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replication_associated_protein

Euk-Vir

Spinach_yellow_vein_Sikar_virus

replication_associated_protein__YP_008888542__Spinach_yellow_vein_Sikar_virus__1432565

Identity

Accession:
YP_008888542 ↗
Protein ID:
replication_associated_protein
Kingdom:
euk

Quality

78.5 mean pLDDT

Taxonomy

Shotokuvirae› Cressdnaviricota› Repensiviricetes› Geplafuvirales› Geminiviridae› Begomovirus› Spinach_yellow_vein_Sikar_virus

TaxID: 1432565

Cluster

View cluster (491 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 9-112
PDB
Domain cluster: rep: replication-associated_protein__YP_009553348__Odonata-associated_circular_virus-7_Viruses.__X__D5-106
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00799.27 best Gemini_AL1 110.5 6.30e-32 100.0% 90.3%
D2 high residues 125-173
PDB
Domain cluster: rep: replication_initiator_protein__YP_009241413__Deinbollia_mosaic_virus__1812308__D128-173
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF08283.17 best Gemini_AL1_M 35.5 1.20e-08 91.8% 38.3%
D3 high residues 186-275
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF08283.17 best Gemini_AL1_M 46.5 4.90e-12 50.0% 42.1%
CATH (15)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
7jpoE01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.72 61.0 5.07e-01 93.3% 97.5%
4ljyA01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.66 60.0 4.26e-01 100.0% 79.2%
6bogA05 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.65 56.0 4.34e-01 97.8% 61.2%
1vecA00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.62 54.0 4.23e-01 100.0% 63.6%
5supC01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.62 53.0 4.14e-01 100.0% 90.6%
5jajA01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.60 49.0 3.66e-01 94.4% 38.7%
2ppwA00 3.40.1400.10 Alpha Beta › 3-Layer(aba) Sandwich › Ribose 5-phosphate Isomerase B; Chain: A, › Sugar-phosphate isomerase, RpiB/LacA/LacB 0.59 48.0 3.74e-01 91.1% 61.0%
4bucA02 3.40.1190.10 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Mur-like, catalytic domain 0.58 40.0 3.13e-01 71.1% 34.8%
6yhrA02 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.57 48.0 3.75e-01 95.6% 53.3%
1w36B01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.52 42.0 3.18e-01 92.2% 77.0%
2o6lB00 3.40.50.2000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Glycogen Phosphorylase B; 0.52 45.0 3.76e-01 100.0% 86.1%
3p9dD02 3.30.260.10 Alpha Beta › 2-Layer Sandwich › GROEL; domain 2 › TCP-1-like chaperonin intermediate domain 0.52 38.0 3.67e-01 78.9% 81.0%
5ezqA02 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.51 38.0 3.07e-01 78.9% 86.4%
2c53A00 3.40.470.10 Alpha Beta › 3-Layer(aba) Sandwich › Uracil-DNA Glycosylase, subunit E › Uracil-DNA glycosylase-like domain 0.51 43.0 3.33e-01 100.0% 89.5%
6jzqD01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.51 41.0 3.67e-01 94.4% 92.3%
ECOD (12)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4542391 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.81 74.0 5.29e-01 100.0% 40.4%
3504537 2004.1.1.29 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › DEAD 0.68 61.0 4.46e-01 100.0% 79.2%
3274325 2004.1.1.29 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › DEAD 0.67 60.0 4.32e-01 100.0% 92.2%
3704950 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.64 53.0 4.51e-01 95.6% 71.2%
4038966 2004.1.1.159 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Mur_ligase_M 0.61 41.0 3.22e-01 70.0% 49.8%
4271781 2004.1.1.159 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Mur_ligase_M 0.60 41.0 3.30e-01 71.1% 36.8%
4040104 2004.1.1.159 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Mur_ligase_M 0.53 44.0 3.38e-01 94.4% 90.9%
5066839 7574.1.1.5 ↗ a/b three-layered sandwiches › Thiamin diphosphate-binding fold (THDP-binding) › Thiamin diphosphate-binding fold (THDP-binding) › Thiamin diphosphate-binding fold (THDP-binding) › TPP_enzyme_C 0.53 42.0 2.86e-01 90.0% 84.5%
5077931 7515.1.1.6 ↗ a/b three-layered sandwiches › Alkaline phosphatase-like › Alkaline phosphatase-like › Alkaline phosphatase-like › Phosphodiest 0.52 42.0 2.83e-01 90.0% 32.2%
4286526 7570.1.1.1 ↗ a/b three-layered sandwiches › MurD-like peptide ligases, peptide-binding domain › MurD-like peptide ligases, peptide-binding domain › MurD-like peptide ligases, peptide-binding domain › Mur_ligase_C 0.52 42.0 3.71e-01 88.9% 95.6%
3997463 2004.5.1.13 ↗ a/b three-layered sandwiches › P-loop domains-like › Differentially expressed in normal cells and neoplasia (DENN) domain › Differentially expressed in normal cells and neoplasia (DENN) domain › SPA, Avl9 0.52 44.0 3.32e-01 97.8% 44.2%
4498702 7563.1.1.2 ↗ a/b three-layered sandwiches › MCP/YpsA-related › MCP/YpsA-related › MCP/YpsA-related › Lysine_decarbox 0.51 38.0 3.12e-01 93.3% 39.9%