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IMGVR_UViG_3300005838_000099-3300005838-Ga0008649_1000145731

Arc-Vir

IMGVR_UViG_3300005838_000099-3300005838-Ga0008649_1000145731

Identity

Kingdom:
archaea

Quality

89.4 mean pLDDT

Cluster

Singleton — not in a non-trivial cluster

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 5-38
PDB
Domain cluster: representative
CATH (37)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
6uqjA02 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.61 43.0 2.50e-01 79.4% 20.0%
4kyzA00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.59 46.0 3.06e-01 100.0% 20.4%
5odnC00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.58 42.0 3.21e-01 91.2% 67.6%
6ks6Z01 1.10.560.10 Mainly Alpha › Orthogonal Bundle › GROEL; domain 1 › GroEL-like equatorial domain 0.57 44.0 2.73e-01 100.0% 40.1%
7c2fB01 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.57 40.0 3.06e-01 76.5% 100.0%
1wgrA01 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.57 42.0 3.39e-01 100.0% 37.8%
1vx7000 2.30.170.20 Mainly Beta › Roll › Ribosomal Protein L24e; Chain: T; › Ribosomal protein L24 0.57 40.0 3.42e-01 100.0% 41.9%
1se8A02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.57 42.0 3.08e-01 91.2% 63.1%
1apyB00 3.60.20.30 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › (Glycosyl)asparaginase 0.56 40.0 2.81e-01 85.3% 51.1%
3ihlB00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.56 45.0 2.88e-01 100.0% 90.8%
1gg3A02 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.56 43.0 3.52e-01 97.1% 76.9%
2jkgA00 3.30.450.30 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Dynein light chain 2a, cytoplasmic 0.56 43.0 2.93e-01 100.0% 87.9%
7ct1A01 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.56 42.0 3.34e-01 97.1% 71.8%
1yj7B01 3.30.70.1530 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Hypothetical protein rpa1041 0.55 42.0 3.57e-01 100.0% 78.9%
3weeA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.54 41.0 2.76e-01 100.0% 39.9%
2xnjA01 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.54 43.0 3.20e-01 100.0% 51.0%
2byvE05 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.54 42.0 3.41e-01 100.0% 72.2%
4gdxB00 3.60.20.40 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Gamma-glutamyltranspeptidase, small (S) subunit 0.54 42.0 2.75e-01 100.0% 98.4%
1wdkC01 3.40.47.10 Alpha Beta › 3-Layer(aba) Sandwich › Peroxisomal Thiolase; Chain A, domain 1 › Thiolase/Chalcone synthase 0.54 39.0 2.42e-01 88.2% 13.1%
3rt3B01 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.54 41.0 3.40e-01 97.1% 72.0%
5c9iD01 1.10.439.10 Mainly Alpha › Orthogonal Bundle › Penicillin Amidohydrolase; domain 1 › Penicillin Amidohydrolase, domain 1 0.54 41.0 2.82e-01 94.1% 68.3%
2cveA02 3.30.70.240 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.54 38.0 3.45e-01 100.0% 84.8%
1js3A03 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.53 37.0 2.84e-01 79.4% 54.6%
3g9kF01 3.60.20.40 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Gamma-glutamyltranspeptidase, small (S) subunit 0.53 37.0 2.62e-01 100.0% 20.2%
2wyqA00 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.53 39.0 3.27e-01 97.1% 71.4%
3go5A02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.52 39.0 3.27e-01 100.0% 46.8%
5xbfA01 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.52 41.0 3.27e-01 100.0% 57.5%
4n0rA02 3.20.20.80 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Glycosidases 0.52 42.0 2.50e-01 100.0% 93.5%
2mlbA00 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.52 37.0 2.97e-01 82.4% 78.5%
3uoxB01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.51 42.0 2.53e-01 100.0% 23.1%
3cjlA00 3.10.20.850 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Protein of unknown function DUF3861 0.51 35.0 2.75e-01 76.5% 58.0%
1ceeB00 3.90.810.10 Alpha Beta › Alpha-Beta Complex › SerineThreonine-protein kinase PAK-alpha; Chain A › CRIB domain 0.51 37.0 3.25e-01 100.0% 49.2%
2yfqB03 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.51 35.0 2.65e-01 100.0% 24.3%
1mbyA00 2.40.50.930 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.50 39.0 3.17e-01 94.1% 44.0%
5lp7E01 3.40.47.10 Alpha Beta › 3-Layer(aba) Sandwich › Peroxisomal Thiolase; Chain A, domain 1 › Thiolase/Chalcone synthase 0.50 35.0 2.24e-01 88.2% 13.3%
1wghA01 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.50 34.0 2.86e-01 100.0% 32.5%
2mkyA00 3.30.70.1530 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Hypothetical protein rpa1041 0.50 35.0 3.33e-01 100.0% 98.3%
ECOD (41)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3523591 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.63 50.0 3.75e-01 100.0% 77.0%
4191800 3075.1.1.0 ↗ a+b two layers › ubiquitin-binding domain from PLAA › ubiquitin-binding domain from PLAA › ubiquitin-binding domain from PLAA 0.61 46.0 4.01e-01 85.3% 92.7%
3798928 59.1.4.2 ↗ beta complex topology › triple barrel › triple barrel › TFIID subunits TAF1-TAF7 › DUF3591 0.60 47.0 2.69e-01 97.1% 9.9%
3877843 3075.1.1.2 ↗ a+b two layers › ubiquitin-binding domain from PLAA › ubiquitin-binding domain from PLAA › ubiquitin-binding domain from PLAA › UPF0561 0.60 46.0 3.79e-01 85.3% 79.7%
3899253 3957.1.1.0 ↗ a+b two layers › EKC/KEOPS complex subunit GON7 › EKC/KEOPS complex subunit GON7 › EKC/KEOPS complex subunit GON7 0.60 49.0 4.61e-01 100.0% 84.4%
3617704 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.59 41.0 3.72e-01 100.0% 49.1%
3518192 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.58 40.0 3.87e-01 100.0% 60.0%
5032335 7581.1.1.1 ↗ a/b three-layered sandwiches › Thiolase-like › Thiolase-like › Thiolase-like › Thiolase_N 0.58 42.0 2.44e-01 79.4% 20.3%
4243212 109.4.1.1297 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TIMELESS, PF27570 0.57 40.0 2.18e-01 100.0% 3.5%
3960610 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.57 46.0 2.84e-01 94.1% 32.1%
3265036 221.1.1.76 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RA_2 0.57 45.0 3.49e-01 97.1% 70.6%
3373091 221.1.1.2 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › ubiquitin 0.57 38.0 3.65e-01 100.0% 54.0%
3990615 221.1.1.36 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › FERM_N 0.56 39.0 3.51e-01 97.1% 44.0%
3520913 5054.1.1.8 ↗ alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › Ion_trans_2 0.56 41.0 2.27e-01 85.3% 58.5%
3499612 323.1.1.3 ↗ a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › AMP-binding 0.56 40.0 2.93e-01 85.3% 52.7%
3300895 375.13.1.3 ↗ few secondary structure elements › Rubredoxin-like › Mycobacterium tuberculosis Topoisomerase I C-terminal domain › Mycobacterium tuberculosis Topoisomerase I C-terminal domain › ubiquitin 0.55 39.0 3.53e-01 100.0% 49.1%
3436061 7516.1.1.0 ↗ a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases 0.55 38.0 2.32e-01 76.5% 20.4%
3708219 331.23.1.4 ↗ a+b two layers › TBP-like › Integrator IntS9/IntS11 C-terminal domain › Integrator IntS9/IntS11 C-terminal domain › CPSF100_C 0.55 44.0 3.55e-01 100.0% 45.7%
3242234 206.1.1.0 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase 0.55 45.0 2.52e-01 100.0% 22.9%
3453248 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.55 37.0 3.47e-01 100.0% 49.1%
3486294 207.1.1.0 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.54 43.0 2.42e-01 100.0% 21.2%
4064579 3455.1.1.0 ↗ alpha arrays › WY-domain in RXLR effectors › WY-domain in RXLR effectors › WY-domain in RXLR effectors 0.54 37.0 2.86e-01 88.2% 37.4%
4014289 2485.1.1.0 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like 0.54 37.0 2.65e-01 100.0% 19.4%
None — 0.54 40.0 2.51e-01 100.0% 14.1%
3470968 109.1.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › Glutathione S-transferase (GST)-C › Glutathione S-transferase (GST)-C 0.54 40.0 2.51e-01 100.0% 14.1%
3325330 3346.1.1.5 ↗ a+b two layers › N-terminal domain in ubiquitin-fold modifier 1 specific protease UfSP2 › N-terminal domain in ubiquitin-fold modifier 1 specific protease UfSP2 › N-terminal domain in ubiquitin-fold modifier 1 specific protease UfSP2 › ODR4-like 0.53 38.0 2.63e-01 100.0% 63.6%
3379810 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.53 42.0 3.68e-01 100.0% 56.7%
4002906 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.53 38.0 3.47e-01 100.0% 49.1%
365672 210.1.6.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Gamma-glutamyltranspeptidase-like › G_glu_transpept 0.53 37.0 2.61e-01 100.0% 19.9%
3781956 4099.1.1.3 ↗ a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like › Spc24 0.53 42.0 3.29e-01 100.0% 41.3%
3213226 3075.1.1.0 ↗ a+b two layers › ubiquitin-binding domain from PLAA › ubiquitin-binding domain from PLAA › ubiquitin-binding domain from PLAA 0.53 40.0 3.52e-01 100.0% 52.3%
3444901 4954.1.1.0 ↗ a+b complex topology › central helical domain in RNA-polymerase beta-prime subunit › central helical domain in RNA-polymerase beta-prime subunit › central helical domain in RNA-polymerase beta-prime subunit 0.53 37.0 2.44e-01 76.5% 30.3%
4025375 2008.1.1.86 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › RAP 0.52 40.0 3.01e-01 100.0% 98.3%
3620852 3075.1.1.0 ↗ a+b two layers › ubiquitin-binding domain from PLAA › ubiquitin-binding domain from PLAA › ubiquitin-binding domain from PLAA 0.52 42.0 3.66e-01 94.1% 89.1%
3938498 2484.1.1.107 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DDE_Tnp_IS1595 0.52 35.0 2.93e-01 100.0% 33.7%
4965204 7523.1.1.0 ↗ a/b three-layered sandwiches › Periplasmic binding protein-like II › Periplasmic binding protein-like II › Periplasmic binding protein-like II 0.52 35.0 2.61e-01 79.4% 78.3%
4043003 601.7.1.6 ↗ alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain › GlnD_UR_UTase 0.52 35.0 2.54e-01 97.1% 22.9%
3466254 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.51 35.0 3.35e-01 100.0% 54.0%
3464188 221.1.1.2 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › ubiquitin 0.51 36.0 3.01e-01 85.3% 81.3%
3641356 221.1.1.44 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › Rad60-SLD 0.51 37.0 3.08e-01 91.2% 78.7%
3498778 2004.1.1.19 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Ras 0.51 35.0 2.47e-01 76.5% 73.6%