←Back to structures

glycoprotein

Euk-Vir

Sonchus_yellow_net_nucleorhabdovirus

glycoprotein__NP_042285__Sonchus_yellow_net_nucleorhabdovirus__11307

Identity

Accession:: NP_042285 ↗
Protein ID:: glycoprotein
Kingdom:: euk

Quality

69.1 mean pLDDT

Taxonomy

Orthornavirae› Negarnaviricota› Monjiviricetes› Mononegavirales› Rhabdoviridae› Betanucleorhabdovirus› Sonchus_yellow_net_nucleorhabdovirus

TaxID: 11307

Cluster

View cluster (3 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 105-231

PDB

Domain cluster: rep: putative_glycoprotein__YP_002905332__Nyavirus_midwayense__644609__D72-196

CATH (4)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
2bw2A01	3.10.20.420	Alpha Beta › Roll › Ubiquitin-like (UB roll) › Bypass-of-forespore C, N-terminal domain	0.61	24.0	3.62e-01	100.0%	85.5%
1vwxS01	3.10.20.10	Alpha Beta › Roll › Ubiquitin-like (UB roll) ›	0.55	26.0	3.36e-01	100.0%	77.5%
4a18X01	3.10.20.10	Alpha Beta › Roll › Ubiquitin-like (UB roll) ›	0.55	26.0	3.22e-01	100.0%	70.9%
2qsdA01	3.10.20.10	Alpha Beta › Roll › Ubiquitin-like (UB roll) ›	0.55	24.0	3.19e-01	100.0%	76.1%

ECOD (11)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
1503409	220.3.1.1 ↗	beta barrels › PH domain-like › first barrel domain in viral glycoproteins › first barrel domain in viral glycoproteins › Rhabdo_glycop	0.76	66.0	6.59e-01	100.0%	90.2%
2530507	220.3.1.3 ↗	beta barrels › PH domain-like › first barrel domain in viral glycoproteins › first barrel domain in viral glycoproteins › Glycoprot_B_PH1	0.61	56.0	4.62e-01	99.2%	87.9%
185186	220.3.1.2 ↗	beta barrels › PH domain-like › first barrel domain in viral glycoproteins › first barrel domain in viral glycoproteins › Baculo_gp64	0.60	54.0	5.07e-01	100.0%	96.8%
2124201	220.3.1.2 ↗	beta barrels › PH domain-like › first barrel domain in viral glycoproteins › first barrel domain in viral glycoproteins › Baculo_gp64	0.60	53.0	5.01e-01	100.0%	96.8%
2124211	220.3.1.2 ↗	beta barrels › PH domain-like › first barrel domain in viral glycoproteins › first barrel domain in viral glycoproteins › Baculo_gp64	0.58	52.0	4.87e-01	100.0%	96.2%
2464208	220.3.1.2 ↗	beta barrels › PH domain-like › first barrel domain in viral glycoproteins › first barrel domain in viral glycoproteins › Baculo_gp64	0.57	50.0	4.71e-01	100.0%	95.6%
4648475	3115.1.1.0 ↗	a+b two layers › GP2-like › RplX-like › RplX-like	0.56	26.0	3.49e-01	100.0%	88.3%
4967222	3115.1.1.1 ↗	a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A	0.54	21.0	2.99e-01	96.1%	73.3%
3170138	11.1.1.41 ↗	beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Arrestin_C	0.54	36.0	3.14e-01	70.1%	46.3%
3728819	11.1.1.0 ↗	beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like	0.51	35.0	3.03e-01	70.9%	54.4%
3892842	3115.1.1.0 ↗	a+b two layers › GP2-like › RplX-like › RplX-like	0.50	23.0	3.00e-01	100.0%	78.5%

D2 high residues 244-300

PDB

Domain cluster: representative

CATH (10)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
4d6wA03	2.30.29.130	Mainly Beta › Roll › PH-domain like ›	0.64	54.0	4.68e-01	100.0%	71.6%
3c12A01	2.30.30.910	Mainly Beta › Roll › SH3 type barrels. ›	0.62	42.0	4.36e-01	78.9%	78.4%
1txdA02	2.30.29.30	Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB)	0.57	45.0	3.75e-01	98.2%	58.7%
3d89A00	2.102.10.10	Mainly Beta › 3-layer Sandwich › Rieske Iron-sulfur Protein › Rieske [2Fe-2S] iron-sulphur domain	0.56	41.0	3.25e-01	82.5%	56.6%
2lqkA00	2.40.10.170	Mainly Beta › Beta Barrel › Thrombin, subunit H ›	0.56	41.0	3.90e-01	80.7%	75.7%
2nutA02	2.30.30.380	Mainly Beta › Roll › SH3 type barrels. › Zn-finger domain of Sec23/24	0.56	39.0	3.89e-01	80.7%	70.5%
2jneA00	2.10.290.10	Mainly Beta › Ribbon › Rubredoxin-like › YfgJ-like	0.54	35.0	3.28e-01	93.0%	52.1%
3zx7A02	2.80.10.50	Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) ›	0.54	40.0	3.14e-01	82.5%	86.1%
2l3rA02	2.30.30.30	Mainly Beta › Roll › SH3 type barrels. ›	0.53	38.0	3.58e-01	78.9%	80.8%
1p6vA00	2.40.280.10	Mainly Beta › Beta Barrel › Small Protein B; Chain: A; › Small protein B	0.51	38.0	3.14e-01	87.7%	90.4%

ECOD (9)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3627795	220.1.1.0 ↗	beta barrels › PH domain-like › PH domain-like › PH domain-like	0.62	50.0	4.57e-01	98.2%	75.3%
3296731	386.1.1.4 ↗	few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-BED	0.57	38.0	4.10e-01	84.2%	88.9%
4153913	375.1.1.0 ↗	few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related	0.56	41.0	3.62e-01	78.9%	85.9%
3620992	386.1.1.4 ↗	few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-BED	0.55	38.0	3.96e-01	84.2%	82.0%
3437709	386.1.1.0 ↗	few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers	0.53	36.0	3.78e-01	84.2%	84.0%
4654223	2.1.1.7 ↗	beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › S1	0.53	36.0	3.30e-01	73.7%	96.5%
4978946	2.1.1.0 ↗	beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein	0.51	43.0	4.29e-01	96.5%	96.7%
5040518	4.1.1.0 ↗	beta barrels › SH3 › SH3 › SH3	0.51	34.0	3.55e-01	70.2%	92.0%
4437811	2003.1.2.0 ↗	a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain	0.50	39.0	3.00e-01	89.5%	72.7%

D3 high residues 390-473

PDB

Domain cluster: representative

CATH (11)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3tu3B01	3.30.720.80	Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 ›	0.65	31.0	3.27e-01	71.4%	50.0%
2pm9A02	2.20.25.400	Mainly Beta › Single Sheet › N-terminal domain of TfIIb ›	0.62	26.0	3.47e-01	82.1%	93.3%
3fqmA01	2.20.25.210	Mainly Beta › Single Sheet › N-terminal domain of TfIIb › Hepatitis C NS5A, domain 1B	0.60	28.0	3.28e-01	100.0%	59.0%
2jrbA00	3.30.250.20	Alpha Beta › 2-Layer Sandwich › Rec A Protein; domain 2 › L1 transposable element, C-terminal domain	0.57	30.0	3.33e-01	96.4%	63.1%
1ybyA02	2.40.50.140	Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins	0.56	26.0	2.93e-01	86.9%	51.6%
3ow8C00	2.130.10.10	Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase	0.54	46.0	3.27e-01	100.0%	95.7%
6m90A02	2.130.10.10	Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase	0.54	47.0	3.27e-01	100.0%	88.8%
3odtA00	2.130.10.10	Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase	0.54	40.0	2.82e-01	81.0%	68.2%
2m7oA00	3.10.450.400	Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › Uncharacterised protein PF15513, DUF4651	0.52	34.0	3.69e-01	96.4%	80.0%
5wbyC01	2.130.10.10	Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase	0.51	43.0	3.06e-01	100.0%	81.2%
3qr8A02	6.20.150.10	Special › Other non-globular › Chondroitinase Ac; Chain A, domain 3 ›	0.51	25.0	2.66e-01	83.3%	47.9%

ECOD (6)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
3524770	358.1.1.3 ↗	a+b complex topology › SRCR-like › SRCR-like › SRCR-like › SRCR_2	0.58	33.0	3.23e-01	100.0%	49.5%
None	—		0.56	47.0	3.35e-01	100.0%	82.4%
3409245	223.2.1.36 ↗	a+b three layers › Profilin-like › profilin-like › profilin-like › Intu_longin_3	0.52	30.0	2.82e-01	100.0%	48.0%
3612587	4357.1.1.0 ↗	beta barrels › WWE domain › WWE domain › WWE domain	0.51	32.0	3.62e-01	100.0%	88.3%
3507975	145.1.1.0 ↗	alpha arrays › F-box domain › F-box domain › F-box domain	0.51	38.0	2.69e-01	82.1%	68.7%
3607772	376.1.4.0 ↗	few secondary structure elements › RING/U-box-like › RING/U-box-like › Ariadne-1 protein homolog	0.51	34.0	3.55e-01	97.6%	75.0%

D4 medium residues 52-89_303-389

PDB

Domain cluster: rep: G__YP_224082__Taro_vein_chlorosis_virus__2908018__D43-73_311-367

CATH (13)

Domain ID	Class ID	Classification	TM-score	Bits	E-value	Q cov	T cov
4v1gA00	1.20.20.10	Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C	0.64	39.0	4.59e-01	74.4%	89.4%
3ok8A00	1.20.1270.60	Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain	0.59	41.0	3.43e-01	72.0%	80.4%
3prbA02	2.40.10.330	Mainly Beta › Beta Barrel › Thrombin, subunit H ›	0.59	23.0	3.66e-01	79.2%	100.0%
2o3gA00	3.30.465.10	Alpha Beta › 2-Layer Sandwich › Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3 ›	0.55	34.0	4.12e-01	84.8%	100.0%
2vs0A00	1.10.287.1060	Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like	0.54	34.0	4.05e-01	79.2%	95.1%
2w5eA01	2.40.10.10	Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases	0.54	22.0	2.91e-01	80.8%	67.7%
1cf7B00	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	0.53	31.0	3.71e-01	90.4%	86.6%
2pliA00	3.30.465.10	Alpha Beta › 2-Layer Sandwich › Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3 ›	0.53	33.0	3.88e-01	84.0%	91.7%
2oaiA00	3.30.465.10	Alpha Beta › 2-Layer Sandwich › Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3 ›	0.52	31.0	3.72e-01	84.0%	91.3%
3o6qA02	3.30.70.2720	Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits ›	0.51	34.0	3.62e-01	88.8%	74.6%
2p4pA00	3.30.465.10	Alpha Beta › 2-Layer Sandwich › Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3 ›	0.51	33.0	3.91e-01	92.0%	98.8%
3laeA00	3.30.465.10	Alpha Beta › 2-Layer Sandwich › Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3 ›	0.50	31.0	3.73e-01	84.0%	95.1%
2p13A00	3.30.465.10	Alpha Beta › 2-Layer Sandwich › Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3 ›	0.50	31.0	3.67e-01	83.2%	91.8%

ECOD (10)

UID	F-ID	Classification	TM-score	Bits	E-value	Q cov	T cov
4973584	604.3.1.51 ↗	alpha bundles › Spectrin repeat-like › BAG domain › BAG domain › 8xMP	0.60	32.0	3.77e-01	76.0%	72.7%
None	—		0.60	38.0	3.04e-01	79.2%	31.0%
3838661	223.1.1.0 ↗	a+b three layers › Profilin-like › sensor domains › sensor domains	0.53	32.0	3.75e-01	86.4%	84.4%
4013459	2004.1.1.0 ↗	a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases	0.53	45.0	3.16e-01	92.8%	80.2%
4980098	3834.1.1.0 ↗	alpha bundles › TcA alpha pore-forming domain › TcA alpha pore-forming domain › TcA alpha pore-forming domain	0.52	40.0	3.09e-01	79.2%	95.5%
4961832	217.2.1.1 ↗	a+b complex topology › FAD-binding domain-like › CorC/HlyC domain-like › CorC/HlyC domain-like › CorC_HlyC	0.52	30.0	3.60e-01	80.8%	87.5%
3965482	217.2.1.1 ↗	a+b complex topology › FAD-binding domain-like › CorC/HlyC domain-like › CorC/HlyC domain-like › CorC_HlyC	0.52	32.0	3.89e-01	86.4%	97.5%
3894879	604.1.1.1 ↗	alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › Spectrin	0.52	32.0	3.49e-01	81.6%	73.3%
3927616	223.1.1.0 ↗	a+b three layers › Profilin-like › sensor domains › sensor domains	0.52	35.0	3.95e-01	88.8%	92.6%
4496745	217.2.1.1 ↗	a+b complex topology › FAD-binding domain-like › CorC/HlyC domain-like › CorC/HlyC domain-like › CorC_HlyC	0.51	32.0	3.65e-01	83.2%	86.7%