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RdRp
Euk-VirNorovirus_GII
RdRp__YP_009701453__Norovirus_GII__122929
Identity
- Accession:
- YP_009701453 ↗
- Protein ID:
- RdRp
- Kingdom:
- euk
Quality
92.6
mean pLDDT
Taxonomy
Orthornavirae›
Pisuviricota›
Pisoniviricetes›
Picornavirales›
Caliciviridae›
Norovirus›
Norovirus_GII
TaxID: 122929
Cluster
View cluster (450 members)3D Structure
Domains
high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.
D1
high
residues 406-499
Domain cluster:
rep: putative_3D_RNA-dependent_RNA_polymerase__YP_009553719__tremovirus_B1__2058161__D405-481
CATH (28)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1khvA05 | 1.20.960.20 | Mainly Alpha › Up-down Bundle › Mitochondrial Import Receptor Subunit Tom20; Chain A › | 0.89 | 76.0 | 7.58e-01 | 89.4% | 86.6% |
| 2ckwA04 | 1.20.960.20 | Mainly Alpha › Up-down Bundle › Mitochondrial Import Receptor Subunit Tom20; Chain A › | 0.86 | 73.0 | 6.93e-01 | 89.4% | 79.4% |
| 3h5xA04 | 1.20.960.20 | Mainly Alpha › Up-down Bundle › Mitochondrial Import Receptor Subunit Tom20; Chain A › | 0.84 | 66.0 | 6.59e-01 | 88.3% | 81.1% |
| 1ra6A03 | 1.20.960.20 | Mainly Alpha › Up-down Bundle › Mitochondrial Import Receptor Subunit Tom20; Chain A › | 0.82 | 58.0 | 6.08e-01 | 89.4% | 79.3% |
| 3nkyA03 | 1.20.960.20 | Mainly Alpha › Up-down Bundle › Mitochondrial Import Receptor Subunit Tom20; Chain A › | 0.81 | 53.0 | 5.99e-01 | 88.3% | 86.3% |
| 1x0tA01 | 1.20.5.420 | Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C | 0.70 | 38.0 | 4.54e-01 | 71.3% | 80.3% |
| 3onjA00 | 1.20.58.400 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › t-snare proteins | 0.68 | 47.0 | 4.66e-01 | 71.3% | 94.8% |
| 4jgwA01 | 1.20.870.10 | Mainly Alpha › Up-down Bundle › Son of sevenless (SoS) protein; Chain S, domain 1 › Son of sevenless (SoS) protein Chain: S domain 1 | 0.65 | 48.0 | 4.01e-01 | 77.7% | 84.0% |
| 2ib0A01 | 1.20.1260.10 | Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle | 0.60 | 41.0 | 3.66e-01 | 70.2% | 88.9% |
| 4ip8A00 | 1.10.132.110 | Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Serum amyloid A protein | 0.60 | 49.0 | 4.78e-01 | 97.9% | 80.0% |
| 3s63A00 | 1.10.225.10 | Mainly Alpha › Orthogonal Bundle › NK-Lysin › Saposin-like | 0.59 | 41.0 | 4.20e-01 | 70.2% | 88.6% |
| 4q5qA02 | 1.20.1050.10 | Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › | 0.59 | 43.0 | 4.18e-01 | 77.7% | 81.9% |
| 1iyhB02 | 1.20.1050.10 | Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › | 0.59 | 43.0 | 4.12e-01 | 77.7% | 84.3% |
| 2rn7A01 | 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 | 0.57 | 33.0 | 3.78e-01 | 71.3% | 80.3% |
| 1sqgA01 | 1.10.940.10 | Mainly Alpha › Orthogonal Bundle › N-utilizing Substance Protein B Homolog; Chain A › NusB-like | 0.56 | 44.0 | 3.94e-01 | 86.2% | 90.1% |
| 1b4pA02 | 1.20.1050.10 | Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › | 0.56 | 42.0 | 4.12e-01 | 80.9% | 84.8% |
| 2a2fX02 | 1.20.58.670 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Dsl1p vesicle tethering complex, Tip20p subunit, domain D | 0.55 | 47.0 | 4.26e-01 | 93.6% | 82.2% |
| 2pusA04 | 6.10.140.300 | Special › Helix non-globular › Helix Hairpins › | 0.55 | 45.0 | 4.39e-01 | 91.5% | 97.2% |
| 1q6aA00 | 1.10.1240.30 | Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › KaiA/RbsU domain | 0.54 | 40.0 | 3.91e-01 | 79.8% | 80.4% |
| 7bobA01 | 3.20.20.80 | Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases | 0.54 | 47.0 | 3.24e-01 | 100.0% | 44.2% |
| 3nowA01 | 1.25.10.10 | Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › Leucine-rich Repeat Variant | 0.53 | 45.0 | 3.07e-01 | 94.7% | 42.7% |
| 1juqC00 | 1.25.40.90 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › | 0.52 | 45.0 | 3.95e-01 | 98.9% | 78.5% |
| 3d3oA00 | 3.30.450.40 | Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › GAF domain | 0.52 | 45.0 | 3.67e-01 | 100.0% | 51.7% |
| 1irxA05 | 1.10.10.350 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › | 0.51 | 35.0 | 3.59e-01 | 72.3% | 84.9% |
| 1elkA00 | 1.25.40.90 | Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › | 0.51 | 44.0 | 3.78e-01 | 97.9% | 76.5% |
| 2fnoA02 | 1.20.1050.10 | Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › | 0.50 | 39.0 | 3.49e-01 | 87.2% | 78.6% |
| 3bxjB03 | 1.10.506.10 | Mainly Alpha › Orthogonal Bundle › GTPase Activation - p120GAP; domain 1 › GTPase Activation - p120gap; domain 1 | 0.50 | 43.0 | 3.38e-01 | 98.9% | 66.8% |
| 4eadA01 | 1.20.970.10 | Mainly Alpha › Up-down Bundle › Transferase, Pyrimidine Nucleoside Phosphorylase; Chain A, domain 3 › Transferase, Pyrimidine Nucleoside Phosphorylase; Chain C | 0.50 | 43.0 | 4.14e-01 | 95.7% | 99.1% |
ECOD (19)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 158313 | 4967.1.1.2 ↗ | alpha bundles › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases › RdRP_1 | 0.95 | 92.0 | 8.09e-01 | 100.0% | 74.0% |
| 3779 | 4967.1.1.2 ↗ | alpha bundles › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases › RdRP_1 | 0.89 | 76.0 | 7.27e-01 | 89.4% | 78.5% |
| 1519288 | 4967.1.1.0 ↗ | alpha bundles › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases | 0.82 | 59.0 | 5.86e-01 | 89.4% | 72.2% |
| 3092371 | 4967.1.1.0 ↗ | alpha bundles › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases › helical bundle domain in reverse transcriptase-like polymerases | 0.77 | 60.0 | 5.89e-01 | 89.4% | 75.5% |
| 3506611 | 604.12.1.0 ↗ | alpha bundles › Spectrin repeat-like › MIT domain › MIT domain | 0.67 | 48.0 | 5.01e-01 | 74.5% | 89.4% |
| 3771509 | 109.2.1.4 ↗ | alpha superhelices › Repetitive alpha hairpins › alpha/alpha toroid › alpha/alpha toroid › Cobalamin_bind | 0.62 | 51.0 | 3.62e-01 | 89.4% | 62.5% |
| 3784177 | 604.1.1.132 ↗ | alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › KAR9 | 0.61 | 47.0 | 3.99e-01 | 81.9% | 78.1% |
| 4943339 | 375.1.1.0 ↗ | few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related | 0.61 | 43.0 | 4.24e-01 | 73.4% | 94.0% |
| 3997150 | 109.4.1.15 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › VHS | 0.60 | 46.0 | 4.08e-01 | 81.9% | 66.7% |
| 3575712 | 109.4.1.543 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › efThoc1 | 0.58 | 49.0 | 3.77e-01 | 93.6% | 51.4% |
| 4996791 | 2002.1.1.63 ↗ | a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Glyco_hydro_35 | 0.57 | 50.0 | 3.04e-01 | 100.0% | 39.3% |
| 3987453 | 180.1.1.1 ↗ | alpha bundles › Acid phosphatase/Vanadium-dependent haloperoxidase › Acid phosphatase/Vanadium-dependent haloperoxidase › Acid phosphatase/Vanadium-dependent haloperoxidase › PAP2 | 0.54 | 42.0 | 3.57e-01 | 84.0% | 81.2% |
| 3730068 | 109.3.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat | 0.54 | 44.0 | 3.87e-01 | 89.4% | 70.0% |
| 3705444 | 109.4.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat | 0.53 | 46.0 | 3.00e-01 | 96.8% | 33.8% |
| 3896442 | 197.1.1.1 ↗ | alpha bundles › Acyl-CoA binding protein-like › Acyl-CoA binding protein-like › Acyl-CoA binding protein-like › FERM_M | 0.53 | 42.0 | 3.63e-01 | 87.2% | 80.7% |
| 3239343 | 109.4.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat | 0.53 | 43.0 | 4.09e-01 | 88.3% | 75.5% |
| 3718100 | 109.4.1.109 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Sel1 | 0.52 | 38.0 | 2.83e-01 | 77.7% | 68.5% |
| 3680700 | 109.4.1.1127 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › ARM_Cnot1 | 0.51 | 43.0 | 3.43e-01 | 95.7% | 56.0% |
| 56757 | 150.3.1.0 ↗ | alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › 4-helical cytokines › 4-helical cytokine | 0.50 | 34.0 | 3.02e-01 | 70.2% | 49.3% |
D2
medium
residues 1-29_65-83_203-214_247-304
Domain cluster:
rep: RdRp__YP_009725315_RdRp__Norovirus_GIV__262897__D13-34_56-89_250-264_293-304
D3
medium
residues 30-64_96-202
Domain cluster:
rep: NIa__YP_003620390__Freesia_mosaic_virus__421012__D109-224
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF00680.26 best | RdRP_1 | 73.1 | 2.80e-20 | 81.0% | 25.6% |
D4
medium
residues 84-95_215-246_305-387
Domain cluster:
rep: hypothetical_protein_2__YP_009337040__Changjiang_tombus-like_virus_21__1922815__D1-47_99-181
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF00680.26 best | RdRP_1 | 46.6 | 3.00e-12 | 64.6% | 16.9% |