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YP_009216708.1

Arc-Vir

NC_028992__YP_009216708.1__AVT97-gp02__00002

Identity

Accession:
NC_028992 ↗
Protein ID:
YP_009216708.1 ↗
Kingdom:
archaea

Quality

90.9 mean pLDDT

Taxonomy

Sulfolobales_Virus_YNP2

TaxID: 1732180

Cluster

Singleton — not in a non-trivial cluster

3D Structure

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Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 1-55
PDB
Domain cluster: representative
CATH (50)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2vkjA00 1.20.58.2030 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.84 64.0 5.02e-01 100.0% 41.5%
6humG01 1.20.120.1200 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › NADH-ubiquinone/plastoquinone oxidoreductase chain 6, subunit NuoJ 0.84 56.0 3.88e-01 85.5% 23.7%
2xevB00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.84 63.0 4.75e-01 100.0% 35.5%
2gw1A02 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.81 60.0 3.59e-01 100.0% 12.2%
2a26B01 4.10.860.10 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › UVR domain 0.80 55.0 6.06e-01 89.1% 88.6%
2oxlA00 1.20.5.5260 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.79 67.0 6.45e-01 100.0% 82.3%
2lhrA00 1.20.58.1270 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.79 56.0 4.92e-01 100.0% 52.6%
2chnB03 1.20.58.460 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Hyaluronidase post-catalytic domain-like 0.79 58.0 3.96e-01 78.2% 37.8%
2qtfA02 6.10.250.2860 Special › Helix non-globular › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.77 53.0 5.68e-01 85.5% 83.0%
2o8pA00 1.20.190.20 Mainly Alpha › Up-down Bundle › Delta-Endotoxin; domain 1 › 14-3-3 domain 0.77 55.0 3.69e-01 78.2% 57.1%
1dpsA00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.74 66.0 4.70e-01 100.0% 76.1%
2oh3A01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.74 65.0 4.78e-01 100.0% 86.1%
4r42A01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.73 65.0 4.48e-01 100.0% 74.9%
3fseB02 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.72 66.0 4.76e-01 100.0% 81.2%
2qf9A01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.72 66.0 4.64e-01 100.0% 83.3%
1vw4L01 3.90.1030.10 Alpha Beta › Alpha-Beta Complex › 50s Ribosomal Protein L17; Chain: A, › Ribosomal protein L17 0.71 59.0 4.27e-01 87.3% 54.8%
2c0gA02 1.20.1150.12 Mainly Alpha › Up-down Bundle › Endoplasmic reticulum protein erp29 › Endoplasmic reticulum resident protein 29, C-terminal domain 0.70 57.0 4.56e-01 100.0% 46.2%
1zpyA00 6.10.140.1960 Special › Helix non-globular › Helix Hairpins › 0.70 57.0 4.68e-01 85.5% 64.8%
3zciA00 1.20.58.1660 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.70 49.0 3.34e-01 85.5% 21.5%
2rbdA01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.70 65.0 4.58e-01 100.0% 81.3%
2ib0A01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.70 63.0 4.66e-01 100.0% 81.5%
1hn0A02 1.50.10.100 Mainly Alpha › Alpha/alpha barrel › Glycosyltransferase › Chondroitin AC/alginate lyase 0.70 65.0 3.79e-01 100.0% 22.7%
2crbA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.69 62.0 5.11e-01 100.0% 59.8%
3uitA01 1.20.1440.360 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 0.69 61.0 4.66e-01 100.0% 78.6%
4etrB00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.68 61.0 4.68e-01 100.0% 79.5%
3kkbA00 1.20.120.880 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Histidine kinase (KinB), sensor domain 0.68 61.0 4.63e-01 100.0% 47.6%
5cwhA01 1.25.10.10 Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › Leucine-rich Repeat Variant 0.68 62.0 4.39e-01 100.0% 57.1%
7kdtA01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.68 57.0 3.55e-01 94.5% 23.7%
3k9iA01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.67 49.0 4.05e-01 100.0% 42.7%
1nafA02 1.20.58.160 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.66 60.0 5.12e-01 100.0% 81.2%
7k3zG01 3.50.7.10 Alpha Beta › 3-Layer(bba) Sandwich › GroEL › GroEL 0.65 60.0 3.94e-01 100.0% 46.5%
6vxcA01 3.20.70.20 Alpha Beta › Alpha-Beta Barrel › Anaerobic Ribonucleotide-triphosphate Reductase Large Chain › 0.65 59.0 3.24e-01 100.0% 23.7%
1xg2B00 1.20.140.40 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Invertase/pectin methylesterase inhibitor family protein 0.65 58.0 4.20e-01 100.0% 84.8%
4wzxA01 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.65 58.0 5.23e-01 100.0% 78.7%
2rpaA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.65 57.0 5.16e-01 100.0% 75.3%
3vkgB03 1.20.58.1120 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Dynein motor heavy chain, linker domain, subdomain 4 0.65 55.0 3.90e-01 92.7% 57.7%
2x19B00 1.25.10.10 Mainly Alpha › Alpha Horseshoe › Leucine-rich Repeat Variant › Leucine-rich Repeat Variant 0.64 59.0 3.22e-01 100.0% 7.8%
1zhcA00 6.10.280.50 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.64 43.0 3.88e-01 85.5% 50.0%
1y6xA00 1.10.287.1080 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like 0.64 51.0 4.34e-01 94.5% 55.2%
4akgA02 1.20.140.100 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Dynein motor heavy chain, linker domain, N-terminal subdomain 0.63 55.0 3.93e-01 100.0% 39.3%
2pziA04 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.63 55.0 3.86e-01 100.0% 94.4%
2pl2A00 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.63 54.0 3.67e-01 100.0% 27.3%
4iggB02 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.61 53.0 4.16e-01 100.0% 55.4%
3dboB00 3.40.50.1010 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 5'-nuclease 0.60 51.0 3.89e-01 100.0% 41.3%
2o36A01 1.20.1050.40 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › Endopeptidase. Chain P; domain 1 0.60 53.0 4.06e-01 100.0% 59.4%
2bkkC02 3.90.1200.10 Alpha Beta › Alpha-Beta Complex › Aminoglycoside 3'-phosphotransferase; Chain: A, domain 2 › Aminoglycoside phosphotransferase (APH), C-terminal lobe 0.59 50.0 3.61e-01 100.0% 79.8%
3m1cB01 3.30.390.170 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › 0.59 50.0 4.11e-01 100.0% 60.6%
1o0sA02 1.20.1370.30 Mainly Alpha › Up-down Bundle › Hemocyanin, N-terminal domain › 0.58 47.0 3.83e-01 92.7% 65.7%
2l1lB00 1.20.1440.250 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 0.58 47.0 3.72e-01 100.0% 41.7%
2wzkA01 1.20.1310.10 Mainly Alpha › Up-down Bundle › 5 helical Cullin repeat like › Cullin Repeats 0.52 46.0 3.49e-01 100.0% 81.9%
ECOD (49)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3602860 109.61.1.1 ↗ alpha superhelices › Repetitive alpha hairpins › Uncharacterized protein PF2048.1 › Uncharacterized protein PF2048.1 › MJ1579 0.93 67.0 6.06e-01 100.0% 58.6%
3660652 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.89 68.0 4.73e-01 100.0% 28.4%
3741306 4970.1.1.14 ↗ alpha bundles › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › fingers domain in bacteriophage RB69-like DNA polymerase I › RRP36 0.89 59.0 4.26e-01 85.5% 28.1%
3709854 639.2.1.0 ↗ alpha arrays › HHA-like › Regulator of acid resistance influenced by indole (AriR) › Regulator of acid resistance influenced by indole (AriR) 0.84 64.0 6.41e-01 100.0% 80.0%
4006612 639.2.1.1 ↗ alpha arrays › HHA-like › Regulator of acid resistance influenced by indole (AriR) › Regulator of acid resistance influenced by indole (AriR) › YmgB 0.80 69.0 5.86e-01 100.0% 60.0%
3977558 639.2.1.3 ↗ alpha arrays › HHA-like › Regulator of acid resistance influenced by indole (AriR) › Regulator of acid resistance influenced by indole (AriR) › BDM 0.79 67.0 6.78e-01 100.0% 92.7%
4026624 5069.1.3.0 ↗ alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Fumarate reductase respiratory complex transmembrane subunits 0.79 58.0 4.53e-01 78.2% 60.0%
3986794 639.2.1.1 ↗ alpha arrays › HHA-like › Regulator of acid resistance influenced by indole (AriR) › Regulator of acid resistance influenced by indole (AriR) › YmgB 0.78 67.0 6.15e-01 100.0% 72.9%
3927225 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.77 66.0 4.34e-01 92.7% 35.4%
3195080 109.4.1.368 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › SHNi-TPR 0.76 60.0 3.60e-01 83.6% 33.8%
4393704 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.76 67.0 3.89e-01 100.0% 21.7%
5011282 2004.1.1.76 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › DUF87 0.75 68.0 4.04e-01 100.0% 16.8%
4960003 150.1.1.1 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › Ferritin 0.73 66.0 4.95e-01 100.0% 86.9%
3927321 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.73 69.0 5.90e-01 100.0% 72.5%
3600065 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.73 66.0 3.84e-01 100.0% 44.1%
3228092 3599.1.1.1 ↗ alpha superhelices › Mitochondrial malonyl-CoA decarboxylase helical domain › Mitochondrial malonyl-CoA decarboxylase helical domain › Mitochondrial malonyl-CoA decarboxylase helical domain › MCD_N 0.73 64.0 4.67e-01 94.5% 92.6%
4667176 3755.3.1.517 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › PF29650 0.72 66.0 4.12e-01 100.0% 25.1%
3743018 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.71 66.0 6.21e-01 100.0% 89.2%
3252144 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.71 66.0 6.00e-01 100.0% 82.9%
4140985 2500.1.1.0 ↗ a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel 0.70 64.0 3.50e-01 100.0% 25.9%
3512636 3930.1.1.6 ↗ alpha bundles › Helical bundle insertion in helicase domains › Helical bundle in Hef helicase › Helical bundle in Hef helicase › Dicer_PBD 0.70 64.0 4.92e-01 100.0% 50.4%
4933335 604.12.1.1 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › MIT 0.69 65.0 5.60e-01 100.0% 72.5%
4102849 507.1.1.0 ↗ alpha arrays › DnaB helicase N-terminal domain-related › DnaB helicase N-terminal domain-related › DnaB helicase N-terminal domain-related 0.69 56.0 4.17e-01 85.5% 80.0%
4978312 604.12.1.1 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › MIT 0.69 64.0 5.86e-01 100.0% 82.9%
5077689 4163.1.1.0 ↗ alpha bundles › GINS helical bundle-like › GINS helical bundle-like › PSF1 N-terminal domain-like 0.69 59.0 4.44e-01 90.9% 50.8%
3641813 604.6.1.1 ↗ alpha bundles › Spectrin repeat-like › GAT-like domain › GAT-like domain › GAT 0.69 64.0 5.23e-01 100.0% 75.8%
4889091 4246.1.1.2 ↗ a+b complex topology › N-terminal domain in RNA-polymerase beta-prime subunit › N-terminal domain in RNA-polymerase beta-prime subunit › N-terminal domain in RNA-polymerase beta-prime subunit › RNA_pol_Rpb1_1 0.69 63.0 3.70e-01 98.2% 30.2%
3744696 603.1.1.2 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins › Not3 0.68 62.0 4.94e-01 100.0% 70.5%
3418094 604.12.1.1 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › MIT 0.68 62.0 5.43e-01 100.0% 72.5%
4003021 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.68 63.0 3.34e-01 100.0% 3.7%
3940815 604.1.1.1 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat › Spectrin 0.68 62.0 4.77e-01 100.0% 75.7%
5000553 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.68 62.0 5.71e-01 100.0% 81.4%
3256857 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.68 59.0 3.58e-01 94.5% 21.9%
3686751 604.12.1.1 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › MIT 0.67 62.0 5.39e-01 100.0% 72.5%
4024442 2488.1.1.7 ↗ a/b three-layered sandwiches › alpha/beta knot › alpha/beta knot › alpha/beta knot › EMG1 0.67 56.0 3.58e-01 89.1% 21.4%
3704286 604.12.1.8 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › KATNA1_MIT 0.67 61.0 4.96e-01 100.0% 59.0%
3402110 604.12.1.1 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › MIT 0.67 61.0 5.05e-01 100.0% 61.1%
4034237 5055.1.1.0 ↗ extended segments › Small-conductance potassium channel › Small-conductance potassium channel › Small-conductance potassium channel 0.67 59.0 4.51e-01 94.5% 51.3%
3660749 2487.1.1.0 ↗ a/b three-layered sandwiches › "The ""swivelling"" beta/beta/alpha domains" › "The ""swivelling"" beta/beta/alpha domain" › "The ""swivelling"" beta/beta/alpha domain" 0.66 58.0 4.41e-01 100.0% 67.7%
3930837 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.66 60.0 4.57e-01 100.0% 77.5%
3465116 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.65 51.0 2.99e-01 100.0% 10.0%
3414767 604.12.1.0 ↗ alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.65 58.0 5.10e-01 100.0% 72.5%
3815488 109.4.1.1463 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PF28490 0.64 53.0 2.88e-01 94.5% 9.2%
3495888 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.63 57.0 3.47e-01 100.0% 40.5%
4992256 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.63 57.0 4.63e-01 100.0% 76.8%
3902068 109.4.1.1369 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › MA3, MIF4G 0.61 48.0 2.76e-01 100.0% 8.7%
3283003 101.1.4.0 ↗ alpha arrays › HTH › HTH › tetra-helical, lambda repressor-like 0.60 45.0 3.78e-01 96.4% 45.9%
3970682 2002.1.1.0 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels 0.54 45.0 2.56e-01 94.5% 47.5%
4013939 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.53 47.0 3.37e-01 100.0% 75.2%