Back to structures

AGF91225.1

Arc-Vir

JF974305__AGF91225.1__HAPG-00039__00039

Identity

Accession:
JF974305 ↗
Protein ID:
AGF91225.1 ↗
Kingdom:
archaea

Quality

81.2 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 medium residues 30-83
PDB
Domain cluster: representative
CATH (61)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2nn4A00 1.10.287.760 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › YqgQ-like 0.97 73.0 6.90e-01 81.5% 67.7%
2rldA00 1.20.1440.60 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 23S rRNA-intervening sequence 0.94 86.0 6.50e-01 98.1% 48.2%
2cazD00 6.10.140.820 Special › Helix non-globular › Helix Hairpins › 0.89 82.0 7.92e-01 100.0% 96.7%
1zmbA02 6.10.170.10 Special › Helix non-globular › Non-ribosomal Peptide Synthetase Peptidyl Carrier Protein; Chain A › 0.89 57.0 6.93e-01 74.1% 100.0%
3kd3A02 1.10.150.210 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Phosphoserine phosphatase; domain 2 0.88 57.0 5.46e-01 70.4% 60.0%
5c8aA01 1.10.1240.10 Mainly Alpha › Orthogonal Bundle › Methyltransferase, Methionine Synthase (B12-binding Domains); Chain A, domain 1 › Methionine synthase domain 0.86 72.0 6.31e-01 90.7% 64.1%
4oydB00 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.86 74.0 5.64e-01 94.4% 45.3%
2cazE00 1.20.1440.200 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › Vps28 N-terminal domain 0.85 75.0 6.11e-01 100.0% 56.4%
4kb2A01 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.84 73.0 5.77e-01 96.3% 51.4%
3fd9A03 1.10.287.1060 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › ESAT-6-like 0.83 75.0 6.76e-01 100.0% 76.7%
1wleA01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.83 74.0 5.76e-01 100.0% 58.8%
1dd5A01 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.82 72.0 5.72e-01 98.1% 51.4%
1cxzB00 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.82 72.0 6.17e-01 98.1% 82.6%
2qywA00 1.20.58.400 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › t-snare proteins 0.82 73.0 6.03e-01 100.0% 64.2%
3n5lA03 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.82 73.0 7.17e-01 96.3% 91.2%
3qo8A01 1.10.287.40 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Serine-tRNA synthetase, tRNA binding domain 0.81 73.0 5.80e-01 100.0% 52.8%
4aybA07 1.10.132.30 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › RNA polymerase Rpb1 funnel domain 0.81 71.0 5.45e-01 98.1% 78.3%
6lumD01 1.20.1300.10 Mainly Alpha › Up-down Bundle › 3 helical TM bundles of succinate and fumarate reductases › Fumarate reductase/succinate dehydrogenase, transmembrane subunit 0.81 71.0 5.38e-01 98.1% 47.2%
2g2dA00 1.20.1200.10 Mainly Alpha › Up-down Bundle › Hypothetical Protein Ta1238; Chain: A; › Cobalamin adenosyltransferase-like 0.80 65.0 4.59e-01 88.9% 32.5%
2y39A00 1.20.120.1490 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.80 72.0 5.64e-01 100.0% 73.6%
6vudA01 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.80 72.0 5.61e-01 98.1% 70.6%
5uh5D02 1.10.132.30 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › RNA polymerase Rpb1 funnel domain 0.80 68.0 4.94e-01 92.6% 73.2%
6xpdA01 1.20.1510.10 Mainly Alpha › Up-down Bundle › Alpha-lytic protease prodomain-like › Cation efflux protein transmembrane domain 0.79 69.0 4.65e-01 100.0% 28.2%
3ehfD01 1.20.5.1930 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.79 69.0 6.58e-01 100.0% 96.8%
2o5iN07 1.10.132.30 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › RNA polymerase Rpb1 funnel domain 0.79 71.0 5.45e-01 100.0% 93.1%
1yfmA01 1.10.275.10 Mainly Alpha › Orthogonal Bundle › Fumarase C; Chain B, domain 1 › Fumarase/aspartase (N-terminal domain) 0.78 65.0 4.88e-01 90.7% 40.5%
2wmmA01 1.20.5.420 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C 0.78 63.0 6.53e-01 98.1% 98.0%
1vx7301 1.10.287.310 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.77 66.0 5.94e-01 96.3% 73.0%
4mh6A00 1.10.287.1700 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.77 68.0 4.84e-01 100.0% 35.8%
3r84A00 1.10.287.3490 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.76 65.0 5.75e-01 100.0% 65.4%
3l9fA02 6.10.140.1570 Special › Helix non-globular › Helix Hairpins › 0.76 65.0 5.78e-01 100.0% 71.6%
1lvfB00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.75 66.0 5.37e-01 100.0% 54.8%
1z0pA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.75 67.0 6.04e-01 100.0% 86.3%
4gf0A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.75 64.0 5.11e-01 100.0% 62.8%
1e1dA02 1.20.1270.20 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.75 59.0 5.15e-01 96.3% 57.1%
4nb5B02 1.10.287.160 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HR1 repeat 0.75 65.0 6.22e-01 100.0% 92.2%
3zdmB00 1.20.5.420 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C 0.74 57.0 5.92e-01 98.1% 90.0%
2lmgA00 1.20.1270.10 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.74 58.0 5.31e-01 88.9% 67.6%
6t0bc01 1.10.287.70 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.73 62.0 5.52e-01 100.0% 66.7%
3layF00 1.20.120.1490 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.73 64.0 5.66e-01 100.0% 67.9%
1f45B00 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.73 60.0 4.52e-01 92.6% 40.6%
2etnB01 1.10.287.180 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Transcription elongation factor, GreA/GreB, N-terminal domain 0.73 61.0 5.57e-01 100.0% 77.6%
1yxrA01 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.72 61.0 5.57e-01 96.3% 74.3%
3a7mA01 1.20.58.380 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Flagellar protein flit. 0.72 62.0 4.94e-01 96.3% 48.2%
2gtsA00 1.10.287.850 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › HP0062-like domain 0.72 62.0 5.57e-01 100.0% 72.7%
4cqiA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.71 61.0 4.98e-01 100.0% 81.3%
3jcuZ00 1.10.287.740 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Photosystem II PsbZ, reaction centre 0.71 61.0 5.93e-01 100.0% 90.2%
3dytA02 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.70 58.0 4.10e-01 100.0% 32.1%
2jaeA03 1.20.1440.240 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 0.70 59.0 4.88e-01 96.3% 73.3%
7ymiZ01 1.10.287.740 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Photosystem II PsbZ, reaction centre 0.69 60.0 5.95e-01 100.0% 96.6%
5dn6J00 1.20.20.10 Mainly Alpha › Up-down Bundle › F1FO ATP Synthase › F1F0 ATP synthase subunit C 0.69 59.0 5.42e-01 100.0% 81.1%
3v9rB00 1.10.20.10 Mainly Alpha › Orthogonal Bundle › Histone, subunit A › Histone, subunit A 0.69 55.0 5.02e-01 87.0% 68.1%
3d36B02 1.10.287.130 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain 0.69 56.0 5.48e-01 96.3% 88.5%
3fblA00 1.20.58.800 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.68 54.0 4.81e-01 92.6% 59.8%
5b1oA00 1.10.287.130 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Signal transduction histidine kinase, dimerisation/phosphotransfer (DHp) domain 0.67 53.0 5.14e-01 94.4% 83.1%
4asvA00 1.20.5.420 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › Immunoglobulin FC, subunit C 0.67 50.0 4.53e-01 94.4% 58.2%
2yf4F00 1.10.3420.10 Mainly Alpha › Orthogonal Bundle › putative ntp pyrophosphohydrolase like fold › putative ntp pyrophosphohydrolase like domain 0.66 53.0 4.13e-01 100.0% 39.2%
3k3oA02 1.20.58.1360 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.64 55.0 4.77e-01 96.3% 67.9%
5t1dB00 3.10.390.20 Alpha Beta › Roll › SAND domain › Viral glycoprotein L 0.62 52.0 4.33e-01 96.3% 83.8%
2go7A02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.57 44.0 4.14e-01 85.2% 100.0%
3fkjA02 1.10.10.2240 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.53 37.0 3.54e-01 74.1% 82.8%
ECOD (40)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3455580 10.12.1.1 beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › cNMP_binding 0.98 88.0 5.43e-01 94.4% 22.0%
3539738 10.12.1.1 beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › cNMP_binding 0.94 83.0 5.26e-01 92.6% 23.1%
5036455 2004.1.1.5 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ABC_tran 0.94 83.0 5.02e-01 92.6% 17.2%
3842812 10.12.1.1 beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › cNMP_binding 0.94 85.0 5.46e-01 96.3% 24.7%
3725377 192.15.1.44 alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains › DUF6604 0.93 87.0 7.15e-01 100.0% 72.2%
3244203 192.15.1.3 alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains › Vps23_core 0.93 87.0 5.97e-01 100.0% 36.9%
3522496 192.15.1.3 alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains › Vps23_core 0.93 86.0 5.90e-01 100.0% 35.8%
3608528 192.15.1.3 alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains › Vps23_core 0.93 86.0 5.99e-01 100.0% 38.1%
4971062 192.15.1.0 alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains 0.92 86.0 7.20e-01 100.0% 65.9%
5043437 192.8.1.0 alpha bundles › Long alpha-hairpin › Eukaryotic DNA topoisomerase I, dispensable insert domain › Eukaryotic DNA topoisomerase I, dispensable insert domain 0.92 85.0 6.63e-01 100.0% 55.2%
3187917 192.15.1.3 alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains › Vps23_core 0.91 84.0 5.78e-01 100.0% 35.8%
3735404 192.15.1.3 alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains › Vps23_core 0.91 84.0 5.76e-01 100.0% 35.8%
3486312 192.7.1.0 alpha bundles › Long alpha-hairpin › tRNA-binding arm › tRNA-binding arm 0.91 84.0 6.30e-01 100.0% 49.6%
3374816 192.15.1.3 alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains › Vps23_core 0.90 83.0 5.57e-01 100.0% 31.9%
4947371 192.15.1.0 alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains 0.90 84.0 6.27e-01 100.0% 49.2%
5065070 192.15.1.3 alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains › Vps23_core 0.90 82.0 7.64e-01 98.1% 81.5%
3269863 246.2.1.1 a+b four layers › Carbon-nitrogen hydrolase-like › Metallo-dependent phosphatases › Metallo-dependent phosphatases › Metallophos 0.90 79.0 4.63e-01 96.3% 13.7%
4942387 632.7.1.66 alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain › DUF2304 0.89 76.0 5.89e-01 92.6% 45.5%
4008053 4168.1.1.7 alpha duplicates or obligate multimers › HAMP domain › HAMP domain › HAMP domain › PF26769 0.88 81.0 5.56e-01 100.0% 36.4%
3915925 5069.1.3.98 alpha bundles › Transmembrane heme-binding four-helical bundle › Transmembrane heme-binding four-helical bundle › Fumarate reductase respiratory complex transmembrane subunits › ARL6IP6 0.88 78.0 6.27e-01 96.3% 56.1%
3941435 601.4.1.0 alpha bundles › Four-helical up-and-down bundle › Histidine kinase associated sensor domains › Histidine kinase associated sensor domains 0.87 79.0 5.64e-01 100.0% 38.7%
3282520 325.1.7.0 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif 0.87 78.0 7.13e-01 98.1% 75.7%
4944710 604.5.1.82 alpha bundles › Spectrin repeat-like › PhoU-like (Pfam 01895) › PhoU-like (Pfam 01895) › TrkA_C 0.86 79.0 6.43e-01 100.0% 62.1%
4005270 3718.1.1.15 alpha bundles › Flagellar protein fliT › Flagellar protein fliT › Flagellar protein fliT › COX4_pro 0.86 77.0 6.30e-01 100.0% 55.8%
3720672 109.4.1.1591 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › U-box 0.84 72.0 4.46e-01 94.4% 18.9%
3742303 310.2.1.1 a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF › RRF 0.83 71.0 4.78e-01 94.4% 27.3%
3691750 376.1.1.8 few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › U-box 0.82 70.0 5.03e-01 94.4% 35.6%
3200626 310.2.1.1 a+b two layers › RRF/tRNA synthetase additional domain-like › Ribosome recycling factor, RRF › Ribosome recycling factor, RRF › RRF 0.82 72.0 4.81e-01 98.1% 28.0%
3723174 192.2.1.0 alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.82 73.0 6.57e-01 100.0% 78.7%
3975170 2485.1.1.6 a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like › FHIPEP 0.82 75.0 4.77e-01 100.0% 22.9%
3628378 192.15.1.0 alpha bundles › Long alpha-hairpin › Endosomal sorting complex assembly domains › Endosomal sorting complex assembly domains 0.81 73.0 5.12e-01 100.0% 48.5%
5076400 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 0.80 69.0 5.68e-01 94.4% 54.7%
3988447 5043.1.1.0 extended segments › Sensor proteins transmembrane domains › Htr2 transmembrane domain-like › Htr2 transmembrane domain-like 0.80 69.0 6.87e-01 94.4% 94.5%
3355246 192.1.1.0 alpha bundles › Long alpha-hairpin › GreA transcript cleavage protein, N-terminal domain › GreA transcript cleavage protein, N-terminal domain 0.78 71.0 6.15e-01 100.0% 72.5%
3252433 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.78 71.0 4.34e-01 100.0% 45.7%
3189978 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 0.76 66.0 5.08e-01 94.4% 45.2%
4980120 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 0.76 64.0 5.40e-01 94.4% 57.8%
3385053 5076.2.1.10 alpha complex topology › Mitochondrial ADP/ATP carrier-like › Putative sulfate permease CysZ › Putative sulfate permease CysZ › PF29520 0.72 61.0 3.88e-01 94.4% 20.4%
3608075 603.1.1.218 alpha bundles › STAT-like › t-snare proteins › t-snare proteins › Flagellar_rod 0.71 60.0 4.29e-01 100.0% 32.4%
3477418 4992.1.1.12 extended segments › RelB-like › RelB-like › RelB-like › LIN9_C 0.62 54.0 4.55e-01 100.0% 58.9%