9%