←Back to structures

IMGVR_UViG_3300014914_000854-3300014914-Ga0164311_1000258413

Arc-Vir

IMGVR_UViG_3300014914_000854-3300014914-Ga0164311_1000258413

Identity

Kingdom:
archaea

Quality

83.9 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 7-63
PDB
Domain cluster: representative
CATH (42)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2wweA01 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.74 58.0 4.70e-01 84.2% 49.0%
1rsgA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.73 52.0 3.39e-01 75.4% 76.3%
3luuA00 3.30.2020.30 Alpha Beta › 2-Layer Sandwich › NE0471 N-terminal domain-like › 0.71 48.0 4.15e-01 70.2% 82.0%
3au4A04 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.64 48.0 4.14e-01 84.2% 50.5%
4fk1A01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.63 54.0 3.76e-01 94.7% 96.8%
3rp7A01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.62 51.0 3.74e-01 94.7% 69.6%
3h27A00 3.50.50.100 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › 0.62 50.0 3.01e-01 89.5% 76.2%
4q66D01 6.20.120.50 Special › Other non-globular › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.61 48.0 4.36e-01 82.5% 98.6%
1ye8A00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.60 44.0 3.15e-01 77.2% 50.9%
7d8gA01 2.40.380.10 Mainly Beta › Beta Barrel › FomD barrel-like fold › FomD-like 0.60 43.0 3.07e-01 96.5% 25.7%
1gv4A02 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.60 41.0 2.91e-01 71.9% 78.9%
7o06C01 3.30.1470.10 Alpha Beta › 2-Layer Sandwich › Photosystem 1 Reaction Centre Subunit Ii; Chain: D; › Photosystem I PsaD, reaction center subunit II 0.59 45.0 3.89e-01 94.7% 52.7%
1rvjH02 3.90.50.10 Alpha Beta › Alpha-Beta Complex › Photosynthetic Reaction Center; Chain H, domain 2 › Photosynthetic Reaction Center, subunit H, domain 2 0.59 42.0 3.24e-01 75.4% 96.2%
3jyyA01 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.59 40.0 2.99e-01 70.2% 42.5%
6tuaA02 1.10.510.10 Mainly Alpha › Orthogonal Bundle › Transferase(Phosphotransferase); domain 1 › Transferase(Phosphotransferase) domain 1 0.59 42.0 2.95e-01 91.2% 23.0%
2la7A01 2.40.128.270 Mainly Beta › Beta Barrel › Lipocalin › 0.58 42.0 3.38e-01 80.7% 82.0%
3f42A00 3.30.1310.10 Alpha Beta › 2-Layer Sandwich › Ybab; Chain: A; › Nucleoid-associated protein YbaB-like domain 0.58 47.0 3.92e-01 100.0% 52.7%
2ra9A02 2.30.270.10 Mainly Beta › Roll › duf1285 protein fold › duf1285 protein 0.58 37.0 3.49e-01 73.7% 52.1%
2yztA00 3.30.160.250 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.58 42.0 4.02e-01 77.2% 75.8%
1hyuA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.57 48.0 3.39e-01 93.0% 99.5%
1aogA02 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.57 40.0 3.11e-01 73.7% 52.1%
6b4oA02 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.57 40.0 3.13e-01 73.7% 73.7%
1icwB00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.57 39.0 3.75e-01 71.9% 66.7%
1rypD00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.57 46.0 3.07e-01 91.2% 25.3%
2codA01 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.57 38.0 3.32e-01 71.9% 63.5%
5ygqA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.57 46.0 3.18e-01 94.7% 87.2%
3ab1B01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.56 45.0 3.16e-01 93.0% 88.7%
4hb9A01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.56 47.0 2.92e-01 100.0% 96.5%
1f44A01 1.10.443.10 Mainly Alpha › Orthogonal Bundle › hpI Integrase; Chain A › Intergrase catalytic core 0.55 46.0 3.22e-01 96.5% 47.9%
5xpyA02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.54 44.0 3.58e-01 94.7% 47.2%
2auwA01 3.30.2020.10 Alpha Beta › 2-Layer Sandwich › NE0471 N-terminal domain-like › NE0471-like N-terminal domain 0.53 36.0 3.26e-01 71.9% 91.5%
4py5A01 3.30.310.10 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › TATA-Binding Protein 0.53 39.0 3.70e-01 82.5% 80.6%
3havA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.53 39.0 3.39e-01 78.9% 69.7%
1s68A02 3.30.470.30 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › DNA ligase/mRNA capping enzyme 0.52 35.0 2.84e-01 91.2% 35.4%
1a2fA02 1.10.420.10 Mainly Alpha › Orthogonal Bundle › Peroxidase; domain 2 › Peroxidase, domain 2 0.51 36.0 2.94e-01 84.2% 36.4%
2lqoA00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.51 38.0 3.34e-01 80.7% 95.5%
4ld1A00 2.60.450.20 Mainly Beta › Sandwich › lipopolysaccharide transport protein A fold › 0.51 38.0 2.95e-01 87.7% 61.8%
3vn5A01 3.30.310.10 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › TATA-Binding Protein 0.51 35.0 3.41e-01 75.4% 78.3%
4by2B00 2.60.450.20 Mainly Beta › Sandwich › lipopolysaccharide transport protein A fold › 0.51 39.0 3.11e-01 98.2% 75.5%
3d0fA01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.50 34.0 3.22e-01 71.9% 95.9%
4z32A01 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.50 39.0 3.25e-01 87.7% 49.0%
1nijA01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.50 41.0 2.96e-01 100.0% 71.6%
ECOD (54)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
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 0.82 68.0 5.61e-01 91.2% 86.0%
5062937 719.2.1.1 ↗ beta barrels › XRCC4, N-terminal domain-like › NE0471 N-terminal domain-like › NE0471 N-terminal domain-like › GBBH-like_N 0.80 59.0 4.69e-01 78.9% 83.6%
3414375 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.76 51.0 3.89e-01 70.2% 80.5%
4997916 2484.1.1.124 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › OrfB_IS605 0.76 47.0 3.32e-01 82.5% 22.5%
3520270 101.35.1.5 ↗ alpha arrays › HTH › DNA repair regulatory protein RecX › DNA repair regulatory protein RecX › RecX_HTH1 0.73 51.0 4.15e-01 73.7% 67.6%
3601171 1021.1.1.0 ↗ a+b two layers › C-terminal domain in RNA helicases › C-terminal domain in RNA helicases › C-terminal domain in RNA helicases 0.71 60.0 5.28e-01 96.5% 62.4%
3604573 5.1.4.40 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › PQQ_2 0.71 55.0 3.13e-01 96.5% 7.8%
3219127 2003.1.2.130 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FMO-like, Pyr_redox_2, NAD_binding_8 0.69 47.0 2.73e-01 87.7% 8.5%
4176722 719.2.1.1 ↗ beta barrels › XRCC4, N-terminal domain-like › NE0471 N-terminal domain-like › NE0471 N-terminal domain-like › GBBH-like_N 0.67 48.0 3.98e-01 75.4% 88.0%
4027502 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.67 47.0 4.48e-01 73.7% 81.5%
4940177 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.65 45.0 4.22e-01 71.9% 60.0%
4013030 2003.1.2.16 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_3,NAD_binding_8 0.65 58.0 3.63e-01 100.0% 27.5%
3413910 220.1.1.2 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › WH1 0.65 55.0 4.12e-01 93.0% 40.7%
4288670 2003.1.2.15 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_3 0.63 57.0 3.48e-01 100.0% 21.8%
3187470 2003.1.2.15 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_3 0.63 55.0 3.56e-01 98.2% 43.1%
3381974 2003.1.2.47 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › NDH2_C 0.63 46.0 3.06e-01 77.2% 41.3%
5048050 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.63 50.0 3.12e-01 84.2% 45.3%
4389738 2003.1.2.11 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain 0.62 56.0 3.82e-01 100.0% 93.5%
4034336 4.8.1.13 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › ComK 0.62 49.0 3.75e-01 93.0% 36.6%
5055783 101.1.2.70 ↗ alpha arrays › HTH › HTH › winged helix domain › PqqD 0.61 46.0 3.93e-01 80.7% 75.6%
3994804 2003.1.2.12 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › DAO 0.61 44.0 2.81e-01 75.4% 65.1%
3773509 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.61 48.0 4.71e-01 82.5% 78.3%
4119657 3740.1.1.1 ↗ alpha arrays › F420-reducing hydrogenase subunit beta › F420-reducing hydrogenase subunit beta › F420-reducing hydrogenase subunit beta › FrhB_FdhB_N,FrhB_FdhB_C 0.61 55.0 3.48e-01 100.0% 28.1%
3454744 2003.1.3.1 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › Nucleotide-binding domain › DAO 0.61 44.0 2.60e-01 75.4% 85.5%
5001380 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.60 44.0 3.92e-01 77.2% 66.3%
3388785 109.1.1.11 ↗ alpha superhelices › Repetitive alpha hairpins › Glutathione S-transferase (GST)-C › Glutathione S-transferase (GST)-C › Arc1p_N_like 0.60 48.0 3.40e-01 84.2% 61.2%
3722079 2003.1.2.15 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_3 0.60 52.0 3.10e-01 94.7% 92.8%
5075725 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.60 49.0 3.59e-01 100.0% 34.5%
3944169 2003.1.2.24 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › Pyr_redox_2 0.60 41.0 2.91e-01 71.9% 69.7%
4944335 331.1.1.0 ↗ a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like 0.59 42.0 3.49e-01 73.7% 92.5%
4944767 101.1.2.883 ↗ alpha arrays › HTH › HTH › winged helix domain › Radical_SAM 0.59 42.0 3.88e-01 75.4% 93.3%
1179390 316.1.1.0 ↗ a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase 0.59 40.0 3.02e-01 70.2% 43.8%
4928472 101.1.2.70 ↗ alpha arrays › HTH › HTH › winged helix domain › PqqD 0.59 43.0 3.87e-01 78.9% 78.8%
4933326 101.1.2.70 ↗ alpha arrays › HTH › HTH › winged helix domain › PqqD 0.59 45.0 3.95e-01 84.2% 70.5%
3728847 2003.1.2.15 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_3 0.59 51.0 3.05e-01 100.0% 76.8%
3256843 220.1.1.8 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › GRAM 0.58 46.0 3.82e-01 87.7% 50.5%
4623924 2.1.1.9 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › Ribosomal_S4e 0.57 39.0 3.97e-01 70.2% 90.9%
4079351 2003.1.2.25 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain 0.57 47.0 3.23e-01 94.7% 83.0%
4032637 4.8.1.5 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like › LytTR 0.57 39.0 4.03e-01 71.9% 90.9%
3912274 1170.1.1.1 ↗ beta barrels › IL8-related › IL8-related › IL8 › IL8 0.57 45.0 4.22e-01 86.0% 100.0%
3798068 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.57 39.0 2.68e-01 73.7% 48.0%
3417244 220.1.1.64 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › FERM_C1_MyoVII 0.57 44.0 3.73e-01 87.7% 50.5%
5057417 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.56 40.0 3.58e-01 80.7% 53.0%
4440203 2.1.1.9 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › Ribosomal_S4e 0.56 40.0 3.94e-01 75.4% 83.3%
3291190 2003.1.2.15 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_3 0.55 48.0 3.14e-01 100.0% 73.2%
2805 101.1.8.1 ↗ alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase 0.54 45.0 3.48e-01 96.5% 65.7%
3256547 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.54 40.0 3.32e-01 89.5% 45.0%
1673883 3982.1.1.1 ↗ a+b complex topology › lantibiotic self-resistance lipoprotein MlbQ › lantibiotic self-resistance lipoprotein MlbQ › lantibiotic self-resistance lipoprotein MlbQ › DUF2511 0.54 42.0 3.42e-01 84.2% 50.5%
3450480 5.1.4.297 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40, NBCH_WD40 0.53 39.0 2.68e-01 84.2% 45.7%
3911547 1170.1.1.1 ↗ beta barrels › IL8-related › IL8-related › IL8 › IL8 0.52 43.0 3.78e-01 89.5% 87.1%
3782191 2003.1.5.26 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_28 0.51 42.0 2.52e-01 89.5% 57.5%
4985176 331.1.1.0 ↗ a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like 0.51 38.0 3.10e-01 80.7% 100.0%
4529120 2003.1.2.24 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › Pyr_redox_2 0.51 43.0 2.95e-01 98.2% 72.7%
4998989 3740.1.1.4 ↗ alpha arrays › F420-reducing hydrogenase subunit beta › F420-reducing hydrogenase subunit beta › F420-reducing hydrogenase subunit beta › FrhB_FdhB_C 0.50 40.0 2.65e-01 91.2% 96.7%