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1a_protein

Euk-Vir

Peanut_stunt_virus

1a_protein__NP_049331__Peanut_stunt_virus__12313

Identity

Accession:
NP_049331 ↗
Protein ID:
1a_protein
Kingdom:
euk

Quality

71.1 mean pLDDT

Taxonomy

Orthornavirae› Kitrinoviricota› Alsuviricetes› Martellivirales› Bromoviridae› Cucumovirus› Peanut_stunt_virus

TaxID: 12313

Cluster

View cluster (6 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 337-452_475-482
PDB
D2 high residues 597-704
PDB
D3 high residues 712-847
PDB
Domain cluster: rep: KX578043.1__AOT27930.1__X__00015__D87-267
Pfam (2)
AccessionNameScoreE-valueQ covHMM cov
PF13604.13 best AAA_30 28.9 1.30e-06 90.4% 57.6%
PF01443.25 Viral_helicase1 71.8 1.10e-19 89.0% 46.1%
D4 high residues 856-1001
PDB
Domain cluster: rep: TGB1_protein__NP_619560__Garlic_latent_virus__12458__D129-228
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF01443.25 best Viral_helicase1 44.8 1.90e-11 83.6% 36.8%
D5 medium residues 30-105
PDB
Domain cluster: rep: 1a_protein__YP_002640500__Gayfeather_mild_mottle_virus__578305__D32-94
D6 medium residues 106-211_286-330
PDB
Domain cluster: rep: methyltransferase_helicase__YP_009104367__Lilac_leaf_chlorosis_virus__722755__D97-204_268-298
Pfam (2)
AccessionNameScoreE-valueQ covHMM cov
PF01660.23 best Vmethyltransf 77.7 1.20e-21 72.9% 33.4%
PF19223.6 Chropara_Vmeth 23.5 4.10e-05 68.9% 24.5%
D7 medium residues 212-238_254-285
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF01660.23 best Vmethyltransf 29.3 6.70e-07 100.0% 16.1%
CATH (45)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2gu3A01 3.10.450.40 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.76 54.0 5.26e-01 78.0% 67.7%
3cm1A00 2.30.31.20 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › Sporulation-specific cell division protein SsgB 0.72 65.0 4.90e-01 100.0% 52.2%
1lr5B00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.69 47.0 3.40e-01 71.2% 72.3%
1xfdA01 2.140.10.30 Mainly Beta › 8 Propeller › Methanol Dehydrogenase; Chain A › Dipeptidylpeptidase IV, N-terminal domain 0.68 54.0 3.21e-01 88.1% 24.1%
2jhnA01 3.30.310.20 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › DNA-3-methyladenine glycosylase AlkA, N-terminal domain 0.66 44.0 3.60e-01 79.7% 36.3%
2c4iA01 2.40.128.30 Mainly Beta › Beta Barrel › Lipocalin › Avidin-like 0.65 51.0 4.08e-01 86.4% 61.9%
4uf7B00 2.120.10.10 Mainly Beta › 6 Propeller › Neuraminidase › 0.64 50.0 3.03e-01 86.4% 31.1%
1qh5A00 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.64 52.0 3.42e-01 91.5% 60.0%
5fgoA00 3.10.450.700 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.63 50.0 4.92e-01 86.4% 83.9%
2v8qA01 3.30.310.80 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Kinase associated domain 1, KA1 0.63 45.0 3.96e-01 76.3% 51.7%
2p18A00 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.63 50.0 3.30e-01 91.5% 57.2%
6eotD01 2.140.10.30 Mainly Beta › 8 Propeller › Methanol Dehydrogenase; Chain A › Dipeptidylpeptidase IV, N-terminal domain 0.63 52.0 3.07e-01 94.9% 96.4%
3bcyA00 3.40.1000.40 Alpha Beta › 3-Layer(aba) Sandwich › Protein Transport Mog1p; Chain A › Respiratory growth induced protein 1 0.63 44.0 3.39e-01 76.3% 34.9%
3kstA00 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.62 50.0 3.23e-01 89.8% 94.2%
1ugiD00 3.10.450.20 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › Bacteriophage PBS2, uracil-glycosylase inhibitor 0.62 49.0 4.42e-01 86.4% 89.0%
2lfuA02 2.40.160.90 Mainly Beta › Beta Barrel › Porin › 0.62 53.0 4.14e-01 96.6% 46.5%
3iq2A00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.62 43.0 3.46e-01 74.6% 43.1%
2kf2A00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.62 47.0 3.38e-01 81.4% 40.7%
5t1dB00 3.10.390.20 Alpha Beta › Roll › SAND domain › Viral glycoprotein L 0.61 44.0 3.79e-01 100.0% 46.5%
3d4eA02 3.30.1450.10 Alpha Beta › 2-Layer Sandwich › Beta-lactamase Inhibitory Protein; Chain:B, domain 1 › 0.61 44.0 4.03e-01 76.3% 60.3%
1gkaB00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.61 48.0 3.54e-01 89.8% 47.1%
8aa0E01 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.61 47.0 3.05e-01 86.4% 34.0%
3bxoA02 2.20.130.10 Mainly Beta › Single Sheet › S-adenosyl-L-methionine-dependent methyltransferases › CAC2371-like domains 0.61 44.0 4.47e-01 78.0% 86.4%
1tqzA01 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.60 47.0 3.75e-01 86.4% 58.5%
3zq4A01 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.60 49.0 3.15e-01 91.5% 55.5%
2az4A01 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.60 48.0 3.12e-01 89.8% 51.7%
2jqjA01 2.60.200.20 Mainly Beta › Sandwich › Tumour Suppressor Smad4 › 0.60 50.0 3.97e-01 98.3% 80.8%
4h0pA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.59 50.0 3.50e-01 96.6% 68.6%
2jobA00 3.30.160.320 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.58 48.0 4.16e-01 98.3% 59.8%
2vsmA00 2.120.10.10 Mainly Beta › 6 Propeller › Neuraminidase › 0.58 46.0 2.91e-01 98.3% 89.6%
2wweA01 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.56 38.0 3.30e-01 72.9% 41.3%
4dm5A00 3.30.1450.10 Alpha Beta › 2-Layer Sandwich › Beta-lactamase Inhibitory Protein; Chain:B, domain 1 › 0.56 43.0 3.82e-01 84.7% 57.5%
2fpnA01 3.30.2030.10 Alpha Beta › 2-Layer Sandwich › TBP-like › YwmB-like 0.56 46.0 3.54e-01 93.2% 54.3%
4ebrA00 3.30.1460.50 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › 0.55 44.0 3.42e-01 96.6% 86.0%
2ehbD00 3.30.310.80 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Kinase associated domain 1, KA1 0.55 46.0 3.56e-01 91.5% 59.5%
5oj2A04 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 43.0 3.59e-01 88.1% 98.0%
2i1yA00 3.90.190.10 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily 0.53 43.0 2.90e-01 100.0% 40.8%
1khiA01 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.52 43.0 4.05e-01 98.3% 93.3%
1uurA04 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.52 41.0 3.26e-01 89.8% 81.2%
3j7aF03 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.52 41.0 3.88e-01 86.4% 73.2%
2avtA02 3.70.10.10 Alpha Beta › Box › Proliferating Cell Nuclear Antigen › 0.52 43.0 3.03e-01 94.9% 53.3%
6cnhA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.51 37.0 3.45e-01 91.5% 60.0%
2w9jA00 3.30.720.10 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › Signal recognition particle alu RNA binding heterodimer, srp9/1 0.51 39.0 3.78e-01 100.0% 73.2%
6az1E03 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.51 39.0 3.74e-01 86.4% 72.2%
1qmoE01 2.60.40.4220 Mainly Beta › Sandwich › Immunoglobulin-like › 0.50 40.0 3.63e-01 89.8% 84.5%
ECOD (59)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3305683 5.1.3.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.75 60.0 3.64e-01 86.4% 23.7%
3273846 5.1.3.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.73 57.0 3.62e-01 86.4% 30.3%
3805876 5.1.3.67 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › FBA_1 0.71 57.0 3.53e-01 86.4% 94.6%
3422280 5.1.2.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 5-bladed 0.70 53.0 4.31e-01 83.1% 44.0%
3245973 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.70 56.0 3.30e-01 86.4% 16.9%
4363296 330.11.1.1 ↗ a+b two layers › dsRBD-like › Anti-lipopolysaccharide factor (ALF) › Anti-lipopolysaccharide factor (ALF) › Anti-LPS-SCYG 0.70 58.0 4.89e-01 93.2% 62.0%
3929256 295.1.1.3 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain › PurA 0.69 60.0 4.61e-01 100.0% 60.0%
3923721 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.69 56.0 3.46e-01 88.1% 22.1%
3364063 295.1.1.3 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain › PurA 0.69 61.0 4.65e-01 100.0% 51.4%
3373744 5.1.4.241 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › eIF2A 0.68 54.0 3.22e-01 86.4% 16.8%
4330896 5.1.4.325 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40, PF30552 0.68 54.0 3.29e-01 86.4% 24.3%
3455144 12.1.1.0 ↗ beta sandwiches › Glycosyl hydrolase domain-like › Glycosyl hydrolase domain › Glycosyl hydrolase domain 0.68 49.0 5.22e-01 76.3% 90.0%
4931666 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.68 55.0 4.42e-01 91.5% 50.0%
3350473 331.1.1.0 ↗ a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like 0.68 47.0 4.46e-01 72.9% 62.9%
5018519 5.1.4.64 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › YNCE 0.68 57.0 3.49e-01 93.2% 80.3%
3711463 5.1.4.14 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Peptidase_S9_N 0.68 53.0 3.23e-01 86.4% 17.9%
4027492 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.67 53.0 3.43e-01 86.4% 32.6%
4220972 5.1.3.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.67 52.0 3.22e-01 86.4% 26.4%
3489862 5.1.5.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed 0.67 53.0 2.94e-01 86.4% 12.8%
3742613 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.66 52.0 3.09e-01 86.4% 17.6%
3709212 7579.1.1.0 ↗ a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases 0.66 52.0 2.90e-01 86.4% 11.4%
3993869 5.1.3.19 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › Hira 0.65 55.0 3.85e-01 94.9% 49.2%
3486812 101.1.12.3 ↗ alpha arrays › HTH › HTH › HTH motif inserted in other structures › SAS-6_N 0.65 51.0 3.79e-01 86.4% 48.4%
3935989 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.65 50.0 3.10e-01 84.7% 24.1%
3900936 247.1.1.5 ↗ a+b four layers › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Lactamase_B,HAGH_C 0.65 53.0 3.42e-01 91.5% 55.5%
3433324 5.1.3.68 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › DUF1618 0.65 55.0 3.34e-01 94.9% 84.3%
3245395 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.65 50.0 3.13e-01 86.4% 40.9%
3544653 247.1.1.1 ↗ a+b four layers › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Lactamase_B 0.64 52.0 3.46e-01 91.5% 62.0%
3714146 883.1.1.0 ↗ a+b complex topology › Aha1/BPI domain-like › Aha1/BPI domain-like › Aha1/BPI domain-like 0.64 52.0 3.68e-01 89.8% 70.3%
3493109 5.1.4.275 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40, ANAPC4_WD40, Beta-prop_NOL10_N 0.64 57.0 3.44e-01 100.0% 88.0%
4262950 5.1.3.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.64 50.0 3.20e-01 86.4% 42.0%
4026073 227.1.1.1 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › PCNA_N 0.64 49.0 3.85e-01 83.1% 97.6%
3930399 4075.1.1.0 ↗ a+b complex topology › RGC domain › RGC domain › RGC domain 0.64 49.0 4.22e-01 86.4% 84.8%
3598184 247.1.1.0 ↗ a+b four layers › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase 0.64 51.0 3.17e-01 91.5% 54.3%
3352682 331.4.1.0 ↗ a+b two layers › TBP-like › Kinase associated domain 1, KA1 › Kinase associated domain 1, KA1 0.63 43.0 4.14e-01 72.9% 65.7%
3771672 378.1.1.0 ↗ few secondary structure elements › His-Me finger endonucleases › His-Me finger endonucleases › His-Me finger endonucleases 0.63 49.0 3.80e-01 86.4% 48.1%
3996007 5.1.5.4 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed › DPPIV_N 0.62 50.0 3.00e-01 91.5% 92.8%
4024560 208.1.1.20 ↗ beta duplicates or obligate multimers › Single-stranded left-handed beta-helix › Trimeric LpxA-like enzymes › Trimeric LpxA-like enzymes › Hexapep, GMPPB_C 0.61 44.0 3.15e-01 76.3% 48.0%
3894830 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.61 47.0 3.00e-01 86.4% 43.9%
4312461 330.11.1.1 ↗ a+b two layers › dsRBD-like › Anti-lipopolysaccharide factor (ALF) › Anti-lipopolysaccharide factor (ALF) › Anti-LPS-SCYG 0.60 51.0 4.42e-01 98.3% 62.2%
3266526 234.3.1.0 ↗ a+b two layers › Microbial ribonucleases-like › Colicin D nuclease domain › Colicin D nuclease domain 0.60 45.0 3.42e-01 83.1% 33.8%
4588686 5.1.3.48 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › Gmad1 0.60 47.0 3.06e-01 86.4% 24.7%
4241220 5.1.3.48 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › Gmad1 0.59 50.0 3.27e-01 94.9% 90.7%
3973947 3454.1.1.0 ↗ beta barrels › GspC HR domain/PilP-like › GspC HR domain/PilP-like › GspC HR domain/PilP-like 0.59 41.0 3.95e-01 78.0% 62.9%
5064859 2003.1.5.81 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_25 0.59 50.0 3.33e-01 96.6% 92.9%
3712208 2484.8.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Separase pseudo-protease domain (PPD) › Separase pseudo-protease domain (PPD) 0.58 41.0 2.65e-01 74.6% 31.6%
3185281 708.1.2.6 ↗ beta complex topology › ETN0001 domain-like › ETN0001 domain-like › Mss4-like › GFA 0.57 43.0 3.41e-01 93.2% 35.1%
4526933 5.1.2.8 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 5-bladed › Glyco_hydro_43 0.56 47.0 2.98e-01 96.6% 95.8%
3248749 216.1.1.0 ↗ a+b two layers › UBC-like › UBC-like › UBC-like 0.56 46.0 3.92e-01 98.3% 75.5%
5078784 2003.1.5.82 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_31 0.56 47.0 3.14e-01 100.0% 51.4%
3990293 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.54 36.0 3.75e-01 100.0% 76.4%
3626637 2007.2.3.1 ↗ a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › (Phosphotyrosine protein) phosphatases II › Y_phosphatase 0.54 44.0 2.87e-01 100.0% 39.4%
3797703 2007.2.3.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › (Phosphotyrosine protein) phosphatases II 0.54 43.0 2.85e-01 100.0% 40.0%
3666489 5.3.1.2 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-Prism II › beta-Prism II › B_lectin 0.53 41.0 3.34e-01 93.2% 64.5%
3642413 5.3.1.2 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-Prism II › beta-Prism II › B_lectin 0.53 42.0 3.42e-01 96.6% 66.7%
3923085 2007.2.3.1 ↗ a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › (Phosphotyrosine protein) phosphatases II › Y_phosphatase 0.53 42.0 2.83e-01 100.0% 37.7%
3605061 2004.1.1.250 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Kinesin,Microtub_bd 0.52 43.0 2.67e-01 96.6% 63.0%
3206632 896.1.1.2 ↗ a+b two layers › SRP9/14-like › Signal recognition particle alu RNA binding heterodimer SRP9/14-related › Signal recognition particle alu RNA binding heterodimer SRP9/14-related › SRP14 0.51 45.0 4.01e-01 100.0% 74.1%
4026274 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.51 40.0 3.22e-01 94.9% 79.3%