Back to structures

IMGVR_UViG_3300005977_000078-3300005977-Ga0081474_12090527

Arc-Vir

IMGVR_UViG_3300005977_000078-3300005977-Ga0081474_12090527

Quality

71.0 mean pLDDT

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 1-92
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF04138.21 best GtrA_DPMS_TM 30.5 5.00e-07 94.6% 71.8%
CATH (47)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4rfsS00 1.10.1760.20 Mainly Alpha › Orthogonal Bundle › Arp2/3 complex 21 kDa subunit ARPC3 › 0.76 69.0 5.37e-01 97.8% 60.4%
1fouA01 1.10.246.30 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › 0.73 47.0 5.26e-01 71.7% 82.4%
7eu3E01 1.10.287.3510 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.71 57.0 5.84e-01 90.2% 89.7%
1zoyD00 1.20.1300.10 Mainly Alpha › Up-down Bundle › 3 helical TM bundles of succinate and fumarate reductases › Fumarate reductase/succinate dehydrogenase, transmembrane subunit 0.68 53.0 5.17e-01 82.6% 74.5%
1qv9A02 6.10.140.120 Special › Helix non-globular › Helix Hairpins › 0.65 50.0 4.87e-01 82.6% 73.8%
4u72A01 1.20.58.480 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.64 50.0 3.73e-01 87.0% 34.2%
3nrhA00 1.20.120.1550 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Protein of unknown function DUF5063 0.63 49.0 4.09e-01 82.6% 50.6%
1dd5A01 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.61 55.0 5.18e-01 97.8% 97.2%
2jqqA00 1.20.58.1240 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.61 41.0 3.55e-01 78.3% 42.2%
6vudA01 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.61 54.0 5.13e-01 96.7% 94.5%
4m70I00 1.20.5.4130 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.61 45.0 4.27e-01 78.3% 100.0%
6m36O01 3.30.565.10 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain 0.60 45.0 4.50e-01 79.3% 77.1%
6r1nA01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.60 42.0 4.06e-01 72.8% 94.2%
2ix5A03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.59 42.0 3.53e-01 73.9% 84.5%
3rkgA02 1.20.58.340 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Magnesium transport protein CorA, transmembrane region 0.59 50.0 4.22e-01 96.7% 70.1%
2jifA03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.59 43.0 3.59e-01 76.1% 48.1%
2nrlA00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.58 51.0 4.36e-01 95.7% 89.7%
3r2cA00 1.10.940.10 Mainly Alpha › Orthogonal Bundle › N-utilizing Substance Protein B Homolog; Chain A › NusB-like 0.58 43.0 3.77e-01 87.0% 52.2%
2oerA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.58 49.0 3.98e-01 94.6% 75.4%
2b1eA02 1.20.1310.30 Mainly Alpha › Up-down Bundle › 5 helical Cullin repeat like › 0.58 48.0 4.10e-01 92.4% 84.1%
3f4mA00 1.20.1440.160 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › Tumor necrosis factor alpha-induced protein 8-like 0.57 49.0 4.18e-01 96.7% 59.7%
2e9xB02 1.20.58.1020 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.56 36.0 3.47e-01 98.9% 54.1%
3agtA00 1.20.120.50 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Hemerythrin-like 0.56 49.0 4.40e-01 98.9% 68.4%
8hk0B03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.55 40.0 3.47e-01 75.0% 53.6%
3f5cB00 1.10.565.10 Mainly Alpha › Orthogonal Bundle › Retinoid X Receptor › Retinoid X Receptor 0.55 45.0 3.64e-01 90.2% 94.5%
4xpwA00 1.20.120.50 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Hemerythrin-like 0.55 46.0 4.16e-01 94.6% 74.0%
2lquA01 1.20.1420.40 Mainly Alpha › Up-down Bundle › A middle domain of Talin 1 › Decorin-binding protein 0.54 45.0 3.83e-01 91.3% 66.2%
1o5hA00 1.20.120.680 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Formiminotetrahydrofolate cyclodeaminase monomer, up-and-down helical bundle 0.54 44.0 3.49e-01 91.3% 89.0%
1yw0A00 1.20.58.480 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.53 44.0 3.20e-01 88.0% 34.2%
6t0bc02 1.20.120.80 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Cytochrome c oxidase, subunit III, four-helix bundle 0.53 48.0 3.78e-01 100.0% 56.0%
2l3lA01 1.20.58.1250 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Tubulin Binding Cofactor C, N-terminal domain 0.53 41.0 3.99e-01 95.7% 73.6%
1nzeA00 1.20.120.290 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Oxygen-evolving enhancer protein 3 (PsbQ), four-helix up-down bundle 0.53 43.0 4.09e-01 92.4% 74.1%
1yxrA01 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.53 40.0 4.37e-01 90.2% 98.6%
2yx8A00 1.10.150.510 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Receptor activity modifying family 0.53 41.0 4.37e-01 95.7% 97.5%
3p4tA03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.53 43.0 3.65e-01 88.0% 66.0%
3o10C00 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.53 46.0 4.03e-01 95.7% 84.6%
5zw7A03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.52 42.0 3.61e-01 88.0% 66.4%
2i0mA01 1.20.58.220 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphate transport system protein phou homolog 2; domain 2 0.51 46.0 4.41e-01 97.8% 89.6%
3c18A02 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.51 43.0 4.00e-01 93.5% 74.6%
6grjB01 1.20.1170.10 Mainly Alpha › Up-down Bundle › Hemolysin E; Chain: A; › 0.51 45.0 3.19e-01 100.0% 94.9%
1qoyA00 1.20.1170.10 Mainly Alpha › Up-down Bundle › Hemolysin E; Chain: A; › 0.51 44.0 3.13e-01 97.8% 70.3%
1t72A01 1.20.58.220 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphate transport system protein phou homolog 2; domain 2 0.51 45.0 4.16e-01 98.9% 87.2%
4x28C03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.51 40.0 3.53e-01 87.0% 72.0%
2yevA03 1.20.120.80 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Cytochrome c oxidase, subunit III, four-helix bundle 0.51 45.0 3.60e-01 98.9% 69.6%
2khmA01 1.10.10.1350 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Spidroin domain, C-terminal domain 0.50 39.0 3.77e-01 85.9% 75.0%
2jbwA01 1.20.1440.110 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › acylaminoacyl peptidase 0.50 36.0 3.56e-01 87.0% 68.0%
5j1hA01 1.20.58.1060 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.50 43.0 3.48e-01 95.7% 85.2%
ECOD (50)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5063707 3843.1.1.0 alpha complex topology › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K › NADH-quinone oxidoreductase subunit K 0.81 66.0 7.08e-01 93.5% 100.0%
4937043 7516.1.1.2 a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Glycos_transf_2 0.79 64.0 4.19e-01 85.9% 22.0%
3698154 5076.1.1.0 alpha complex topology › Mitochondrial ADP/ATP carrier-like › Mitochondrial ADP/ATP carrier › Mitochondrial ADP/ATP carrier 0.72 54.0 3.90e-01 80.4% 54.2%
3334228 5076.1.1.1 alpha complex topology › Mitochondrial ADP/ATP carrier-like › Mitochondrial ADP/ATP carrier › Mitochondrial ADP/ATP carrier › Mito_carr 0.71 65.0 4.57e-01 100.0% 50.4%
3969497 3222.1.1.0 a+b complex topology › Regulatory domain of isocitrate dehydrogenase kinase/phosphatase › Regulatory domain of isocitrate dehydrogenase kinase/phosphatase › Regulatory domain of isocitrate dehydrogenase kinase/phosphatase 0.71 48.0 3.30e-01 72.8% 21.0%
4999330 604.12.1.135 alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › Oxidored_q2 0.70 61.0 5.95e-01 94.6% 88.0%
4165485 604.39.1.20 alpha bundles › Spectrin repeat-like › S-component of energy-coupling factor (ECF) transporters › S-component of energy-coupling factor (ECF) transporters › TrpP 0.70 62.0 5.01e-01 100.0% 57.8%
3720032 5058.1.1.0 alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region 0.68 52.0 4.76e-01 81.5% 75.0%
4949106 2007.1.3.74 a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › CheY-like › MetOD2 0.67 48.0 3.71e-01 75.0% 72.7%
3585753 142.1.1.0 alpha complex topology › Sigma2 domain-like › Sigma2 domain of RNA polymerase sigma factors › Sigma2 domain of RNA polymerase sigma factors 0.67 42.0 4.24e-01 73.9% 64.4%
5011909 5069.1.3.136 alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Fumarate reductase respiratory complex transmembrane subunits › MS_channel_1st 0.66 58.0 5.29e-01 94.6% 81.7%
4559675 5069.1.3.0 alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Fumarate reductase respiratory complex transmembrane subunits 0.66 58.0 5.44e-01 96.7% 79.6%
3666876 5058.1.1.0 alpha bundles › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region › Mechanosensitive channel protein MscS (YggB), transmembrane region 0.66 58.0 5.21e-01 98.9% 83.8%
4933282 3567.1.1.0 a+b duplicates or obligate multimers › MPER trimer › MPER trimer › MPER trimer 0.66 52.0 4.45e-01 87.0% 58.1%
3928270 604.33.1.0 alpha bundles › Spectrin repeat-like › Repulsive guidance molecule (RGM) N-terminal domain › Repulsive guidance molecule (RGM) N-terminal domain 0.63 49.0 4.89e-01 88.0% 81.1%
3592993 310.2.1.0 a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF 0.63 57.0 4.98e-01 98.9% 95.6%
3740294 3826.1.1.0 alpha bundles › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) › Copper-sensitive operon repressor (CsoR) 0.63 49.0 4.23e-01 84.8% 74.0%
3838243 601.19.1.0 alpha bundles › Four-helical up-and-down bundle › Apolipoprotein › Apolipoprotein 0.63 55.0 4.87e-01 98.9% 69.6%
3597824 3651.1.1.0 alpha bundles › Translation initiation factor eIF-2B delta subunit N-terminal helical domain › Translation initiation factor eIF-2B delta subunit N-terminal helical domain › Translation initiation factor eIF-2B delta subunit N-terminal helical domain 0.62 54.0 4.54e-01 97.8% 70.9%
5041595 5067.1.1.0 alpha bundles › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain › Multidrug efflux transporter AcrB transmembrane domain 0.61 54.0 4.16e-01 98.9% 75.6%
3963743 192.29.1.0 alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) 0.60 53.0 5.13e-01 98.9% 99.0%
3945095 601.33.1.0 alpha bundles › Four-helical up-and-down bundle › CHAD domain › CHAD domain 0.60 49.0 4.74e-01 91.3% 90.5%
4108871 1197.1.1.1 alpha bundles › Integral membrane glycerol 3-phosphate acyltransferase PlsY › Integral membrane glycerol 3-phosphate acyltransferase PlsY › Integral membrane glycerol 3-phosphate acyltransferase PlsY › G3P_acyltransf 0.60 53.0 3.97e-01 95.7% 64.1%
3402481 174.1.1.0 few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.59 54.0 4.81e-01 100.0% 83.8%
3637359 604.10.1.7 alpha bundles › Spectrin repeat-like › Enzyme IIa from lactose specific PTS, IIa-lac › Enzyme IIa from lactose specific PTS, IIa-lac › DUF202 0.59 53.0 5.19e-01 98.9% 99.0%
3882141 310.2.1.39 a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF › PF25974 0.59 52.0 4.85e-01 97.8% 96.5%
4505260 376.1.1.0 few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box 0.59 46.0 3.62e-01 82.6% 47.0%
3249527 601.1.1.0 alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin 0.58 45.0 3.97e-01 82.6% 68.1%
3170489 7558.1.1.11 a/b three-layered sandwiches › Glycerol-3-phosphate (1)-acyltransferase › Glycerol-3-phosphate (1)-acyltransferase › Glycerol-3-phosphate (1)-acyltransferase › Acyltransferase,Acyltransf_C 0.57 49.0 3.32e-01 93.5% 45.5%
5009844 601.7.1.3 alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain › PaREP1 0.57 45.0 3.79e-01 85.9% 68.8%
3486453 310.2.1.0 a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF 0.57 50.0 4.83e-01 97.8% 93.3%
5040194 5069.1.3.0 alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Fumarate reductase respiratory complex transmembrane subunits 0.57 50.0 4.89e-01 98.9% 94.0%
3958936 633.6.1.0 alpha bundles › Bromodomain-like › Acyl-CoA dehydrogenase C-terminal domain-like › Acyl-CoA dehydrogenase C-terminal domain-like 0.57 43.0 3.65e-01 78.3% 52.4%
4026849 150.1.1.0 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin 0.57 51.0 3.73e-01 100.0% 66.8%
4993505 601.7.1.0 alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain 0.56 44.0 4.11e-01 87.0% 81.7%
3704638 109.4.1.17 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Cullin 0.55 47.0 3.72e-01 96.7% 65.5%
3500773 3832.1.1.1 alpha bundles › Tumor necrosis factor alpha-induced protein 8-like protein 2 › Tumor necrosis factor alpha-induced protein 8-like protein 2 › Tumor necrosis factor alpha-induced protein 8-like protein 2 › DUF758 0.55 47.0 3.89e-01 96.7% 54.3%
3545594 109.4.1.256 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Insc_C 0.55 46.0 4.34e-01 98.9% 77.3%
4017640 604.1.1.0 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.55 47.0 4.52e-01 94.6% 86.1%
4020083 7015.1.1.0 alpha bundles › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain 0.54 43.0 3.73e-01 84.8% 64.3%
3706536 604.6.1.0 alpha bundles › Spectrin repeat-like › GAT-like domain › GAT-like domain 0.54 44.0 4.01e-01 90.2% 71.2%
3480514 604.12.1.0 alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.53 44.0 3.85e-01 92.4% 60.7%
3962320 601.7.1.0 alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain 0.53 45.0 4.18e-01 95.7% 96.7%
5071763 601.7.1.2 alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain › HEPN 0.53 44.0 3.72e-01 90.2% 83.7%
3320610 3291.1.1.0 alpha bundles › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related › Charged multivesicular body protein 3 (CHMP3)-related 0.53 44.0 4.00e-01 100.0% 84.3%
4937893 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 0.52 44.0 3.05e-01 97.8% 30.3%
3590053 633.21.1.0 alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107 0.52 43.0 4.48e-01 97.8% 94.1%
3740894 604.1.1.0 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.52 44.0 4.50e-01 94.6% 100.0%
3253634 604.12.1.1 alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › MIT 0.51 42.0 4.06e-01 96.7% 79.0%
4342803 604.12.1.0 alpha bundles › Spectrin repeat-like › MIT domain › MIT domain 0.51 43.0 4.04e-01 91.3% 77.3%