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IMGVR_UViG_3300005508_000338-3300005508-Ga0066868_100049265

Arc-Vir

IMGVR_UViG_3300005508_000338-3300005508-Ga0066868_100049265

Identity

Kingdom:
archaea

Quality

82.2 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 medium residues 122-183
PDB
Domain cluster: representative
CATH (36)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5jrjA02 3.30.250.10 Alpha Beta › 2-Layer Sandwich › Rec A Protein; domain 2 › RecA protein, C-terminal domain 0.81 70.0 7.14e-01 98.4% 100.0%
3hr8A02 3.30.250.10 Alpha Beta › 2-Layer Sandwich › Rec A Protein; domain 2 › RecA protein, C-terminal domain 0.80 72.0 6.74e-01 100.0% 86.7%
3sp1A01 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.72 60.0 3.96e-01 95.2% 41.2%
1f7uA01 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.69 57.0 3.58e-01 93.5% 26.2%
1yr1A00 3.40.50.10960 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.65 45.0 3.67e-01 72.6% 91.6%
3fnrA02 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.65 52.0 3.42e-01 93.5% 29.3%
1w97L02 3.30.420.370 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › GspL cytoplasmic domain, C-terminal subdomain 0.64 44.0 4.21e-01 74.2% 85.3%
1ukfA00 3.90.70.20 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › 0.63 52.0 3.80e-01 95.2% 43.1%
4phtY02 3.30.420.370 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › GspL cytoplasmic domain, C-terminal subdomain 0.59 41.0 4.17e-01 74.2% 82.3%
2olvA03 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.59 50.0 3.23e-01 100.0% 72.3%
4geqB00 3.30.160.430 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.59 40.0 4.10e-01 71.0% 89.7%
2ogqA01 3.30.1120.30 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › POLO box domain 0.58 47.0 3.85e-01 95.2% 94.4%
4jpdA00 3.30.920.10 Alpha Beta › 2-Layer Sandwich › Metal Transport, Frataxin; Chain A › Frataxin/CyaY 0.57 42.0 3.63e-01 82.3% 82.6%
3bgvD00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.56 42.0 2.76e-01 80.6% 89.9%
4hs5A00 3.30.920.10 Alpha Beta › 2-Layer Sandwich › Metal Transport, Frataxin; Chain A › Frataxin/CyaY 0.56 43.0 3.74e-01 88.7% 87.6%
4py5A01 3.30.310.10 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › TATA-Binding Protein 0.55 48.0 4.62e-01 100.0% 100.0%
5ajiB02 2.30.30.60 Mainly Beta › Roll › SH3 type barrels. › 0.55 39.0 4.25e-01 75.8% 100.0%
2jkgA00 3.30.450.30 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Dynein light chain 2a, cytoplasmic 0.54 39.0 3.00e-01 79.0% 87.9%
4z3xA03 1.10.569.10 Mainly Alpha › Orthogonal Bundle › Aldehyde Ferredoxin Oxidoreductase Protein, subunit A; domain 2 › Aldehyde Ferredoxin Oxidoreductase Protein, subunit A, domain 2 0.54 45.0 3.33e-01 100.0% 34.9%
3udcA02 2.30.30.60 Mainly Beta › Roll › SH3 type barrels. › 0.54 40.0 4.30e-01 87.1% 100.0%
3j7aF03 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.54 40.0 3.91e-01 82.3% 83.1%
4jn3A01 3.30.559.10 Alpha Beta › 2-Layer Sandwich › Chloramphenicol Acetyltransferase › Chloramphenicol acetyltransferase-like domain 0.53 46.0 3.25e-01 100.0% 67.9%
3p34A02 3.30.1120.30 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › POLO box domain 0.53 41.0 3.61e-01 87.1% 66.0%
2ra9A02 2.30.270.10 Mainly Beta › Roll › duf1285 protein fold › duf1285 protein 0.53 39.0 3.77e-01 82.3% 76.7%
3deeA02 3.90.930.50 Alpha Beta › Alpha-Beta Complex › Outer Surface Protein A; domain 3 › 0.52 47.0 3.83e-01 100.0% 90.4%
2d0bA01 3.30.310.10 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › TATA-Binding Protein 0.52 39.0 3.59e-01 85.5% 67.4%
1zq1A01 2.30.30.520 Mainly Beta › Roll › SH3 type barrels. › 0.52 40.0 3.85e-01 88.7% 85.7%
1iwmA00 2.50.20.10 Mainly Beta › Clam › outer membrane lipoprotein receptor (LolB), chain A › Lipoprotein localisation LolA/LolB/LppX 0.52 40.0 2.97e-01 87.1% 72.9%
4i8oA01 3.30.310.240 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Bacterial toxin RNase RnlA/LsoA, N-terminal domain 0.52 41.0 3.75e-01 91.9% 95.5%
1vyhC01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.52 39.0 2.67e-01 90.3% 97.0%
5j3tA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.51 37.0 3.01e-01 79.0% 70.6%
4flnA02 3.20.190.20 Alpha Beta › Alpha-Beta Barrel › N-terminal domain of MutM-like DNA repair proteins › 0.51 39.0 3.13e-01 91.9% 82.2%
1h2iA01 3.30.390.80 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › DNA repair protein Rad52/59/22 0.51 37.0 2.87e-01 79.0% 65.5%
4gnxA00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.51 39.0 3.21e-01 82.3% 58.3%
3vn5A01 3.30.310.10 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › TATA-Binding Protein 0.50 39.0 3.84e-01 90.3% 85.5%
2uurA00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.50 42.0 2.90e-01 91.9% 63.8%
ECOD (59)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4345267 502.1.1.1 ↗ a+b two layers › Anti-LPS factor/recA domain › Anti-LPS factor/recA domain › Anti-LPS factor/recA domain › RecA_C 0.82 75.0 6.85e-01 100.0% 77.5%
3962196 502.1.1.0 ↗ a+b two layers › Anti-LPS factor/recA domain › Anti-LPS factor/recA domain › Anti-LPS factor/recA domain 0.82 71.0 6.87e-01 100.0% 85.7%
4650117 502.1.1.1 ↗ a+b two layers › Anti-LPS factor/recA domain › Anti-LPS factor/recA domain › Anti-LPS factor/recA domain › RecA_C 0.81 72.0 6.64e-01 100.0% 82.5%
None — 0.75 62.0 3.95e-01 93.5% 39.7%
None — 0.75 62.0 4.15e-01 93.5% 51.4%
4885816 375.1.1.10 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › tRNA-synt_1e 0.75 62.0 4.10e-01 93.5% 49.8%
5001837 2005.1.1.12 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › tRNA-synt_1e 0.74 62.0 4.04e-01 93.5% 48.9%
3730592 2005.1.1.7 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › tRNA-synt_1d 0.74 61.0 3.93e-01 93.5% 30.2%
None — 0.74 61.0 3.84e-01 93.5% 39.4%
None — 0.73 61.0 3.77e-01 95.2% 36.2%
4020807 2005.1.1.0 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains 0.71 59.0 3.80e-01 93.5% 30.7%
4192177 2005.1.1.0 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains 0.69 57.0 3.47e-01 93.5% 24.7%
4389484 2005.1.1.7 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › tRNA-synt_1d 0.69 56.0 3.69e-01 93.5% 33.0%
4312902 2005.1.1.0 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains 0.69 55.0 3.23e-01 91.9% 15.9%
4101712 2005.1.1.0 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains 0.68 55.0 3.45e-01 91.9% 24.8%
None — 0.68 55.0 3.23e-01 91.9% 15.9%
None — 0.68 55.0 3.21e-01 91.9% 15.9%
4044047 2005.1.1.0 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains 0.68 56.0 3.26e-01 93.5% 16.0%
None — 0.68 55.0 3.26e-01 93.5% 16.0%
4190615 2005.1.1.7 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › tRNA-synt_1d 0.67 55.0 3.64e-01 93.5% 31.8%
4477974 2005.1.1.7 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › tRNA-synt_1d 0.66 54.0 3.61e-01 93.5% 32.4%
3362575 2005.1.1.0 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains 0.66 54.0 3.19e-01 93.5% 16.1%
4383749 2005.1.1.7 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › tRNA-synt_1d 0.65 52.0 3.42e-01 93.5% 34.2%
3916950 292.2.1.1 ↗ a+b two layers › RIP/Polo-box domain › Polo-box domain › Polo-box domain › POLO_box 0.65 56.0 3.67e-01 98.4% 73.2%
4601711 2484.1.1.47 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › T2SSL 0.63 45.0 3.95e-01 75.8% 68.4%
4026981 101.1.9.0 ↗ alpha arrays › HTH › HTH › Putative DNA-binding domain 0.62 55.0 5.18e-01 100.0% 84.0%
3304140 4015.1.1.1 ↗ alpha complex topology › alpha-helical domain in sec1/munc18-like (SM) proteins › alpha-helical domain in sec1/munc18-like (SM) proteins › alpha-helical domain in sec1/munc18-like (SM) proteins › Sec1 0.62 50.0 3.44e-01 95.2% 60.8%
3993240 4015.1.1.1 ↗ alpha complex topology › alpha-helical domain in sec1/munc18-like (SM) proteins › alpha-helical domain in sec1/munc18-like (SM) proteins › alpha-helical domain in sec1/munc18-like (SM) proteins › Sec1 0.61 49.0 3.41e-01 95.2% 49.2%
3779781 109.4.1.1812 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › RYDR_ITPR, RIH_assoc 0.60 43.0 2.35e-01 75.8% 10.0%
5014724 295.1.1.51 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain › FtsQ_DivIB_C 0.60 41.0 3.55e-01 72.6% 52.0%
3594415 4015.1.1.0 ↗ alpha complex topology › alpha-helical domain in sec1/munc18-like (SM) proteins › alpha-helical domain in sec1/munc18-like (SM) proteins › alpha-helical domain in sec1/munc18-like (SM) proteins 0.59 49.0 3.47e-01 96.8% 48.6%
3912697 292.2.1.3 ↗ a+b two layers › RIP/Polo-box domain › Polo-box domain › Polo-box domain › Plk4_PB2 0.58 44.0 3.74e-01 83.9% 57.3%
4996887 3740.1.1.4 ↗ alpha arrays › F420-reducing hydrogenase subunit beta › F420-reducing hydrogenase subunit beta › F420-reducing hydrogenase subunit beta › FrhB_FdhB_C 0.57 48.0 3.19e-01 96.8% 84.0%
3936533 601.23.1.4 ↗ alpha bundles › Four-helical up-and-down bundle › DNA repair protein MutS, domain III › DNA repair protein MutS, domain III › MutS_IV, MutS_III 0.57 51.0 3.20e-01 100.0% 58.7%
3205290 109.26.1.1 ↗ alpha superhelices › Repetitive alpha hairpins › Nuclear pore complex component Nup133/Nup170/Nup157 C-terminal domains › Nuclear pore complex component Nup133/Nup170/Nup157 C-terminal domains › Nucleoporin_C 0.57 48.0 2.72e-01 100.0% 8.0%
4960747 305.2.1.1 ↗ a+b two layers › DCoH-like › Pterin-4a-carbinolamine dehydratase (PCD)/dimerization cofactor of HNF1 (DCoH) › Pterin-4a-carbinolamine dehydratase (PCD)/dimerization cofactor of HNF1 (DCoH) › Pterin_4a 0.55 40.0 3.60e-01 80.6% 89.5%
3516432 604.29.1.1 ↗ alpha bundles › Spectrin repeat-like › Trehalose-6-phosphate phosphatase N-terminal helical bundle › Trehalose-6-phosphate phosphatase N-terminal helical bundle › T6PP_N 0.55 34.0 2.86e-01 79.0% 37.1%
4952379 3740.1.1.4 ↗ alpha arrays › F420-reducing hydrogenase subunit beta › F420-reducing hydrogenase subunit beta › F420-reducing hydrogenase subunit beta › FrhB_FdhB_C 0.55 42.0 2.85e-01 87.1% 50.2%
3784476 70.3.1.0 ↗ beta barrels › beta-clip › SET domain-like › SET domain-like 0.55 46.0 3.02e-01 100.0% 20.0%
3772995 304.166.1.9 ↗ a+b two layers › Alpha-beta plaits › Nup54 ferredoxin-like domain › Nup54 ferredoxin-like domain › PF29949 0.55 44.0 3.54e-01 90.3% 71.2%
4356530 4237.1.1.1 ↗ beta barrels › FomD-like › FomD-like › FomD-like › DUF402 0.54 38.0 2.87e-01 77.4% 73.5%
3783976 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.54 37.0 3.31e-01 75.8% 50.0%
3594712 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.54 46.0 2.87e-01 100.0% 60.8%
3271961 109.4.1.2285 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PF29011, PF29088 0.52 37.0 2.27e-01 75.8% 15.8%
3557694 109.4.1.20 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › RYDR_ITPR 0.52 42.0 2.69e-01 90.3% 25.5%
3632599 226.1.1.1 ↗ a+b two layers › POZ domain › POZ domain › POZ domain › BTB 0.52 42.0 3.32e-01 100.0% 54.4%
4446833 2008.1.1.107 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › NERD 0.52 41.0 3.19e-01 90.3% 72.3%
3706910 304.48.1.0 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like 0.52 44.0 3.20e-01 100.0% 79.5%
4127270 71.1.1.3 ↗ beta meanders › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › LolB 0.52 40.0 2.92e-01 83.9% 71.3%
2507513 210.1.2.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Penicillin acylase, catalytic domain › Penicil_amidase 0.52 39.0 2.73e-01 82.3% 32.0%
1837476 331.1.1.6 ↗ a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like › DUF3378 0.52 42.0 4.10e-01 90.3% 100.0%
4978405 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.52 39.0 3.12e-01 83.9% 59.0%
4156758 4354.1.1.1 ↗ a+b two layers › TRCF domain › TRCF domain › TRCF domain › TRCF 0.52 44.0 3.55e-01 100.0% 63.8%
5057751 243.6.1.0 ↗ a+b two layers › Cystatin-like › Pre-PUA domain › Pre-PUA domain 0.51 34.0 3.17e-01 71.0% 88.2%
5075524 2484.1.1.302 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Cas12f1-like_TNB 0.51 39.0 2.78e-01 83.9% 65.1%
3295308 321.1.1.7 ↗ a+b two layers › Glutamine synthetase-like › Glutamine synthetase/guanido kinase › Glutamine synthetase/guanido kinase › GCS2 0.51 41.0 2.74e-01 90.3% 25.4%
3808127 7.1.1.7 ↗ beta barrels › PDZ domain › PDZ domain › PDZ domain › PDZ_3 0.51 39.0 3.20e-01 90.3% 77.0%
3373766 7.1.1.7 ↗ beta barrels › PDZ domain › PDZ domain › PDZ domain › PDZ_3 0.50 39.0 3.13e-01 91.9% 83.3%
3872932 109.4.1.20 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › RYDR_ITPR 0.50 40.0 2.37e-01 90.3% 15.0%