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replicase

Euk-Vir

Sweet_potato_vein_clearing_virus

replicase__YP_004300274__Sweet_potato_vein_clearing_virus__995049

Identity

Accession:
YP_004300274 ↗
Protein ID:
replicase
Kingdom:
euk

Quality

80.8 mean pLDDT

Taxonomy

Pararnavirae› Artverviricota› Revtraviricetes› Ortervirales› Caulimoviridae› Solendovirus› Sweet_potato_vein_clearing_virus

TaxID: 995049

Cluster

View cluster (17 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 2-124
PDB
Domain cluster: rep: NC_029048.2__YP_009221738.1__PHICD211_20135__00153__D2-127
Pfam (2)
AccessionNameScoreE-valueQ covHMM cov
PF02160.20 best Peptidase_A3 46.7 4.00e-12 92.7% 49.0%
PF00077.26 RVP 24.5 3.90e-05 82.1% 80.2%
D2 high residues 400-475
PDB
Domain cluster: rep: polyprotein,_partial__YP_010085997__Schefflera_ringspot_virus__2169729__D61-133
D3 high residues 484-614
PDB
Domain cluster: rep: polyprotein__YP_002916057__Sweet_potato_badnavirus_B__647294__D493-623
Pfam (2)
AccessionNameScoreE-valueQ covHMM cov
PF17917.8 best RT_RNaseH 68.4 7.40e-19 85.5% 90.5%
PF17919.8 RT_RNaseH_2 56.4 3.70e-15 58.8% 70.0%
D4 medium residues 158-170_263-276_322-388
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00078.33 best RVT_1 43.8 4.00e-11 80.8% 32.5%
CATH (11)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4ol8A01 3.30.70.270 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain 0.89 85.0 7.36e-01 100.0% 90.4%
4hkqA01 3.30.70.270 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain 0.87 81.0 6.86e-01 98.9% 89.6%
2gb3A01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.64 44.0 3.69e-01 71.3% 94.2%
3q23A02 3.30.70.2440 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.61 42.0 3.61e-01 70.2% 75.8%
3h5xA03 3.30.70.270 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain 0.60 47.0 4.48e-01 86.2% 100.0%
3nftA00 1.20.1710.10 Mainly Alpha › Up-down Bundle › IpaD-like › IpaD-like 0.55 43.0 3.21e-01 86.2% 75.6%
1mg7A01 3.30.70.1000 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Switch protein XOL-1, GHMP-like 0.55 48.0 3.96e-01 98.9% 88.6%
3ungC03 3.30.70.270 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Reverse transcriptase/Diguanylate cyclase domain 0.55 46.0 4.12e-01 91.5% 64.7%
3oksA01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.53 42.0 3.44e-01 85.1% 52.8%
3nx3A01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.53 42.0 3.66e-01 85.1% 58.9%
4by6D02 1.25.40.800 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › 0.52 44.0 3.36e-01 93.6% 69.3%
ECOD (61)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3643305 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.96 75.0 6.42e-01 79.8% 90.4%
3939861 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.95 77.0 6.95e-01 84.0% 90.8%
3785231 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.93 89.0 5.99e-01 100.0% 77.0%
3935796 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.93 77.0 6.13e-01 86.2% 74.1%
3923429 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.93 78.0 5.90e-01 87.2% 89.7%
3427907 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.92 88.0 6.13e-01 100.0% 88.1%
3510717 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.92 88.0 6.12e-01 100.0% 87.7%
3737895 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.92 87.0 6.16e-01 100.0% 92.4%
3933538 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.92 87.0 6.10e-01 100.0% 92.2%
3925235 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.91 87.0 6.27e-01 100.0% 90.0%
3934730 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.91 86.0 6.13e-01 100.0% 93.1%
4618808 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.91 86.0 5.97e-01 100.0% 86.7%
3781210 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.91 86.0 6.06e-01 100.0% 91.4%
3937211 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.91 85.0 5.93e-01 100.0% 87.4%
3257066 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.91 78.0 5.54e-01 89.4% 71.2%
3937440 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.90 85.0 5.96e-01 100.0% 89.8%
3930235 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.90 85.0 5.95e-01 100.0% 86.4%
3260113 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.90 68.0 6.45e-01 78.7% 95.5%
3252343 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.90 85.0 5.97e-01 100.0% 88.1%
3927691 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.90 85.0 6.01e-01 100.0% 92.0%
3216767 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.90 85.0 5.83e-01 100.0% 81.1%
3934891 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.90 77.0 5.49e-01 89.4% 71.7%
3934131 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.90 85.0 6.03e-01 100.0% 94.7%
3927736 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.90 85.0 6.08e-01 100.0% 87.9%
3939219 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.89 84.0 5.87e-01 100.0% 87.5%
3940445 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.89 84.0 5.94e-01 100.0% 90.2%
4096485 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.89 85.0 5.92e-01 100.0% 89.2%
3934202 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.89 70.0 5.90e-01 81.9% 90.3%
3925602 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.89 83.0 5.85e-01 100.0% 90.0%
3929906 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.89 83.0 5.94e-01 100.0% 93.5%
1893002 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.88 83.0 5.87e-01 100.0% 94.1%
2765413 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.88 82.0 5.74e-01 100.0% 82.8%
3927365 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.88 72.0 5.17e-01 86.2% 51.8%
3926670 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.88 83.0 5.91e-01 100.0% 94.7%
3678489 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.88 83.0 6.30e-01 100.0% 88.5%
3295157 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.88 83.0 5.71e-01 100.0% 94.3%
3926633 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.88 75.0 5.81e-01 89.4% 90.8%
3931851 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.88 82.0 5.75e-01 100.0% 90.6%
3939017 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.87 81.0 5.77e-01 100.0% 91.4%
3708806 304.48.1.0 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like 0.86 71.0 5.26e-01 87.2% 92.4%
3938608 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.86 80.0 5.58e-01 100.0% 92.0%
4434853 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.85 69.0 5.00e-01 86.2% 64.2%
3932482 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.84 78.0 5.58e-01 98.9% 93.1%
5078830 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.84 65.0 4.61e-01 81.9% 64.5%
3926952 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.83 78.0 5.55e-01 100.0% 86.0%
3926536 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.83 76.0 5.43e-01 100.0% 88.1%
4246496 304.48.1.0 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like 0.82 78.0 5.69e-01 100.0% 93.3%
3529282 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.82 78.0 5.70e-01 100.0% 90.9%
3306150 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.82 79.0 6.15e-01 100.0% 93.1%
3983816 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.80 65.0 4.70e-01 86.2% 72.0%
3504869 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.80 77.0 5.67e-01 100.0% 84.3%
3507895 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.79 74.0 5.57e-01 100.0% 97.6%
1186663 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.72 59.0 4.38e-01 89.4% 93.8%
4001843 304.4.1.51 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › RVT_1 0.68 56.0 5.02e-01 88.3% 83.8%
3262829 304.36.1.2 ↗ a+b two layers › Alpha-beta plaits › YajQ-like › YajQ-like › RVT_1 0.66 55.0 5.29e-01 88.3% 95.2%
3272304 304.36.1.2 ↗ a+b two layers › Alpha-beta plaits › YajQ-like › YajQ-like › RVT_1 0.65 53.0 4.59e-01 88.3% 66.2%
3519367 304.48.1.0 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like 0.64 53.0 4.47e-01 87.2% 74.7%
3276262 304.36.1.2 ↗ a+b two layers › Alpha-beta plaits › YajQ-like › YajQ-like › RVT_1 0.64 52.0 5.09e-01 88.3% 98.1%
4927029 327.11.1.5 ↗ a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Prokaryotic type KH domain (KH-domain type II) › KH_7 0.59 40.0 4.50e-01 71.3% 98.6%
3187789 2002.1.1.111 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › HpcH_HpaI 0.53 42.0 2.94e-01 86.2% 58.5%
4979429 4955.1.1.0 ↗ a+b two layers › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit › permuted ferredoxin-like domain in yeast RNA-polymerase beta-prime subunit 0.52 38.0 3.97e-01 77.7% 92.9%
D5 medium residues 171-262_277-321
PDB
Domain cluster: rep: pol_protein,_partial__YP_002308474__Simian_T-cell_lymphotropic_virus_6__481147__D16-81_108-143