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YP_009666072.1

Arc-Vir

NC_043427__YP_009666072.1__FK997-gp27__00027

Identity

Accession:
NC_043427 ↗
Protein ID:
YP_009666072.1 ↗
Kingdom:
archaea

Quality

90.3 mean pLDDT

Taxonomy

Spiraviridae› Alphaspiravirus› Alphaspiravirus_yamagawaense

TaxID: 1157339

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 5-56
PDB
Domain cluster: representative
CATH (53)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3rrkA01 3.30.70.2170 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.78 63.0 5.69e-01 100.0% 65.3%
1lfpA03 3.30.70.980 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › YebC, transcriptional regulation domain 0.76 50.0 4.46e-01 100.0% 47.9%
3anoA00 3.30.428.10 Alpha Beta › 2-Layer Sandwich › HIT family, subunit A › HIT-like 0.76 67.0 4.73e-01 100.0% 44.9%
2f1fA01 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.74 58.0 5.09e-01 100.0% 57.0%
7o4xA01 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.72 61.0 4.89e-01 100.0% 49.5%
6lxgA01 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.72 54.0 4.92e-01 100.0% 60.3%
5d4nC00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.71 63.0 5.05e-01 100.0% 52.0%
2cz4A00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.70 64.0 5.09e-01 100.0% 53.5%
2f06A00 3.30.2130.10 Alpha Beta › 2-Layer Sandwich › VC0802-like › VC0802-like 0.69 51.0 3.78e-01 100.0% 29.9%
3dmeA02 3.30.9.10 Alpha Beta › 2-Layer Sandwich › D-Amino Acid Oxidase; Chain A, domain 2 › D-Amino Acid Oxidase, subunit A, domain 2 0.67 57.0 4.15e-01 100.0% 35.3%
1b7yB06 3.30.70.380 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ferrodoxin-fold anticodon-binding domain 0.66 55.0 4.73e-01 100.0% 58.1%
3tm4A01 3.30.2130.30 Alpha Beta › 2-Layer Sandwich › VC0802-like › 0.66 54.0 3.70e-01 100.0% 25.4%
4y6iA00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.65 57.0 4.59e-01 100.0% 52.4%
2zomA00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.65 58.0 4.55e-01 100.0% 50.5%
5fiiB00 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.65 50.0 4.52e-01 100.0% 60.3%
3nycA02 3.30.9.10 Alpha Beta › 2-Layer Sandwich › D-Amino Acid Oxidase; Chain A, domain 2 › D-Amino Acid Oxidase, subunit A, domain 2 0.65 53.0 3.99e-01 100.0% 36.0%
2nuhA00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.65 56.0 4.51e-01 100.0% 51.9%
2z67A00 3.40.640.10 Alpha Beta › 3-Layer(aba) Sandwich › Aspartate Aminotransferase; domain 2 › Type I PLP-dependent aspartate aminotransferase-like (Major domain) 0.64 49.0 2.90e-01 84.6% 51.7%
6gdxA00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.64 55.0 4.44e-01 100.0% 49.5%
1b3mA02 3.30.9.10 Alpha Beta › 2-Layer Sandwich › D-Amino Acid Oxidase; Chain A, domain 2 › D-Amino Acid Oxidase, subunit A, domain 2 0.64 53.0 3.68e-01 100.0% 27.7%
4xcxA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.64 56.0 3.66e-01 100.0% 29.2%
2qndA02 3.30.1370.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 0.63 55.0 4.80e-01 100.0% 68.8%
3bn7A00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.63 54.0 4.42e-01 100.0% 54.9%
3d3sA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.62 54.0 3.85e-01 100.0% 33.3%
5xzqF00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.62 53.0 4.33e-01 100.0% 58.3%
1tr0A00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.62 53.0 4.28e-01 100.0% 56.6%
1d2gA02 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.62 54.0 3.67e-01 100.0% 28.2%
2lf0A02 3.30.1370.150 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › Uncharacterised protein PF10928, DUF2810 0.62 47.0 4.60e-01 100.0% 76.7%
2b4vA03 3.30.70.1970 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.62 47.0 3.83e-01 100.0% 44.4%
2ab5B01 3.10.28.10 Alpha Beta › Roll › Endonuclease I-creI › Homing endonucleases 0.61 47.0 3.64e-01 100.0% 35.9%
1i6uA01 3.30.1370.30 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › 0.61 43.0 4.11e-01 100.0% 61.8%
3m86A00 2.60.40.2020 Mainly Beta › Sandwich › Immunoglobulin-like › 0.61 49.0 3.91e-01 100.0% 43.2%
3qv2A01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.60 52.0 3.56e-01 100.0% 26.5%
2vfrA04 3.30.70.2520 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.60 52.0 4.33e-01 100.0% 60.6%
2olnA02 3.30.9.10 Alpha Beta › 2-Layer Sandwich › D-Amino Acid Oxidase; Chain A, domain 2 › D-Amino Acid Oxidase, subunit A, domain 2 0.60 50.0 3.59e-01 100.0% 34.3%
4krgA02 3.40.50.12180 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.58 49.0 3.36e-01 100.0% 31.2%
5je6A01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.58 45.0 3.03e-01 86.5% 31.8%
4e6nB00 3.30.1610.20 Alpha Beta › 2-Layer Sandwich › c-terminal autoproteolytic domain of nucleoporin nup98 › Hen1, N-terminal domain 0.57 48.0 3.23e-01 100.0% 23.4%
3douA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.57 42.0 2.96e-01 80.8% 63.4%
3vtiA03 3.90.870.40 Alpha Beta › Alpha-Beta Complex › DHBP synthase › 0.57 46.0 3.63e-01 100.0% 41.3%
3bb5A00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.57 46.0 3.87e-01 100.0% 56.3%
3pp9B00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.57 45.0 3.20e-01 100.0% 27.6%
2dhsA01 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.57 44.0 3.82e-01 100.0% 52.7%
5mmjh01 3.30.1370.30 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › 0.56 39.0 3.65e-01 100.0% 56.0%
2jc4A00 3.60.10.10 Alpha Beta › 4-Layer Sandwich › Deoxyribonuclease I; Chain A › Endonuclease/exonuclease/phosphatase 0.55 44.0 2.96e-01 100.0% 97.3%
5b7sB01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.54 40.0 3.17e-01 100.0% 34.1%
1r6yA00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.54 45.0 3.74e-01 100.0% 60.2%
2dnlA01 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.53 42.0 3.64e-01 100.0% 55.1%
1rjjA00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.53 42.0 3.48e-01 100.0% 50.5%
2ijrA01 3.30.70.1270 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Api92-like domains 0.52 38.0 3.19e-01 100.0% 42.3%
3ezjA02 3.30.1370.120 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › 0.52 38.0 3.66e-01 100.0% 66.2%
4oc9A02 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.51 44.0 3.27e-01 100.0% 48.9%
1mwqA00 3.30.70.1060 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Dimeric alpha+beta barrel 0.50 40.0 3.47e-01 100.0% 58.0%
ECOD (56)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4034601 304.56.1.4 ↗ a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like › PrmA 0.77 70.0 5.28e-01 100.0% 53.9%
3218711 304.8.1.2 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT 0.75 60.0 4.77e-01 100.0% 43.8%
5040343 304.8.1.2 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT 0.74 58.0 5.59e-01 100.0% 75.0%
3642698 304.8.1.2 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT 0.74 57.0 5.63e-01 100.0% 80.0%
4927015 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.74 60.0 5.25e-01 100.0% 60.0%
2038566 304.8.1.22 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › AHAS-like_ACT 0.73 57.0 4.93e-01 100.0% 54.2%
5052217 312.1.1.0 ↗ a+b three layers › HIT-like › HIT-related › HIT-related 0.71 65.0 4.08e-01 100.0% 31.8%
3285209 306.2.1.0 ↗ a+b two layers › Glucose permease domain IIB-like › arginine repressor C terminal domain-related › C-terminal domain of arginine repressor 0.69 58.0 5.30e-01 100.0% 74.0%
5081721 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.68 53.0 5.12e-01 100.0% 76.7%
3177488 304.8.1.1 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › Thr_dehydrat_C 0.67 57.0 4.69e-01 100.0% 52.6%
5000825 304.24.1.0 ↗ a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like 0.67 54.0 4.69e-01 100.0% 56.5%
5039114 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.66 50.0 4.83e-01 100.0% 73.3%
3673654 327.11.2.1 ↗ a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) › KH_1 0.66 56.0 4.68e-01 100.0% 60.0%
3643078 2003.1.3.1 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › Nucleotide-binding domain › DAO 0.65 54.0 3.57e-01 100.0% 22.0%
3181903 7516.1.1.69 ↗ a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Glyco_transf_92 0.64 49.0 3.09e-01 82.7% 86.2%
5015958 304.5.1.3 ↗ a+b two layers › Alpha-beta plaits › GlnB-like › GlnB-like › CutA1 0.64 56.0 4.50e-01 100.0% 51.0%
4936807 213.1.1.1 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.64 56.0 3.99e-01 100.0% 32.5%
4512625 2003.1.5.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases 0.63 55.0 3.51e-01 100.0% 29.0%
5012038 5067.1.1.4 ↗ alpha bundles › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain › MMPL 0.63 55.0 3.05e-01 100.0% 9.6%
3730042 304.4.1.0 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.63 53.0 4.20e-01 100.0% 50.4%
3197049 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.63 54.0 4.27e-01 100.0% 46.4%
3270465 213.1.1.25 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_3 0.62 47.0 3.30e-01 100.0% 24.3%
3470372 304.9.1.1 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_1 0.62 54.0 4.38e-01 100.0% 53.0%
3288140 304.44.1.0 ↗ a+b two layers › Alpha-beta plaits › Ribosomal protein S10 › Ribosomal protein S10 0.62 53.0 4.11e-01 100.0% 49.2%
4993583 242.1.1.0 ↗ a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases 0.62 53.0 4.09e-01 100.0% 43.3%
3593496 304.9.1.1 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_1 0.62 53.0 4.11e-01 100.0% 44.3%
4622394 213.1.1.1 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.62 53.0 3.76e-01 100.0% 31.5%
3718180 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.61 52.0 4.37e-01 100.0% 54.7%
4078912 213.1.1.1 ↗ a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.61 54.0 3.79e-01 100.0% 31.5%
3272167 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.61 51.0 3.22e-01 100.0% 18.8%
3786296 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.60 53.0 4.05e-01 100.0% 43.3%
4572272 242.1.1.0 ↗ a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases 0.60 47.0 3.69e-01 100.0% 39.2%
3576314 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.60 52.0 4.02e-01 100.0% 44.3%
3206162 306.3.1.1 ↗ a+b two layers › Glucose permease domain IIB-like › eIF1-like › eIF1-like › SUI1 0.59 49.0 3.86e-01 100.0% 41.6%
5001463 210.1.3.3 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_4 0.59 50.0 3.14e-01 100.0% 28.5%
3682155 304.9.1.46 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › PHM7_cyt 0.58 49.0 3.66e-01 100.0% 40.0%
3595338 10.12.1.0 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix 0.57 46.0 3.25e-01 100.0% 42.9%
1118244 321.4.1.1 ↗ a+b two layers › Glutamine synthetase-like › Methyltransferase type 12 N-terminal domain › Methyltransferase type 12 N-terminal domain › Hen1_L 0.57 48.0 3.23e-01 100.0% 23.4%
4018550 304.9.1.1 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_1 0.57 48.0 3.63e-01 100.0% 37.8%
4357374 320.2.1.1 ↗ a+b two layers › R3H domain-like › Ribosomal protein S8, N-terminal domain › Ribosomal protein S8, N-terminal domain › Ribosomal_S8 0.57 43.0 4.10e-01 100.0% 69.2%
3188973 2003.1.5.73 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_16 0.56 41.0 2.81e-01 84.6% 38.3%
3621702 327.11.2.30 ↗ a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) › DUF7636 0.56 46.0 3.79e-01 100.0% 51.4%
4361188 10.12.1.6 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › AIM24 0.56 42.0 2.76e-01 100.0% 18.8%
4126441 320.2.1.1 ↗ a+b two layers › R3H domain-like › Ribosomal protein S8, N-terminal domain › Ribosomal protein S8, N-terminal domain › Ribosomal_S8 0.55 39.0 3.87e-01 100.0% 71.7%
3234452 327.11.2.1 ↗ a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) › KH_1 0.55 49.0 4.10e-01 100.0% 63.3%
3290078 321.4.1.0 ↗ a+b two layers › Glutamine synthetase-like › Methyltransferase type 12 N-terminal domain › Methyltransferase type 12 N-terminal domain 0.54 46.0 2.68e-01 100.0% 10.7%
5013126 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.54 47.0 3.60e-01 100.0% 56.0%
5175 304.4.1.4 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › ABM 0.54 45.0 3.76e-01 100.0% 60.2%
3215100 327.11.2.30 ↗ a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) › DUF7636 0.54 44.0 3.67e-01 100.0% 50.5%
5075960 2003.1.5.80 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_24 0.53 46.0 3.05e-01 100.0% 23.8%
3682561 304.9.1.1 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_1 0.53 44.0 3.96e-01 100.0% 66.3%
4996595 5103.1.1.0 ↗ a/b three-layered sandwiches › Insert domain in hypothetical protein PF0380 › Insert domain in hypothetical protein PF0380 › Insert domain in hypothetical protein PF0380 0.53 43.0 3.47e-01 94.2% 51.8%
3940174 101.1.2.98 ↗ alpha arrays › HTH › HTH › winged helix domain › CDT1 0.51 40.0 2.83e-01 90.4% 41.6%
4029635 241.6.1.0 ↗ a+b two layers › Type III secretory system chaperone-like › Arp2/3 complex subunits › Arp2/3 complex subunits 0.51 42.0 3.24e-01 100.0% 39.9%
5165 304.4.1.3 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › YCII 0.50 40.0 3.47e-01 100.0% 58.0%
4387317 279.1.1.2 ↗ a+b complex topology › LDH C-terminal domain-like › LDH C-terminal domain-like › LDH C-terminal domain-like › Glyco_hydro_4C 0.50 40.0 2.52e-01 88.5% 20.7%