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IMGVR_UViG_3300009704_001104-3300009704-Ga0116145_10037291

Arc-Vir

IMGVR_UViG_3300009704_001104-3300009704-Ga0116145_10037291

Identity

Kingdom:
archaea

Quality

85.8 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 3-83
PDB
Domain cluster: representative
CATH (4)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1ej6A04 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.56 43.0 3.22e-01 85.2% 94.8%
2zxrA01 2.40.50.460 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.55 43.0 3.63e-01 91.4% 79.1%
3zpeA00 2.60.90.50 Mainly Beta › Sandwich › Adenovirus Type 5 Fiber Protein (Receptor Binding Domain) › 0.54 44.0 3.70e-01 90.1% 88.4%
4cbvA02 2.40.50.1020 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › LytTr DNA-binding domain 0.51 36.0 3.27e-01 76.5% 89.8%
ECOD (15)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5025800 2.21.1.0 ↗ beta barrels › OB-fold › Small protein B (SmpB) › Small protein B (SmpB) 0.93 85.0 7.23e-01 95.1% 64.2%
4934193 2.21.1.5 ↗ beta barrels › OB-fold › Small protein B (SmpB) › Small protein B (SmpB) › PF27234 0.78 69.0 5.50e-01 97.5% 62.5%
4010838 7000.1.1.1 ↗ alpha arrays › inserted region in the C-terminal domain of the archeal LeuRS › inserted region in the C-terminal domain of the archeal LeuRS › inserted region in the C-terminal domain of the archeal LeuRS › HTH_OrfB_IS605 0.78 67.0 5.53e-01 95.1% 62.8%
5014572 2.21.1.3 ↗ beta barrels › OB-fold › Small protein B (SmpB) › Small protein B (SmpB) › HTH_OrfB_IS605 0.77 69.0 5.45e-01 100.0% 63.0%
5002559 2.21.1.0 ↗ beta barrels › OB-fold › Small protein B (SmpB) › Small protein B (SmpB) 0.77 67.0 5.28e-01 96.3% 59.4%
4955688 2.21.1.5 ↗ beta barrels › OB-fold › Small protein B (SmpB) › Small protein B (SmpB) › PF27234 0.77 69.0 5.46e-01 100.0% 64.2%
4961598 2.21.1.0 ↗ beta barrels › OB-fold › Small protein B (SmpB) › Small protein B (SmpB) 0.76 67.0 5.55e-01 100.0% 73.1%
4961800 2.21.1.0 ↗ beta barrels › OB-fold › Small protein B (SmpB) › Small protein B (SmpB) 0.75 67.0 5.61e-01 100.0% 76.4%
5012315 2.21.1.0 ↗ beta barrels › OB-fold › Small protein B (SmpB) › Small protein B (SmpB) 0.74 67.0 5.08e-01 100.0% 61.6%
5009771 2.21.1.5 ↗ beta barrels › OB-fold › Small protein B (SmpB) › Small protein B (SmpB) › PF27234 0.74 65.0 5.15e-01 100.0% 63.5%
3098421 330.3.1.0 ↗ a+b two layers › dsRBD-like › Peptidyl-tRNA hydrolase domain-like › Peptidyl-tRNA hydrolase domain-like 0.64 31.0 4.07e-01 93.8% 86.0%
3406353 394.1.1.0 ↗ few secondary structure elements › Invertebrate chitin-binding proteins › Invertebrate chitin-binding proteins › Invertebrate chitin-binding proteins 0.55 30.0 3.28e-01 97.5% 64.6%
3179779 330.3.1.0 ↗ a+b two layers › dsRBD-like › Peptidyl-tRNA hydrolase domain-like › Peptidyl-tRNA hydrolase domain-like 0.53 31.0 3.04e-01 84.0% 53.3%
3731566 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.53 43.0 3.44e-01 93.8% 86.9%
4001570 330.3.1.0 ↗ a+b two layers › dsRBD-like › Peptidyl-tRNA hydrolase domain-like › Peptidyl-tRNA hydrolase domain-like 0.53 32.0 3.36e-01 84.0% 66.7%
D2 high residues 96-166
PDB
Domain cluster: representative
CATH (19)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1fxkC00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.77 52.0 4.24e-01 70.4% 85.7%
1wkbA03 1.10.730.10 Mainly Alpha › Orthogonal Bundle › Isoleucyl-tRNA Synthetase; Domain 1 › Isoleucyl-tRNA Synthetase; Domain 1 0.76 61.0 5.00e-01 97.2% 49.6%
1nt2B02 1.10.287.660 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Helix hairpin bin 0.75 51.0 5.25e-01 70.4% 74.6%
3nymA00 6.10.290.10 Special › Helix non-globular › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.75 53.0 4.40e-01 74.6% 81.5%
2oo2A00 1.20.1270.90 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › AF1782-like 0.72 52.0 5.11e-01 93.0% 71.1%
6jpaE00 1.20.140.150 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › 0.70 59.0 4.53e-01 95.8% 53.8%
4i1mB01 1.20.120.1700 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.69 59.0 4.88e-01 95.8% 88.4%
2pmrA00 1.20.1270.90 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › AF1782-like 0.68 54.0 5.29e-01 94.4% 80.3%
1e52A00 4.10.860.10 Few Secondary Structures › Irregular › DNA Excision Repair, Uvrb; Chain A › UVR domain 0.67 45.0 4.91e-01 70.4% 91.1%
2wj9B00 3.30.70.3580 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Antirestriction protein 0.67 43.0 3.48e-01 88.7% 32.4%
2gscC00 1.20.1440.60 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 23S rRNA-intervening sequence 0.67 54.0 4.73e-01 94.4% 58.2%
4od4A02 1.20.120.1780 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › UbiA prenyltransferase 0.66 58.0 4.89e-01 97.2% 99.2%
1luwA01 1.10.287.990 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Fe,Mn superoxide dismutase (SOD) domain 0.64 47.0 4.98e-01 77.5% 85.9%
6he1B01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.63 51.0 5.30e-01 94.4% 96.9%
2gs4A00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.63 55.0 4.30e-01 98.6% 66.5%
3e0sA00 1.40.20.10 Mainly Alpha › Alpha solenoid › CHAD domain › CHAD domain 0.60 51.0 3.48e-01 100.0% 43.2%
6whpA01 3.90.1200.10 Alpha Beta › Alpha-Beta Complex › Aminoglycoside 3'-phosphotransferase; Chain: A, domain 2 › Aminoglycoside phosphotransferase (APH), C-terminal lobe 0.60 43.0 2.90e-01 76.1% 20.6%
1hyrC01 3.30.500.10 Alpha Beta › 2-Layer Sandwich › Murine Class I Major Histocompatibility Complex, H2-DB; Chain A, domain 1 › MHC class I-like antigen recognition-like 0.58 48.0 3.72e-01 97.2% 79.4%
5unhA02 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.50 41.0 2.89e-01 97.2% 40.7%
ECOD (17)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5025801 2484.1.1.302 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Cas12f1-like_TNB 0.95 90.0 6.37e-01 100.0% 38.4%
3942653 632.22.1.118 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats › YciZ 0.86 65.0 6.60e-01 95.8% 80.0%
5013223 2484.1.1.302 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Cas12f1-like_TNB 0.84 77.0 5.43e-01 100.0% 36.6%
4994780 2484.1.1.124 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › OrfB_IS605 0.83 75.0 5.25e-01 100.0% 32.6%
4152566 4274.1.1.1 ↗ extended segments › Transmembrane helices in MalF N-terminal region › Transmembrane helices in MalF N-terminal region › Transmembrane helices in MalF N-terminal region › MalF_N_TM 0.83 57.0 6.41e-01 70.4% 92.7%
5079107 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.80 72.0 5.80e-01 100.0% 53.1%
5046679 632.11.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.76 57.0 5.81e-01 95.8% 82.9%
4076485 632.22.1.1 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats › EzrA 0.73 61.0 5.75e-01 95.8% 76.5%
5011606 2484.1.1.124 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › OrfB_IS605 0.71 65.0 4.72e-01 100.0% 40.4%
3610008 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.66 47.0 3.26e-01 100.0% 22.1%
5053378 633.23.1.0 ↗ alpha bundles › Bromodomain-like › Claudin › Claudin 0.65 54.0 4.34e-01 91.5% 67.1%
5060285 109.4.1.5 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_1 0.64 51.0 3.49e-01 85.9% 34.3%
4867087 192.3.1.1 ↗ alpha bundles › Long alpha-hairpin › Fe,Mn superoxide dismutase (SOD), N-terminal domain › Fe,Mn superoxide dismutase (SOD), N-terminal domain › Sod_Fe_N 0.62 52.0 4.99e-01 90.1% 90.4%
5028078 5090.1.1.0 ↗ beta complex topology › Viral glycoprotein, central and dimerisation domains-like › Viral glycoprotein, central and dimerisation domains › Viral glycoprotein, central and dimerisation domains 0.61 53.0 3.61e-01 100.0% 67.5%
3704499 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.59 47.0 3.38e-01 98.6% 30.2%
3319227 1021.1.1.2 ↗ a+b two layers › C-terminal domain in RNA helicases › C-terminal domain in RNA helicases › C-terminal domain in RNA helicases › RNA_hel_CTD 0.56 44.0 4.44e-01 91.5% 87.1%
3634384 4292.2.1.2 ↗ a+b two layers › FlaG-like › MAGUK binding stalk (MBS) domain › MAGUK binding stalk (MBS) domain › KIF1B 0.56 42.0 3.51e-01 83.1% 70.8%