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hypothetical_protein_LIYVs2gp2

Euk-Vir

Lettuce_infectious_yellows_virus

hypothetical_protein_LIYVs2gp2__NP_619696__Lettuce_infectious_yellows_virus__31713

Identity

Accession:: NP_619696 ↗
Protein ID:: hypothetical_protein_LIYVs2gp2
Kingdom:: euk

Quality

78.2 mean pLDDT

Taxonomy

Orthornavirae› Kitrinoviricota› Alsuviricetes› Martellivirales› Closteroviridae› Crinivirus› Lettuce_infectious_yellows_virus

TaxID: 31713

Cluster

View cluster (11 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 5-117

PDB

Domain cluster: rep: p60_gene_product__YP_004901690__Grapevine_leafroll-associated_virus_5__71032__D10-123

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF03225.20 best	Viral_Hsp90	100.7	1.00e-28	100.0%	21.7%

CATH (4)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
1vyiA00	1.20.120.820	Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Phosphoprotein, C-terminal domain	0.53	39.0	3.97e-01	90.3%	78.4%
1tozA02	2.10.25.10	Mainly Beta › Ribbon › Laminin › Laminin	0.52	24.0	2.88e-01	77.0%	61.6%
3f8xB00	3.10.450.50	Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, ›	0.51	37.0	3.51e-01	100.0%	64.4%
1qgiA01	3.30.386.10	Alpha Beta › 2-Layer Sandwich › Chitosanase; Chain A, domain 2 › Chitosanase, subunit A, domain 2	0.50	36.0	3.31e-01	74.3%	63.3%

ECOD (8)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
5002490	2004.1.1.308 ↗	a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_21	0.56	43.0	2.98e-01	82.3%	28.5%
3621465	219.1.1.15 ↗	a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › OTU	0.52	47.0	4.02e-01	100.0%	70.3%
5053869	5061.1.1.1 ↗	alpha complex topology › Preprotein translocase SecY subunit › Preprotein translocase SecY subunit › Preprotein translocase SecY subunit › SecY	0.51	36.0	2.42e-01	72.6%	95.1%
5001279	2004.1.1.308 ↗	a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_21	0.51	39.0	2.84e-01	83.2%	35.7%
4189478	2004.1.1.159 ↗	a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Mur_ligase_M	0.51	44.0	3.47e-01	95.6%	90.2%
4776306	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	0.51	38.0	3.30e-01	78.8%	65.4%
4549024	3016.1.1.0 ↗	a+b two layers › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases › C-terminal domain in some PLP-dependent transferases	0.50	36.0	3.64e-01	75.2%	86.8%
4184822	2002.1.1.69 ↗	a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › MM_CoA_mutase	0.50	41.0	2.59e-01	90.3%	76.9%

D2 high residues 127-174

PDB

Domain cluster: rep: p59__NP_940790__Beet_pseudoyellows_virus__72750__D130-177

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF03225.20 best	Viral_Hsp90	59.3	3.90e-16	100.0%	10.0%

D3 high residues 200-315

PDB

Domain cluster: rep: heat_shock_protein_90-like_protein__YP_008411014__Blackberry_vein_banding-associated_virus__1381464__D184-297

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF03225.20 best	Viral_Hsp90	113.4	1.50e-32	100.0%	22.1%

CATH (12)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
1ad6A00	1.10.472.10	Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like	0.63	53.0	4.56e-01	92.2%	76.8%
1pduA00	1.10.565.10	Mainly Alpha › Orthogonal Bundle › Retinoid X Receptor › Retinoid X Receptor	0.62	44.0	3.54e-01	73.3%	56.1%
1x42A02	1.10.150.240	Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2	0.61	42.0	4.75e-01	75.9%	97.6%
5kbwB00	1.10.1760.20	Mainly Alpha › Orthogonal Bundle › Arp2/3 complex 21 kDa subunit ARPC3 ›	0.61	47.0	4.12e-01	81.9%	90.6%
3lsgA01	1.10.10.60	Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like	0.59	27.0	3.60e-01	81.9%	85.5%
7e84A03	1.10.287.70	Mainly Alpha › Orthogonal Bundle › Helix Hairpins ›	0.57	34.0	3.40e-01	81.0%	54.5%
4hjzA00	1.10.530.10	Mainly Alpha › Orthogonal Bundle › Lysozyme ›	0.55	43.0	3.68e-01	81.9%	85.8%
2lseA00	1.20.120.1360	Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) ›	0.54	34.0	3.61e-01	70.7%	72.3%
2kn6A02	1.10.533.10	Mainly Alpha › Orthogonal Bundle › Death Domain, Fas › Death Domain, Fas	0.51	30.0	3.38e-01	78.4%	78.0%
4dwlA00	1.20.1440.60	Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 23S rRNA-intervening sequence	0.51	36.0	3.77e-01	74.1%	91.7%
1l7vA00	1.10.3470.10	Mainly Alpha › Orthogonal Bundle › ABC transporter involved in vitamin B12 uptake, BtuC › ABC transporter involved in vitamin B12 uptake, BtuC	0.51	37.0	2.74e-01	76.7%	91.3%
4mudC00	1.20.1260.10	Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle	0.50	44.0	3.66e-01	100.0%	90.9%

ECOD (15)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3988392	604.39.1.2 ↗	alpha bundles › Spectrin repeat-like › S-component of energy-coupling factor (ECF) transporters › S-component of energy-coupling factor (ECF) transporters › BioY	0.63	50.0	4.36e-01	83.6%	89.1%
3278088	142.1.1.3 ↗	alpha complex topology › Sigma2 domain-like › Sigma2 domain of RNA polymerase sigma factors › Sigma2 domain of RNA polymerase sigma factors › Sigma70_r2	0.62	42.0	4.31e-01	71.6%	71.8%
3715668	101.1.10.0 ↗	alpha arrays › HTH › HTH › Cyclin-like	0.61	47.0	4.29e-01	82.8%	85.6%
3716219	148.1.3.0 ↗	alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain	0.57	47.0	4.66e-01	88.8%	95.0%
4983872	1075.1.1.1 ↗	alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › ABCG5/ABCG8 transmembrane domain › ABC2_membrane	0.56	39.0	3.16e-01	70.7%	84.8%
4032834	604.5.1.69 ↗	alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) › PF28025	0.56	39.0	3.50e-01	70.7%	72.7%
3991543	5001.1.1.0 ↗	alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like	0.55	40.0	2.90e-01	75.0%	47.5%
4093182	1197.1.1.1 ↗	alpha bundles › Integral membrane glycerol 3-phosphate acyltransferase PlsY › Integral membrane glycerol 3-phosphate acyltransferase PlsY › Integral membrane glycerol 3-phosphate acyltransferase PlsY › G3P_acyltransf	0.54	42.0	3.56e-01	84.5%	68.8%
3219719	188.1.1.1 ↗	alpha arrays › Nuclear receptor ligand-binding domain › Nuclear receptor ligand-binding domain › Nuclear receptor ligand-binding domain › Hormone_recep	0.53	47.0	3.67e-01	97.4%	88.4%
None	—		0.53	40.0	3.41e-01	79.3%	80.0%
5030376	1075.1.2.1 ↗	alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › MacB transmembrane domain › FtsX	0.53	40.0	3.31e-01	80.2%	82.8%
3388407	1075.1.2.1 ↗	alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › MacB transmembrane domain › FtsX	0.53	38.0	2.81e-01	75.0%	85.5%
5078788	604.12.1.0 ↗	alpha bundles › Spectrin repeat-like › MIT domain › MIT domain	0.52	31.0	3.50e-01	93.1%	77.8%
3231357	188.1.1.0 ↗	alpha arrays › Nuclear receptor ligand-binding domain › Nuclear receptor ligand-binding domain › Nuclear receptor ligand-binding domain	0.51	46.0	3.70e-01	100.0%	84.7%
3219291	188.1.1.0 ↗	alpha arrays › Nuclear receptor ligand-binding domain › Nuclear receptor ligand-binding domain › Nuclear receptor ligand-binding domain	0.51	44.0	3.53e-01	96.6%	82.8%

D4 high residues 332-477

PDB

Domain cluster: rep: Hsp90__YP_010086803__Pistachio_ampelovirus_A__2093224__D326-483

Pfam (1)

Accession	Name	Score	E-value	Q cov	HMM cov
PF03225.20 best	Viral_Hsp90	160.1	1.00e-46	100.0%	28.1%

CATH (7)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
1d8cA03	1.20.1220.12	Mainly Alpha › Up-down Bundle › Malate Synthase G; Chain: A; Domain 4 › Malate synthase, domain III	0.56	37.0	3.85e-01	89.0%	71.1%
2jwkA00	3.30.420.270	Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 ›	0.54	25.0	3.39e-01	86.3%	85.1%
2v1nA01	1.10.10.2030	Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › DNA/RNA-binding protein Kin17, conserved domain	0.51	29.0	3.41e-01	90.4%	78.2%
3eujB00	1.10.225.40	Mainly Alpha › Orthogonal Bundle › NK-Lysin › MukF, C-terminal domain	0.51	30.0	3.68e-01	87.7%	93.3%
1vq0A02	3.90.1280.10	Alpha Beta › Alpha-Beta Complex › CBS domain Like › HSP33 redox switch-like	0.51	23.0	3.22e-01	76.7%	100.0%
7x4eA01	1.10.1220.160	Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant › DNA sulphur modification protein DndE	0.50	31.0	3.50e-01	96.6%	81.3%
3mpiA01	1.10.540.10	Mainly Alpha › Orthogonal Bundle › Butyryl-Coa Dehydrogenase, subunit A; domain 1 › Acyl-CoA dehydrogenase/oxidase, N-terminal domain	0.50	31.0	3.33e-01	91.1%	71.9%

ECOD (6)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
2123187	3143.1.1.2 ↗	alpha complex topology › Rift Valley fever virus nucleocapsid protein-related › Rift Valley fever virus nucleocapsid protein-related › Papaya mosaic virus capsid protein › Poty_coat	0.72	62.0	5.72e-01	98.6%	72.6%
4588825	589.1.1.20 ↗	alpha arrays › Triger factor/SurA peptide-binding domain-like › Triger factor/SurA peptide-binding domain-like › Porin chaperone SurA, peptide-binding domain › TraD_N	0.56	30.0	3.19e-01	76.7%	56.9%
3512585	5010.1.1.5 ↗	extended segments › Bacterial aa3 type cytochrome c oxidase subunit IV › Bacterial aa3 type cytochrome c oxidase subunit IV › Bacterial aa3 type cytochrome c oxidase subunit IV › TraD_N	0.56	30.0	3.33e-01	76.7%	64.3%
3942067	4120.1.1.44 ↗	few secondary structure elements › Tim10/DDP › Tim10/DDP › Tim10/DDP › TraD_N	0.55	30.0	3.38e-01	76.7%	67.3%
4408503	192.2.1.43 ↗	alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › TraD_N	0.55	30.0	3.12e-01	76.7%	54.8%
4989836	601.7.1.3 ↗	alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain › PaREP1	0.51	29.0	2.86e-01	94.5%	50.3%