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replication_protein_2a

Euk-Vir

Amazon_lily_mild_mottle_virus

replication_protein_2a__YP_006576519__Amazon_lily_mild_mottle_virus__1195163

Identity

Accession:
YP_006576519 ↗
Protein ID:
replication_protein_2a
Kingdom:
euk

Quality

72.6 mean pLDDT

Taxonomy

Orthornavirae› Kitrinoviricota› Alsuviricetes› Martellivirales› Bromoviridae› Anulavirus› Anulavirus_ALMMV

TaxID: 1195163

Cluster

View cluster (23 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 medium residues 129-264_319-348
PDB
Domain cluster: rep: putative_2a_protein__NP_619771__Pelargonium_zonate_spot_virus__116056__D201-297_358-380
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00978.27 best RdRP_2 49.7 3.70e-13 39.8% 14.8%
D2 medium residues 265-318_410-458
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00978.27 best RdRP_2 45.7 6.20e-12 49.5% 11.4%
CATH (2)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2qgsB01 1.10.472.50 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › HD-domain/PDEase-like 0.55 29.0 3.14e-01 100.0% 58.0%
3vayA02 1.20.120.1600 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.51 27.0 2.95e-01 95.1% 60.9%
ECOD (1)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4061693 101.28.1.1 ↗ alpha arrays › HTH › helical bundles in FlhC-like proteins › helical bundles in FlhC-like proteins › FlhC 0.50 26.0 2.53e-01 100.0% 40.9%
D3 medium residues 349-409_459-528
PDB
Domain cluster: rep: RdRp__YP_009329875__Hubei_partiti-like_virus_11__1923017__D203-236_315-377
Pfam (2)
AccessionNameScoreE-valueQ covHMM cov
PF00978.27 best RdRP_2 81.2 1.00e-22 54.2% 16.1%
PF00978.27 RdRP_2 45.6 6.50e-12 48.1% 14.8%
D4 medium residues 529-657
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00978.27 best RdRP_2 57.5 1.60e-15 78.3% 21.6%
CATH (12)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2ckwA04 1.20.960.20 Mainly Alpha › Up-down Bundle › Mitochondrial Import Receptor Subunit Tom20; Chain A › 0.61 39.0 4.17e-01 79.8% 76.6%
2b8iA00 1.20.1280.100 Mainly Alpha › Up-down Bundle › Monooxygenase › Pas factor, saposin domain 0.60 29.0 3.61e-01 78.3% 74.0%
1s35A01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.57 41.0 4.54e-01 76.0% 96.0%
1q2lA04 3.30.830.10 Alpha Beta › 2-Layer Sandwich › Cytochrome Bc1 Complex; Chain A, domain 1 › Metalloenzyme, LuxS/M16 peptidase-like 0.56 40.0 3.39e-01 74.4% 66.2%
1u5pA01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.55 40.0 4.36e-01 77.5% 92.6%
1cunA01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.55 39.0 4.26e-01 76.0% 92.2%
3rkvA00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.55 35.0 3.39e-01 75.2% 55.8%
4aifA00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.53 34.0 3.32e-01 75.2% 56.9%
3b9qA01 1.20.120.140 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › SRP54, nucleotide-binding domain 0.53 26.0 3.00e-01 72.1% 62.9%
1s35A02 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.52 39.0 4.16e-01 78.3% 94.5%
4c91A03 1.20.58.2150 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.52 40.0 3.62e-01 82.9% 61.5%
1txuA01 1.10.246.120 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › 0.50 30.0 3.45e-01 70.5% 80.9%
ECOD (13)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
1789315 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 0.66 39.0 3.94e-01 77.5% 57.7%
3904076 604.1.1.95 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › KIAA1755_C 0.58 39.0 4.45e-01 73.6% 94.7%
3316738 206.1.1.20 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › PK_Tyr_Ser-Thr 0.57 43.0 3.13e-01 79.8% 58.2%
3585899 604.1.1.1 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › Spectrin 0.56 39.0 4.20e-01 72.1% 92.7%
3412004 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.54 39.0 4.34e-01 79.1% 97.0%
3365092 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.54 38.0 3.17e-01 72.1% 48.4%
3224632 604.1.1.1 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › Spectrin 0.54 40.0 4.31e-01 79.1% 95.2%
3681637 603.1.1.5 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins › Syntaxin-6_N 0.53 38.0 3.47e-01 76.7% 55.4%
3186004 604.6.1.1 ↗ alpha bundles › Spectrin repeat-like › GAT-like domain › GAT-like domain › GAT 0.52 37.0 4.03e-01 79.8% 93.0%
3894879 604.1.1.1 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › Spectrin 0.52 38.0 4.16e-01 77.5% 95.2%
3878737 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.51 33.0 3.04e-01 75.2% 48.2%
3769912 109.4.1.83 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Suf 0.50 36.0 3.63e-01 75.2% 73.3%
4671784 3755.3.1.310 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › CemA 0.50 31.0 3.23e-01 70.5% 65.0%