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IMGVR_UViG_2788499920_000001-2788499920-2788989452

Arc-Vir

IMGVR_UViG_2788499920_000001-2788499920-2788989452

Identity

Kingdom:
archaea

Quality

81.3 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 3-46
PDB
Domain cluster: representative
CATH (25)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2hjqA01 3.40.5.20 Alpha Beta › 3-Layer(aba) Sandwich › Ribosomal Protein L9; domain 1 › YqbF domain 0.79 62.0 6.22e-01 100.0% 87.0%
2wbmA03 3.30.70.240 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.66 53.0 4.76e-01 100.0% 90.0%
7csxA02 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.65 53.0 4.67e-01 100.0% 93.1%
2kt2A00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.64 52.0 4.67e-01 100.0% 91.3%
1fxrA00 3.30.70.20 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.60 48.0 4.44e-01 100.0% 90.6%
2xxpA02 3.40.630.190 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › LCP protein 0.59 48.0 3.04e-01 100.0% 19.7%
7uvpA02 3.30.70.870 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Elongation Factor G (Translational Gtpase), domain 3 0.58 44.0 4.08e-01 100.0% 97.1%
1zq1A02 3.40.50.1170 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › L-asparaginase, N-terminal domain 0.57 38.0 2.52e-01 70.5% 36.5%
4qclA02 3.30.70.2820 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.57 45.0 3.60e-01 100.0% 82.9%
3lpxB02 3.30.1360.40 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › 0.56 44.0 3.69e-01 100.0% 81.9%
4k4kA02 2.60.40.2630 Mainly Beta › Sandwich › Immunoglobulin-like › 0.56 44.0 3.38e-01 100.0% 95.3%
2y8yA02 3.30.70.1210 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Crispr-associated protein; domain 2 0.55 42.0 3.40e-01 100.0% 91.3%
3bwnD01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.55 41.0 3.04e-01 90.9% 40.3%
2ewlA00 3.30.160.330 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.55 40.0 3.76e-01 95.5% 64.3%
3g7kB02 3.10.310.10 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 0.55 40.0 2.78e-01 84.1% 71.3%
2f2hA03 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.54 38.0 3.83e-01 90.9% 79.2%
6jptA00 3.30.230.90 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › 0.54 39.0 2.99e-01 81.8% 77.7%
4lxjA01 1.10.630.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450 › Cytochrome P450 0.54 41.0 2.50e-01 95.5% 47.2%
2cjsA01 2.60.40.150 Mainly Beta › Sandwich › Immunoglobulin-like › C2 domain 0.53 41.0 3.05e-01 100.0% 78.4%
1t3uA01 3.30.160.880 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Cell division protein ZapA protomer, N-terminal domain 0.53 35.0 3.55e-01 95.5% 69.8%
4dguA02 2.60.40.2670 Mainly Beta › Sandwich › Immunoglobulin-like › 0.52 40.0 3.30e-01 100.0% 93.3%
4zgfA00 2.40.128.270 Mainly Beta › Beta Barrel › Lipocalin › 0.52 37.0 2.80e-01 81.8% 87.2%
4knuA02 2.60.40.420 Mainly Beta › Sandwich › Immunoglobulin-like › Cupredoxins - blue copper proteins 0.51 41.0 2.99e-01 100.0% 59.7%
2dulA01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.51 38.0 2.42e-01 90.9% 89.9%
1yb3A00 3.30.930.10 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › Bira Bifunctional Protein; Domain 2 0.50 37.0 2.80e-01 100.0% 54.5%
ECOD (33)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4981952 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.77 65.0 6.27e-01 100.0% 84.0%
4593896 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.77 63.0 6.26e-01 100.0% 91.1%
4939553 4076.4.1.0 ↗ a+b two layers › L9 N-domain-like › primase chain A, C-terminal domain › primase chain A, C-terminal domain 0.75 60.0 5.85e-01 100.0% 82.0%
4932061 4076.4.1.0 ↗ a+b two layers › L9 N-domain-like › primase chain A, C-terminal domain › primase chain A, C-terminal domain 0.75 61.0 6.12e-01 100.0% 93.3%
4934987 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.74 60.0 5.97e-01 100.0% 91.1%
3716713 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.74 64.0 6.17e-01 100.0% 88.0%
4967982 4076.4.1.0 ↗ a+b two layers › L9 N-domain-like › primase chain A, C-terminal domain › primase chain A, C-terminal domain 0.73 59.0 5.98e-01 100.0% 95.5%
5078669 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.73 62.0 5.72e-01 100.0% 88.1%
5068408 4076.4.1.0 ↗ a+b two layers › L9 N-domain-like › primase chain A, C-terminal domain › primase chain A, C-terminal domain 0.72 56.0 5.64e-01 100.0% 91.1%
5066664 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.71 57.0 5.76e-01 100.0% 93.3%
3592220 4076.1.1.0 ↗ a+b two layers › L9 N-domain-like › L9 N-domain-like › L9 N-domain-like 0.71 58.0 4.97e-01 100.0% 56.8%
3712471 4076.1.1.1 ↗ a+b two layers › L9 N-domain-like › L9 N-domain-like › L9 N-domain-like › Ribosomal_L9_N 0.70 57.0 5.05e-01 100.0% 60.9%
3595897 3529.1.1.0 ↗ beta sandwiches › Major vault protein (MVP) structural repeat domain › Major vault protein (MVP) structural repeat domain › Major vault protein (MVP) structural repeat domain 0.69 52.0 4.92e-01 100.0% 69.1%
5083883 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.69 52.0 5.24e-01 100.0% 86.7%
4031645 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.66 52.0 5.14e-01 100.0% 90.0%
5033467 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.64 49.0 4.93e-01 100.0% 89.6%
3593781 3529.1.1.0 ↗ beta sandwiches › Major vault protein (MVP) structural repeat domain › Major vault protein (MVP) structural repeat domain › Major vault protein (MVP) structural repeat domain 0.63 51.0 4.87e-01 100.0% 80.0%
5054941 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.61 48.0 3.67e-01 95.5% 85.0%
3348024 109.4.1.583 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › DNA_pol_phi 0.59 45.0 3.37e-01 100.0% 58.0%
3616199 304.102.1.4 ↗ a+b two layers › Alpha-beta plaits › Pseudouridine synthase › Pseudouridine synthase › TruB_N 0.57 46.0 2.96e-01 100.0% 46.5%
3838547 304.8.1.2 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT 0.57 45.0 3.96e-01 100.0% 84.8%
3762458 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.57 46.0 3.73e-01 100.0% 92.0%
3553551 4969.1.1.0 ↗ alpha bundles › thumb domain in bacteriophage RB69-like DNA polymerase I › thumb domain in bacteriophage RB69-like DNA polymerase I › thumb domain in bacteriophage RB69-like DNA polymerase I 0.57 46.0 3.76e-01 100.0% 96.8%
4489651 314.1.1.1 ↗ a+b three layers › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › tRNA-synt_2 0.56 41.0 2.46e-01 95.5% 20.2%
3626911 10.12.1.51 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › 2OG-FeII_Oxy_2 0.56 46.0 3.03e-01 100.0% 33.3%
1002449 3662.1.1.1 ↗ a+b two layers › Proteasome assembling chaperone 3 (PAC3)-related › Proteasome assembling chaperone 3 (PAC3)-related › Proteasome assembling chaperone 3 (PAC3)-related › PAC3 0.55 39.0 3.03e-01 81.8% 77.0%
4129961 304.102.1.6 ↗ a+b two layers › Alpha-beta plaits › Pseudouridine synthase › Pseudouridine synthase › TruB_N,TruB_C_2 0.54 40.0 2.78e-01 100.0% 51.5%
4002849 376.1.2.0 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › Cysteine-rich domain 0.53 36.0 3.66e-01 86.4% 73.3%
5069246 376.1.1.0 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box 0.52 35.0 3.44e-01 84.1% 62.0%
3826676 109.4.1.583 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › DNA_pol_phi 0.52 40.0 2.49e-01 100.0% 23.8%
3285877 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.52 39.0 2.53e-01 81.8% 36.0%
3499445 110.3.1.1 ↗ alpha arrays › DEATH domain › SLED domain › SLED domain › SLED 0.51 42.0 3.26e-01 100.0% 98.2%
4096635 2484.1.1.308 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › TNP-like_RNaseH_N, TNP-like_RNaseH_C 0.51 40.0 2.49e-01 97.7% 63.5%
D2 high residues 68-116
PDB
Domain cluster: representative
CATH (7)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3k8pC02 1.10.357.150 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › 0.72 61.0 4.17e-01 100.0% 28.4%
6xxvC00 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.63 48.0 3.86e-01 87.8% 82.0%
3akjA02 1.10.1070.20 Mainly Alpha › Orthogonal Bundle › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, Domain 5 › 0.62 50.0 3.47e-01 100.0% 75.6%
4l8iB00 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.61 47.0 3.74e-01 87.8% 82.1%
1kt1A03 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.59 46.0 3.42e-01 95.9% 41.8%
4rg9B01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.58 47.0 3.43e-01 100.0% 33.5%
1zk8B02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.52 41.0 3.24e-01 100.0% 70.5%
ECOD (6)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2988820 109.8.1.1 ↗ alpha superhelices › Repetitive alpha hairpins › Arp2/3 complex 16 KDa subunit ARPC5 › Arp2/3 complex 16 KDa subunit ARPC5 › P16-Arc 0.69 59.0 4.25e-01 100.0% 51.0%
3912386 150.3.1.1 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › 4-helical cytokines › 4-helical cytokine › Hormone_1 0.67 54.0 3.60e-01 91.8% 64.4%
5038668 4266.2.1.0 ↗ alpha bundles › Hyaluronidase domain-like › TTHA0068-like › TTHA0068-like 0.67 57.0 4.67e-01 95.9% 67.8%
4221151 150.3.1.8 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › 4-helical cytokines › 4-helical cytokine › EPO_TPO 0.65 51.0 3.61e-01 91.8% 71.0%
3863109 4044.1.1.16 ↗ alpha bundles › Helical bundle domain in prismane-like proteins › Helical bundle domain in prismane-like proteins › Helical bundle domain in prismane-like proteins › AMH_N 0.58 43.0 3.80e-01 87.8% 90.6%
4495561 2004.1.1.71 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › IPPT 0.52 43.0 2.86e-01 95.9% 38.9%