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RNA-dependent_RNA_polymerase
Euk-VirRaphanus_sativus_cryptic_virus_1
RNA-dependent_RNA_polymerase__YP_656506__Raphanus_sativus_cryptic_virus_1__348449
Identity
- Accession:
- YP_656506 ↗
- Protein ID:
- RNA-dependent_RNA_polymerase
- Kingdom:
- euk
Quality
81.7
mean pLDDT
Taxonomy
Orthornavirae›
Pisuviricota›
Duplopiviricetes›
Durnavirales›
Partitiviridae›
Raphanus_sativus_cryptic_virus_1
TaxID: 348449
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 32-57_444-535
Domain cluster:
representative
CATH (6)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2lseA00 | 1.20.120.1360 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › | 0.60 | 44.0 | 4.68e-01 | 100.0% | 90.1% |
| 1yo7A00 | 1.20.120.230 | Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like | 0.58 | 40.0 | 4.01e-01 | 70.3% | 84.2% |
| 2ijqA00 | 1.10.3450.10 | Mainly Alpha › Orthogonal Bundle › Hyaluronidase domain-like › TTHA0068-like | 0.56 | 40.0 | 3.74e-01 | 72.9% | 61.4% |
| 6fbtA01 | 1.10.1240.20 | Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › Lytic transglycosylase, superhelical linker domain | 0.56 | 33.0 | 3.96e-01 | 88.1% | 89.5% |
| 1c9bA01 | 1.10.472.10 | Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like | 0.55 | 41.0 | 4.43e-01 | 98.3% | 96.9% |
| 1aisB02 | 1.10.472.10 | Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like | 0.54 | 40.0 | 4.42e-01 | 99.2% | 100.0% |
ECOD (14)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3700984 | 109.4.1.414 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › MMS19_N | 0.62 | 41.0 | 3.25e-01 | 76.3% | 33.2% |
| 3214316 | 109.46.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › Helical domain in TOPLESS related protein 2 (TPR2) › Helical domain in TOPLESS related protein 2 (TPR2) | 0.59 | 40.0 | 3.93e-01 | 73.7% | 62.3% |
| 3183965 | 109.4.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat | 0.58 | 40.0 | 3.96e-01 | 71.2% | 68.8% |
| 3740472 | 109.4.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat | 0.57 | 42.0 | 4.01e-01 | 77.1% | 65.9% |
| 3513473 | 101.1.10.0 ↗ | alpha arrays › HTH › HTH › Cyclin-like | 0.57 | 42.0 | 3.95e-01 | 79.7% | 61.3% |
| 3492714 | 101.1.10.0 ↗ | alpha arrays › HTH › HTH › Cyclin-like | 0.56 | 41.0 | 3.62e-01 | 78.0% | 53.3% |
| 3236141 | 101.1.10.0 ↗ | alpha arrays › HTH › HTH › Cyclin-like | 0.56 | 43.0 | 4.14e-01 | 82.2% | 91.9% |
| 3926112 | 601.1.1.60 ↗ | alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin › Death_MADD | 0.55 | 40.0 | 4.01e-01 | 78.0% | 88.0% |
| 3994888 | 109.4.1.1148 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_NUP160_120_M | 0.54 | 40.0 | 3.33e-01 | 78.0% | 42.3% |
| 3354033 | 109.4.1.1279 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_1, PPR_2, PPR_long, TPR_24 | 0.54 | 41.0 | 3.38e-01 | 78.0% | 51.0% |
| 3601984 | 601.1.1.0 ↗ | alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin | 0.54 | 38.0 | 3.79e-01 | 77.1% | 70.8% |
| 3377179 | 601.1.2.0 ↗ | alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › I/LWEQ domain (Pfam 01608) | 0.53 | 36.0 | 3.12e-01 | 71.2% | 78.0% |
| 3500881 | 133.1.1.1 ↗ | alpha bundles › DH domain-like › DBL homology domain (DH-domain) › DBL homology domain (DH-domain) › RhoGEF | 0.53 | 47.0 | 3.95e-01 | 100.0% | 88.3% |
| 3708192 | 109.4.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat | 0.52 | 37.0 | 3.76e-01 | 74.6% | 84.2% |
D2
medium
residues 80-106_230-289_340-443
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 | 26.9 | 2.90e-06 | 58.1% | 18.7% |
D3
medium
residues 107-229_290-339
Domain cluster:
representative
CATH (2)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4v19R01 | 3.90.1030.10 | Alpha Beta › Alpha-Beta Complex › 50s Ribosomal Protein L17; Chain: A, › Ribosomal protein L17 | 0.51 | 32.0 | 3.82e-01 | 88.4% | 93.8% |
| 2xigA01 | 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 | 0.50 | 22.0 | 2.95e-01 | 84.4% | 75.8% |
ECOD (19)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 5364 | 304.48.1.8 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RdRP_1 | 0.62 | 59.0 | 4.44e-01 | 100.0% | 49.5% |
| 217141 | 304.48.1.15 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RdRP_3 | 0.61 | 57.0 | 4.43e-01 | 100.0% | 54.9% |
| 3250871 | 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 | 0.58 | 40.0 | 4.23e-01 | 71.1% | 79.3% |
| 3928801 | 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 | 0.58 | 54.0 | 4.23e-01 | 100.0% | 56.6% |
| 3691350 | 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 | 0.58 | 54.0 | 4.60e-01 | 100.0% | 77.0% |
| 3382764 | 626.1.1.0 ↗ | alpha complex topology › Formin homology 2 domain (FH2 domain) › Formin homology 2 domain (FH2 domain) › Formin homology 2 domain (FH2 domain) | 0.58 | 54.0 | 3.53e-01 | 100.0% | 28.9% |
| 3939319 | 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 | 0.58 | 54.0 | 4.06e-01 | 100.0% | 54.7% |
| 3878013 | 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 | 0.58 | 54.0 | 4.03e-01 | 100.0% | 50.5% |
| 3918122 | 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 | 0.57 | 53.0 | 4.04e-01 | 100.0% | 51.6% |
| 3272030 | 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 | 0.57 | 53.0 | 4.03e-01 | 100.0% | 52.7% |
| 3254023 | 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 | 0.56 | 50.0 | 4.72e-01 | 94.8% | 96.1% |
| 4071235 | 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 | 0.55 | 52.0 | 3.64e-01 | 100.0% | 35.0% |
| 4516798 | 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 | 0.55 | 52.0 | 3.75e-01 | 100.0% | 38.9% |
| 3574984 | 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 | 0.54 | 50.0 | 3.88e-01 | 100.0% | 54.1% |
| 3585702 | 101.1.2.90 ↗ | alpha arrays › HTH › HTH › winged helix domain › HTH_9 | 0.53 | 22.0 | 2.99e-01 | 85.5% | 72.9% |
| 3473558 | 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 | 0.53 | 47.0 | 4.26e-01 | 94.2% | 83.0% |
| 3792091 | 304.48.1.25 ↗ | a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RRM_4 | 0.52 | 48.0 | 3.84e-01 | 100.0% | 52.5% |
| 3954143 | 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 | 0.52 | 42.0 | 4.21e-01 | 85.0% | 90.3% |
| 3636696 | 3745.1.1.1 ↗ | alpha bundles › Sodium/Calcium exchanger › Sodium/Calcium exchanger › Sodium/Calcium exchanger › Na_Ca_ex | 0.50 | 41.0 | 3.14e-01 | 86.7% | 83.6% |