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mRNA_decapping_enzyme_2-like_protein

Euk-Vir

Oryctes_rhinoceros_nudivirus

mRNA_decapping_enzyme_2-like_protein__YP_002321408__Oryctes_rhinoceros_nudivirus__92521

Identity

Accession:
YP_002321408 ↗
Protein ID:
mRNA_decapping_enzyme_2-like_protein
Kingdom:
euk

Quality

75.4 mean pLDDT

Taxonomy

Naldaviricetes› Lefavirales› Nudiviridae› Alphanudivirus› Oryctes_rhinoceros_nudivirus

TaxID: 92521

Cluster

View cluster (4 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 8-94
PDB
Domain cluster: representative
CATH (33)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2qkmB01 1.10.10.1050 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Dcp2, box A domain 0.72 63.0 6.03e-01 96.6% 84.3%
3solA00 1.20.58.1630 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Chaperone lipoprotein PulS/OutS 0.67 46.0 4.57e-01 74.7% 68.1%
1a41A02 1.20.120.380 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Type 1-topoisomerase catalytic fragment, domain 2 0.64 46.0 4.52e-01 77.0% 95.7%
3vw4A01 1.10.340.50 Mainly Alpha › Orthogonal Bundle › Endonuclease III; domain 1 › 0.62 46.0 4.55e-01 78.2% 73.9%
3ucaA00 1.10.600.10 Mainly Alpha › Orthogonal Bundle › Farnesyl Diphosphate Synthase › Farnesyl Diphosphate Synthase 0.62 46.0 3.25e-01 78.2% 82.8%
1vctA01 1.20.58.220 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphate transport system protein phou homolog 2; domain 2 0.60 43.0 4.02e-01 74.7% 78.0%
2mbfA01 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 0.60 41.0 4.05e-01 72.4% 63.9%
1t72A02 1.20.58.220 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphate transport system protein phou homolog 2; domain 2 0.59 44.0 4.24e-01 78.2% 85.7%
2chnB03 1.20.58.460 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Hyaluronidase post-catalytic domain-like 0.59 49.0 3.85e-01 90.8% 92.8%
1zk8B02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.58 42.0 3.71e-01 77.0% 56.1%
1w9cA00 1.25.10.10 Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › Leucine-rich Repeat Variant 0.57 48.0 3.39e-01 98.9% 29.0%
2a9uA01 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.57 44.0 3.91e-01 97.7% 57.1%
3tjmA02 1.10.1470.20 Mainly Alpha › Orthogonal Bundle › Protein Yjbj; Chain: A; › Fatty acid synthase; domain 2 0.57 40.0 4.00e-01 93.1% 71.1%
1sumB01 1.20.58.220 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphate transport system protein phou homolog 2; domain 2 0.56 41.0 3.91e-01 78.2% 82.2%
4agsA02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.56 47.0 4.15e-01 95.4% 65.2%
2hujA00 1.20.120.440 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › YppE-like 0.56 42.0 3.78e-01 81.6% 74.4%
1ui6A00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.55 47.0 3.75e-01 98.9% 70.3%
3edvB01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.55 43.0 3.69e-01 82.8% 70.6%
1q0gA00 1.20.120.400 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nickel-containing superoxide dismutase 0.55 43.0 3.96e-01 85.1% 78.6%
4ap2B01 1.20.1310.10 Mainly Alpha › Up-down Bundle › 5 helical Cullin repeat like › Cullin Repeats 0.55 48.0 4.21e-01 100.0% 79.9%
1m62A00 1.20.58.120 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › BAG domain 0.54 40.0 4.03e-01 78.2% 83.9%
6ko8A00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.54 47.0 3.78e-01 100.0% 57.3%
5dkoA02 1.10.3900.10 Mainly Alpha › Orthogonal Bundle › YacF-like › YacF-like 0.54 48.0 3.88e-01 97.7% 66.5%
1jt6A02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.54 45.0 4.01e-01 100.0% 77.4%
3ajfA00 1.20.1440.190 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › Tenuivirus movement protein 0.53 41.0 4.09e-01 95.4% 78.3%
4v19K02 1.10.10.250 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Ribosomal protein L11/L12, C-terminal domain 0.53 42.0 4.49e-01 92.0% 98.7%
7w9wA01 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.53 43.0 3.14e-01 92.0% 45.0%
2i10B02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.53 44.0 3.98e-01 96.6% 79.2%
2oezA02 1.10.3900.10 Mainly Alpha › Orthogonal Bundle › YacF-like › YacF-like 0.53 45.0 3.66e-01 94.3% 67.5%
3ddhA02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.52 36.0 3.74e-01 73.6% 77.8%
2j9qB00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.52 46.0 3.30e-01 100.0% 90.0%
3evyA00 1.20.58.910 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.52 41.0 4.19e-01 95.4% 91.6%
1k0oB02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.50 42.0 3.81e-01 93.1% 66.7%
ECOD (30)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3504374 4310.1.1.1 ↗ alpha arrays › Dcp2 box A domain › Dcp2 box A domain › Dcp2 box A domain › DCP2 0.73 62.0 5.88e-01 92.0% 79.0%
3822906 101.7.1.1 ↗ alpha arrays › HTH › DEK-C › DEK-C › DEK_C 0.67 45.0 4.85e-01 78.2% 85.7%
3340029 101.1.1.176 ↗ alpha arrays › HTH › HTH › Three-helical HTH › DEK_C 0.67 43.0 4.56e-01 72.4% 76.0%
4626177 101.32.1.0 ↗ alpha arrays › HTH › bacterioferritin-associated ferredoxin › bacterioferritin-associated ferredoxin 0.67 48.0 5.02e-01 82.8% 83.7%
3535212 101.1.1.65 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-bind_4 0.65 48.0 4.77e-01 78.2% 98.9%
3839204 2.21.1.3 ↗ beta barrels › OB-fold › Small protein B (SmpB) › Small protein B (SmpB) › HTH_OrfB_IS605 0.64 47.0 3.79e-01 79.3% 42.2%
3670748 5086.1.1.0 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins 0.62 30.0 2.57e-01 89.7% 27.1%
3768971 192.29.1.11 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › FerA 0.62 42.0 3.87e-01 70.1% 77.3%
3606961 5067.1.1.0 ↗ alpha bundles › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain 0.60 49.0 4.13e-01 88.5% 71.0%
3194707 601.1.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin 0.60 51.0 3.98e-01 93.1% 71.4%
3167983 109.4.1.890 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › HAT_Syf1_CNRKL1_C 0.58 42.0 3.52e-01 95.4% 41.9%
3465231 192.15.1.189 ↗ alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains › Frigida 0.58 44.0 4.56e-01 94.3% 87.5%
4978572 604.17.1.1 ↗ alpha bundles › Spectrin repeat-like › MTH_863 C-terminal domain-like › MTH_863 C-terminal domain-like › DUF447_C 0.57 42.0 4.60e-01 90.8% 97.1%
3535566 192.29.1.0 ↗ alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.56 44.0 3.93e-01 85.1% 82.4%
3355898 109.4.1.1886 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › At5g52880_ARM 0.56 43.0 3.64e-01 90.8% 48.7%
3647341 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.55 45.0 3.93e-01 89.7% 74.8%
4310744 563.1.1.1 ↗ alpha bundles › ATPD N-terminal domain-like › N-terminal domain of the delta subunit of the F1F0-ATP synthase › N-terminal domain of the delta subunit of the F1F0-ATP synthase › OSCP 0.55 40.0 3.32e-01 78.2% 63.7%
3712159 174.1.1.0 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.55 45.0 3.73e-01 89.7% 63.2%
3435020 109.4.1.1886 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › At5g52880_ARM 0.55 42.0 4.06e-01 92.0% 73.0%
3750000 604.1.1.1 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › Spectrin 0.54 41.0 3.92e-01 82.8% 90.5%
3405876 592.2.1.12 ↗ alpha arrays › PWI domain-like › YugE-like › YugE-like › PF26051 0.54 39.0 4.19e-01 88.5% 92.0%
3974874 4946.1.1.1 ↗ alpha bundles › helical domain in YacF-like proteins › helical domain in YacF-like proteins › helical domain in YacF-like proteins › ZapD 0.53 47.0 3.73e-01 97.7% 61.7%
3918068 604.1.1.1 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › Spectrin 0.53 41.0 3.78e-01 82.8% 82.6%
3423650 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.53 44.0 3.78e-01 98.9% 54.7%
4976647 195.1.1.1 ↗ alpha complex topology › NusB-like › NusB-like › NusB-like › NusB 0.53 45.0 3.92e-01 100.0% 94.5%
3625926 604.3.1.11 ↗ alpha bundles › Spectrin repeat-like › BAG domain › BAG domain › DUF155 0.53 41.0 2.95e-01 83.9% 40.0%
3493998 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.53 41.0 2.95e-01 93.1% 27.4%
4965582 4953.2.1.0 ↗ beta barrels › L-aspartase C-terminal domain-like › Lid-like insertion of Propionyl-CoA synthase (PCS) ligase domain › Lid-like insertion of Propionyl-CoA synthase (PCS) ligase domain 0.53 42.0 4.22e-01 89.7% 93.3%
3750020 604.1.1.1 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › Spectrin 0.52 41.0 3.86e-01 83.9% 87.6%
3282651 2004.1.1.5 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ABC_tran 0.50 35.0 2.17e-01 71.3% 86.0%
D2 high residues 97-135_164-261
PDB
Domain cluster: rep: NUDIX_hydrolase__YP_007354117__Acanthamoeba_polyphaga_moumouvirus__1269028__D1-103
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00293.35 best NUDIX 42.1 1.20e-10 91.2% 86.6%