←Back to structures

IMGVR_UViG_3300019926_000031-3300019926-Ga0207284_100001044

Arc-Vir

IMGVR_UViG_3300019926_000031-3300019926-Ga0207284_100001044

Identity

Kingdom:
archaea

Quality

84.6 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 1-39
PDB
Domain cluster: representative
CATH (43)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2v1xA03 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.75 48.0 3.48e-01 100.0% 23.6%
6pqmA01 2.60.260.20 Mainly Beta › Sandwich › HSP40/DNAj peptide-binding domain › Urease metallochaperone UreE, N-terminal domain 0.70 53.0 4.60e-01 97.4% 52.4%
3bt7A02 2.40.50.1070 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.67 54.0 3.67e-01 94.9% 97.2%
7co7D03 2.30.42.10 Mainly Beta › Roll › Pdz3 Domain › PDZ domain 0.65 55.0 4.23e-01 100.0% 55.3%
7w6yA02 2.30.42.10 Mainly Beta › Roll › Pdz3 Domain › PDZ domain 0.65 53.0 4.36e-01 100.0% 63.0%
6ieoA03 2.30.42.10 Mainly Beta › Roll › Pdz3 Domain › PDZ domain 0.64 54.0 4.17e-01 100.0% 90.4%
3wkmB01 2.30.42.10 Mainly Beta › Roll › Pdz3 Domain › PDZ domain 0.63 52.0 4.10e-01 100.0% 73.4%
4wjmA00 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.62 45.0 2.67e-01 76.9% 36.2%
3fc7A00 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.62 49.0 3.85e-01 100.0% 50.0%
4bwxA03 1.10.287.3700 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.60 45.0 3.93e-01 100.0% 81.2%
1tgjA00 2.10.90.10 Mainly Beta › Ribbon › Cystine Knot Cytokines, subunit B › Cystine-knot cytokines 0.60 47.0 3.54e-01 94.9% 68.8%
2kqrA01 3.30.1910.20 Alpha Beta › 2-Layer Sandwich › so0334 like fold › asparaginyl-tRNA synthetase, N-terminal domain 0.60 45.0 3.89e-01 92.3% 78.4%
5cm2Z00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.60 46.0 3.12e-01 97.4% 47.8%
4ii2A04 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.60 45.0 2.89e-01 92.3% 49.1%
1e5pA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.59 50.0 3.46e-01 100.0% 26.8%
3vwoA02 2.10.70.40 Mainly Beta › Ribbon › Complement Module; domain 1 › peptidoglycan hydrolase 0.59 43.0 4.09e-01 84.6% 100.0%
2ecfA01 2.140.10.30 Mainly Beta › 8 Propeller › Methanol Dehydrogenase; Chain A › Dipeptidylpeptidase IV, N-terminal domain 0.59 45.0 2.56e-01 87.2% 13.0%
4gniA04 3.90.640.10 Alpha Beta › Alpha-Beta Complex › Actin; Chain A, domain 4 › ATPase, substrate binding domain, subdomain 4 0.58 45.0 3.78e-01 100.0% 77.9%
3dmgA02 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.58 42.0 2.81e-01 87.2% 27.8%
2e55A00 3.40.50.2020 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.57 44.0 2.97e-01 100.0% 93.8%
1auiA00 3.60.21.10 Alpha Beta › 4-Layer Sandwich › Purple Acid Phosphatase; chain A, domain 2 › Metallo-dependent phosphatases 0.57 42.0 2.57e-01 100.0% 67.5%
4l2iB00 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.57 42.0 2.61e-01 84.6% 50.2%
4ywzB00 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.57 44.0 3.16e-01 100.0% 44.5%
1i5eA00 3.40.50.2020 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.57 45.0 2.96e-01 100.0% 94.2%
2kjpA01 2.30.42.10 Mainly Beta › Roll › Pdz3 Domain › PDZ domain 0.56 43.0 3.73e-01 100.0% 73.4%
3ulpD00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.56 43.0 3.17e-01 84.6% 91.2%
3b42A00 3.30.450.290 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.56 45.0 3.30e-01 100.0% 54.0%
1l3iA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.56 41.0 2.71e-01 82.1% 94.6%
1v1qA00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.56 46.0 3.40e-01 97.4% 45.5%
3au0A01 2.60.40.1280 Mainly Beta › Sandwich › Immunoglobulin-like › 0.56 44.0 3.13e-01 100.0% 80.5%
1s7mA03 2.20.25.140 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › 0.56 36.0 3.75e-01 71.8% 82.1%
1efpB00 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.55 45.0 2.81e-01 94.9% 17.5%
1f2uB00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.55 39.0 2.78e-01 79.5% 20.0%
5vacA00 2.170.270.10 Mainly Beta › Beta Complex › Beta-clip-like › SET domain 0.55 48.0 2.99e-01 100.0% 89.3%
5mmiU01 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.54 41.0 3.49e-01 100.0% 84.1%
2it9A00 2.30.31.10 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › Transcriptional Coactivator Pc4; Chain A 0.54 47.0 3.32e-01 100.0% 69.2%
3f1yA00 3.90.550.10 Alpha Beta › Alpha-Beta Complex › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A 0.52 43.0 2.62e-01 100.0% 20.1%
3op6A00 3.90.960.10 Alpha Beta › Alpha-Beta Complex › YbaK protein › YbaK/aminoacyl-tRNA synthetase-associated domain 0.52 40.0 2.90e-01 100.0% 91.1%
4bq6F00 3.40.1000.10 Alpha Beta › 3-Layer(aba) Sandwich › Protein Transport Mog1p; Chain A › Mog1/PsbP, alpha/beta/alpha sandwich 0.52 35.0 2.52e-01 87.2% 19.5%
4yg6B00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.51 43.0 2.87e-01 100.0% 30.7%
2zyzB02 3.40.1350.10 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.50 39.0 3.17e-01 94.9% 45.3%
3emiA00 3.90.1780.10 Alpha Beta › Alpha-Beta Complex › Trimeric adhesin › Trimeric adhesin 0.50 33.0 2.49e-01 71.8% 20.9%
1d5aA01 3.30.342.10 Alpha Beta › 2-Layer Sandwich › DNA Polymerase; Chain A, domain 1 › DNA Polymerase, chain B, domain 1 0.50 39.0 2.77e-01 97.4% 57.0%
ECOD (52)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4974745 219.1.1.153 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › BtrH_N 0.79 63.0 4.01e-01 89.7% 25.8%
3588902 223.1.1.0 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains 0.75 64.0 4.43e-01 100.0% 44.3%
5016022 223.1.1.157 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains › sCache_3_3 0.69 56.0 3.94e-01 100.0% 34.3%
5060820 2484.1.1.18 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DDE_Tnp_1 0.68 49.0 2.81e-01 79.5% 31.3%
4958444 2004.1.1.1 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA 0.67 50.0 3.19e-01 82.1% 16.5%
3787728 7.1.1.0 ↗ beta barrels › PDZ domain › PDZ domain › PDZ domain 0.67 50.0 4.29e-01 87.2% 54.3%
3587898 101.1.2.214 ↗ alpha arrays › HTH › HTH › winged helix domain › DnaD_N 0.67 49.0 3.43e-01 71.8% 25.0%
3989015 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.67 49.0 3.52e-01 71.8% 28.6%
4965206 4221.1.1.3 ↗ a+b two layers › YkuJ-like › YkuJ-like › YkuJ-like › PF26008 0.66 52.0 4.48e-01 94.9% 55.7%
5015090 2004.1.1.156 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_5 0.66 48.0 2.87e-01 82.1% 10.2%
3509076 2003.1.9.1 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › Activating enzymes of the ubiquitin-like proteins › ThiF 0.65 49.0 2.89e-01 89.7% 10.1%
3698880 2003.1.9.1 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › Activating enzymes of the ubiquitin-like proteins › ThiF 0.64 48.0 2.92e-01 89.7% 12.1%
3230388 4308.1.1.1 ↗ a+b complex topology › YbiA-like › YbiA-like › YbiA-like › NADAR 0.62 46.0 2.92e-01 74.4% 28.2%
4988260 268.2.1.0 ↗ a+b two layers › Sterol carrier protein-like › LytR-Cps2A-Psr (LCP) enzymes › LytR-Cps2A-Psr (LCP) enzymes 0.62 50.0 3.25e-01 97.4% 25.6%
4044734 6076.1.1.1 ↗ alpha arrays › Catalytic cysteine domain in ubiquitin-activating enzyme › Catalytic cysteine domain in ubiquitin-activating enzyme › Catalytic cysteine domain in ubiquitin-activating enzyme › UBA_E1_SCCH 0.61 43.0 3.05e-01 84.6% 22.1%
3688440 390.1.1.0 ↗ few secondary structure elements › Hairpin loop containing domain-like › Hairpin loop containing domain-like › Hairpin loop containing domain-like 0.61 48.0 3.60e-01 92.3% 90.0%
5043001 101.1.2.135 ↗ alpha arrays › HTH › HTH › winged helix domain › MarR_2 0.61 40.0 3.04e-01 71.8% 25.7%
4930498 223.1.1.0 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains 0.61 47.0 3.74e-01 100.0% 61.0%
4029086 2003.1.9.1 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › Activating enzymes of the ubiquitin-like proteins › ThiF 0.61 46.0 2.56e-01 89.7% 6.0%
3924786 382.1.1.0 ↗ few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like 0.60 50.0 3.62e-01 100.0% 78.4%
5048761 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.60 40.0 3.42e-01 71.8% 38.6%
3958176 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.60 46.0 3.30e-01 94.9% 31.0%
3396305 394.1.1.0 ↗ few secondary structure elements › Invertebrate chitin-binding proteins › Invertebrate chitin-binding proteins › Invertebrate chitin-binding proteins 0.59 46.0 4.13e-01 94.9% 59.3%
3377656 207.1.1.137 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › LRR_1, LRR_4, LRR_8 0.59 43.0 2.42e-01 79.5% 27.4%
3381794 207.1.1.57 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › LRR_1,LRRNT_2,LRR_4,LRR_6,LRR_8 0.58 42.0 2.24e-01 79.5% 13.8%
3576281 391.1.2.1 ↗ few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › VWC domain-related › VWC 0.58 42.0 3.69e-01 92.3% 47.7%
3598651 219.1.1.0 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases 0.58 43.0 2.52e-01 84.6% 22.9%
3785947 101.1.2.111 ↗ alpha arrays › HTH › HTH › winged helix domain › RQC 0.57 43.0 3.07e-01 97.4% 24.8%
4943839 7573.1.1.4 ↗ a/b three-layered sandwiches › PRTase-like › PRTase-like › PRTase-like › UPRTase 0.57 44.0 2.95e-01 100.0% 95.3%
3348812 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.57 45.0 3.11e-01 92.3% 68.3%
5069226 267.1.1.3 ↗ a+b complex topology › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain › Cation_ATPase 0.57 41.0 2.39e-01 76.9% 18.8%
4505972 323.1.1.3 ↗ a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › AMP-binding 0.57 46.0 2.75e-01 97.4% 11.9%
3604405 2003.1.5.165 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_11, Methyltransf_23 0.56 41.0 2.71e-01 100.0% 67.5%
3299789 2004.1.1.26 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Kinesin 0.55 41.0 3.00e-01 94.9% 37.3%
3481511 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.54 43.0 3.63e-01 100.0% 49.3%
3313373 4276.1.1.0 ↗ a+b two layers › XisI-like › XisI-like › XisI-like 0.54 38.0 3.24e-01 82.1% 72.5%
3553091 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.54 41.0 2.64e-01 87.2% 22.0%
5036146 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.54 48.0 3.95e-01 100.0% 82.9%
4998663 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.54 45.0 3.15e-01 97.4% 66.2%
5041315 101.1.2.48 ↗ alpha arrays › HTH › HTH › winged helix domain › PadR 0.53 37.0 2.82e-01 71.8% 29.0%
3267673 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.53 39.0 3.38e-01 100.0% 76.5%
3938065 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.52 43.0 3.50e-01 94.9% 76.0%
4956652 2008.2.1.1 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › tRNA-intron endonuclease catalytic domain-like › tRNA-intron endonuclease catalytic domain-like › tRNA_int_endo 0.51 36.0 3.02e-01 87.2% 73.1%
3728321 267.1.1.3 ↗ a+b complex topology › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain › Cation_ATPase 0.51 38.0 2.44e-01 94.9% 19.2%
4946426 3241.1.1.0 ↗ alpha arrays › Golgi phosphoprotein 3 › Golgi phosphoprotein 3 › Golgi phosphoprotein 3 0.51 34.0 2.23e-01 79.5% 13.0%
4886802 12.1.1.3 ↗ beta sandwiches › Glycosyl hydrolase domain-like › Glycosyl hydrolase domain › Glycosyl hydrolase domain › Alpha-amylase_C 0.51 37.0 3.17e-01 92.3% 44.6%
3502651 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.51 35.0 3.32e-01 71.8% 52.0%
5010592 101.1.2.68 ↗ alpha arrays › HTH › HTH › winged helix domain › RNA_pol_Rpc34 0.51 46.0 3.21e-01 100.0% 43.3%
4591311 5084.5.3.1 ↗ beta barrels › Outer membrane meander beta-barrels › Porins › Ligand-gated protein channel › TonB_dep_Rec_b-barrel 0.51 37.0 2.05e-01 89.7% 15.8%
4976098 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.51 36.0 3.10e-01 79.5% 44.3%
4964272 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.51 41.0 3.02e-01 92.3% 66.7%
5054938 101.1.2.271 ↗ alpha arrays › HTH › HTH › winged helix domain › B-block_TFIIIC 0.50 42.0 3.07e-01 100.0% 61.3%