←Back to structures

IMGVR_UViG_3300002481_000019-3300002481-JGI24020J35080_10022767

Arc-Vir

IMGVR_UViG_3300002481_000019-3300002481-JGI24020J35080_10022767

Identity

Kingdom:
archaea

Quality

69.2 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 high residues 3-82
PDB
Domain cluster: representative
CATH (35)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3cm1A00 2.30.31.20 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › Sporulation-specific cell division protein SsgB 0.68 60.0 5.07e-01 100.0% 77.9%
4ckmB00 2.170.210.20 Mainly Beta › Beta Complex › Dna Repair Protein Xrcc4; Chain: A, domain 1 › Spindle assembly abnormal protein 6, N-terminal domain 0.67 51.0 4.16e-01 80.0% 58.3%
1tkkA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.61 45.0 3.98e-01 77.5% 58.3%
3uc2A00 2.60.40.3340 Mainly Beta › Sandwich › Immunoglobulin-like › Domain of unknown function DUF4426 0.61 55.0 4.73e-01 100.0% 92.7%
3px5A01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.61 46.0 4.02e-01 78.8% 58.6%
2zadA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.61 43.0 3.81e-01 73.8% 86.0%
3cmbA00 2.40.400.10 Mainly Beta › Beta Barrel › Acetoacetate decarboxylase-like › Acetoacetate decarboxylase-like 0.61 46.0 3.29e-01 83.7% 75.1%
6ro0F00 2.40.50.110 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.60 42.0 3.95e-01 82.5% 59.2%
3ik4B01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.60 44.0 3.87e-01 77.5% 59.3%
4g79A00 2.170.210.20 Mainly Beta › Beta Complex › Dna Repair Protein Xrcc4; Chain: A, domain 1 › Spindle assembly abnormal protein 6, N-terminal domain 0.59 47.0 3.98e-01 86.3% 61.2%
3toyA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.58 42.0 3.67e-01 76.2% 82.7%
2oztA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.58 43.0 3.78e-01 78.8% 56.8%
3qwmA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.57 49.0 4.25e-01 98.8% 79.5%
1g7eA00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.56 42.0 3.68e-01 80.0% 84.4%
3iayA03 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.56 48.0 3.58e-01 96.2% 85.0%
2r76A00 3.30.160.150 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Lipoprotein like domain 0.56 41.0 3.48e-01 77.5% 79.5%
1mppA02 2.40.70.10 Mainly Beta › Beta Barrel › Cathepsin D, subunit A; domain 1 › Acid Proteases 0.56 40.0 3.09e-01 75.0% 74.9%
2gdqA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.56 40.0 3.68e-01 76.2% 60.7%
4n4rB00 3.30.160.150 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Lipoprotein like domain 0.55 40.0 3.30e-01 77.5% 71.5%
2qddA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.55 44.0 3.77e-01 87.5% 95.4%
3qfgA00 2.60.40.1240 Mainly Beta › Sandwich › Immunoglobulin-like › 0.54 46.0 3.88e-01 97.5% 93.1%
6kghA02 3.30.450.330 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.54 39.0 3.21e-01 77.5% 44.2%
4gxbA03 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.54 48.0 4.45e-01 100.0% 88.5%
3djcB01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.53 42.0 4.08e-01 93.8% 78.4%
3rcyB01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.52 45.0 3.78e-01 97.5% 90.1%
5iqlA00 2.60.40.1970 Mainly Beta › Sandwich › Immunoglobulin-like › YEATS domain 0.52 45.0 3.88e-01 97.5% 83.1%
2zgyA02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.52 41.0 3.47e-01 87.5% 87.9%
4fvmA03 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.52 43.0 3.19e-01 96.2% 85.5%
2i5tA00 3.10.490.10 Alpha Beta › Roll › Hypothetical upf0131 protein ytfp › Gamma-glutamyl cyclotransferase-like 0.52 44.0 3.58e-01 100.0% 74.0%
3ugvA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.51 43.0 3.68e-01 91.3% 96.8%
4h0pA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.51 45.0 3.36e-01 98.8% 66.7%
4it1B01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.51 44.0 3.59e-01 97.5% 98.7%
4bgjA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.50 40.0 3.72e-01 97.5% 72.0%
5xd7A01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.50 41.0 3.59e-01 91.3% 97.6%
3q45A01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.50 41.0 3.55e-01 90.0% 95.2%
ECOD (71)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3652009 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.75 49.0 4.16e-01 77.5% 41.5%
3865029 4292.2.1.0 ↗ a+b two layers › FlaG-like › MAGUK binding stalk (MBS) domain › MAGUK binding stalk (MBS) domain 0.66 48.0 4.72e-01 80.0% 70.6%
2067746 7579.1.1.6 ↗ a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › Abhydrolase_1 0.65 45.0 2.88e-01 72.5% 73.8%
4938125 896.1.1.0 ↗ a+b two layers › SRP9/14-like › Signal recognition particle alu RNA binding heterodimer SRP9/14-related › Signal recognition particle alu RNA binding heterodimer SRP9/14-related 0.65 44.0 4.34e-01 76.2% 65.9%
4557706 2484.1.1.174 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › UvrC_RNaseH 0.65 39.0 3.20e-01 100.0% 33.8%
4198933 7579.1.1.6 ↗ a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › Abhydrolase_1 0.63 44.0 2.83e-01 72.5% 71.4%
4963799 218.1.1.1 ↗ a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › MR_MLE_N 0.63 45.0 4.15e-01 75.0% 65.7%
4256745 4292.2.1.0 ↗ a+b two layers › FlaG-like › MAGUK binding stalk (MBS) domain › MAGUK binding stalk (MBS) domain 0.62 47.0 3.97e-01 80.0% 50.8%
3444325 2484.1.1.106 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DUF659 0.62 49.0 3.73e-01 85.0% 51.9%
2466355 4099.1.1.4 ↗ a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like › CENP-O 0.62 44.0 3.87e-01 75.0% 76.5%
3658323 284.1.2.1 ↗ a+b two layers › FKBP-like › FKBP-like › Conserved carboxy-terminal domain of oxidative-stress-responsive kinase 1-like kinases › OSR1_C 0.62 53.0 4.91e-01 100.0% 75.2%
3935471 4292.1.1.0 ↗ a+b two layers › FlaG-like › FlaG-related › FlaG-related 0.61 45.0 4.46e-01 81.2% 72.9%
4149725 218.1.1.1 ↗ a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › MR_MLE_N 0.61 45.0 3.93e-01 77.5% 55.8%
4305490 218.1.1.0 ↗ a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like 0.61 43.0 3.60e-01 73.8% 80.7%
339669 218.1.1.1 ↗ a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › MR_MLE_N 0.60 43.0 3.72e-01 73.8% 81.3%
3207612 206.1.3.10 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › CPSase_L_D2 0.60 48.0 3.62e-01 98.8% 36.3%
3581093 4292.2.1.0 ↗ a+b two layers › FlaG-like › MAGUK binding stalk (MBS) domain › MAGUK binding stalk (MBS) domain 0.60 43.0 4.34e-01 80.0% 75.0%
5000178 218.1.1.1 ↗ a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › MR_MLE_N 0.60 44.0 3.76e-01 77.5% 53.8%
4979306 295.1.1.0 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain 0.59 44.0 4.52e-01 77.5% 84.0%
3484248 4210.1.1.0 ↗ a+b two layers › WGR domain › WGR domain › WGR domain 0.59 46.0 4.04e-01 83.7% 60.8%
4934684 2484.1.1.18 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DDE_Tnp_1 0.59 45.0 3.92e-01 80.0% 78.3%
4927342 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.59 41.0 3.94e-01 77.5% 63.3%
5010084 304.136.1.0 ↗ a+b two layers › Alpha-beta plaits › Oligo-peptide binding protein (OPPA) insertion domain › Oligo-peptide binding protein (OPPA) insertion domain 0.59 43.0 3.48e-01 77.5% 80.0%
3439646 284.1.3.2 ↗ a+b two layers › FKBP-like › FKBP-like › WNK1 autoinhibitory domain › OSR1_C 0.58 49.0 4.53e-01 95.0% 72.4%
5046300 295.1.1.0 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain 0.58 43.0 4.22e-01 77.5% 80.0%
3439915 5.1.3.118 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › FBA_3 0.58 45.0 3.06e-01 83.7% 54.2%
4067862 2484.1.1.174 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › UvrC_RNaseH 0.57 43.0 3.81e-01 80.0% 77.4%
4177430 7520.1.1.1 ↗ a/b three-layered sandwiches › CinA-like › CinA-like › CinA-like › CinA 0.57 41.0 3.37e-01 77.5% 84.0%
4019656 220.1.1.211 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › DUF7612 0.57 49.0 4.22e-01 100.0% 90.4%
4444614 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.57 40.0 4.08e-01 76.2% 75.0%
145398 218.1.1.1 ↗ a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › MR_MLE_N 0.56 40.0 3.47e-01 75.0% 80.8%
5848 218.1.1.1 ↗ a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › MR_MLE_N 0.56 40.0 3.59e-01 76.2% 56.5%
3945348 243.1.1.6 ↗ a+b two layers › Cystatin-like › NTF2-like › NTF2-like › VirB8 0.56 38.0 3.57e-01 71.2% 80.0%
3288634 218.1.1.1 ↗ a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › MR_MLE_N 0.56 41.0 3.82e-01 77.5% 62.0%
4084862 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.56 45.0 4.26e-01 87.5% 86.3%
3385434 2484.1.1.261 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › PF27038 0.55 46.0 3.88e-01 92.5% 88.6%
4976545 11.1.5.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f 0.55 45.0 3.75e-01 88.7% 100.0%
4632586 218.1.1.0 ↗ a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like 0.55 40.0 3.74e-01 76.2% 65.0%
4030718 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.55 48.0 4.23e-01 98.8% 90.0%
3678038 2.1.1.76 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › REPA_OB_2 0.55 38.0 3.93e-01 80.0% 77.3%
4039156 2484.1.1.174 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › UvrC_RNaseH 0.55 42.0 3.82e-01 82.5% 63.6%
5031294 2484.1.1.22 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DUF99 0.55 48.0 3.65e-01 96.2% 42.7%
3683663 2484.1.1.106 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DUF659 0.55 39.0 2.68e-01 81.2% 21.5%
2123424 218.1.1.1 ↗ a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › MR_MLE_N 0.55 40.0 3.50e-01 81.2% 49.6%
5032255 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.54 36.0 3.83e-01 77.5% 78.6%
5030584 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.54 44.0 3.72e-01 91.3% 90.0%
3278704 4210.1.1.0 ↗ a+b two layers › WGR domain › WGR domain › WGR domain 0.54 45.0 4.60e-01 96.2% 93.8%
1174509 218.1.1.1 ↗ a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › MR_MLE_N 0.54 39.0 3.41e-01 76.2% 51.2%
1261179 218.1.1.1 ↗ a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › MR_MLE_N 0.54 39.0 3.14e-01 78.8% 38.3%
3765831 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.53 44.0 3.95e-01 97.5% 64.3%
4958777 2484.1.1.18 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DDE_Tnp_1 0.53 43.0 2.91e-01 88.7% 28.1%
3662984 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.53 37.0 3.65e-01 76.2% 68.2%
3945113 2484.1.1.13 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RNase_T 0.53 44.0 3.44e-01 92.5% 58.9%
4505972 323.1.1.3 ↗ a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › AMP-binding 0.53 39.0 2.67e-01 80.0% 21.6%
5053046 2484.1.1.22 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DUF99 0.53 47.0 3.63e-01 100.0% 62.2%
4680521 206.1.3.19 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › Dala_Dala_lig_C 0.53 46.0 3.32e-01 97.5% 51.3%
3437883 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.53 39.0 3.83e-01 77.5% 80.0%
4221376 2484.1.1.174 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › UvrC_RNaseH 0.52 39.0 3.40e-01 81.2% 80.0%
3927388 2484.1.1.107 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DDE_Tnp_IS1595 0.52 40.0 3.27e-01 87.5% 46.7%
3621723 5069.1.3.0 ↗ alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Fumarate reductase respiratory complex transmembrane subunits 0.52 43.0 3.08e-01 95.0% 34.4%
3781935 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.52 43.0 3.83e-01 97.5% 75.2%
3817801 2484.1.1.20 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_A_exo1 0.51 45.0 3.20e-01 100.0% 91.2%
3187807 7579.1.1.23 ↗ a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › PAF-AH_p_II 0.51 43.0 2.76e-01 100.0% 76.2%
3330582 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.51 37.0 3.20e-01 76.2% 55.2%
4939185 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.51 37.0 3.27e-01 77.5% 56.7%
3894481 277.1.1.5 ↗ a+b two layers › PX domain › PX domain › PX domain › Vps5 0.51 40.0 2.61e-01 86.3% 68.6%
4142339 4099.1.1.4 ↗ a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like › CENP-O 0.51 39.0 3.30e-01 83.7% 58.6%
3270887 244.2.1.1 ↗ a+b two layers › FAD-linked reductases, C-terminal domain-like › FAD/NAD-linked reduatases, dimerisation (C-terminal) domain › FAD/NAD-linked reduatases, dimerisation (C-terminal) domain › Pyr_redox_dim 0.50 34.0 3.08e-01 70.0% 82.6%
3580096 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.50 43.0 3.77e-01 98.8% 72.8%
4003463 220.1.1.168 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › Tmpp129 0.50 42.0 3.69e-01 95.0% 68.8%
4969580 2484.1.1.43 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Endonuclease_5 0.50 40.0 3.02e-01 91.3% 49.5%