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KY940711.1__ARQ95421.1__X__00189

Bact-Vir

KY940711.1__ARQ95421.1__X__00189

Identity

Accession:
KY940711 ↗
Kingdom:
phage

Quality

89.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Bradyrhizobium_phage_BDU-MI-1

TaxID: 1983459

Cluster

Singleton — not in a non-trivial cluster

3D Structure

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Domains

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

D1 high residues 13-105
PDB
Domain cluster: representative
CATH (10)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1xb2B01 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.65 34.0 4.04e-01 74.2% 76.7%
3ezqA00 1.10.533.10 Mainly Alpha › Orthogonal Bundle › Death Domain, Fas › Death Domain, Fas 0.60 44.0 4.07e-01 75.3% 93.0%
2w31A00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.55 43.0 3.65e-01 83.9% 89.5%
1b5lA00 1.20.1250.10 Mainly Alpha › Up-down Bundle › Growth Hormone; Chain: A; › 0.55 40.0 3.41e-01 77.4% 94.7%
7s0rB01 1.20.81.20 Mainly Alpha › Up-down Bundle › Receptor-associated Protein › 0.54 34.0 3.73e-01 100.0% 77.6%
4zvaA00 1.10.490.10 Mainly Alpha › Orthogonal Bundle › Globin-like › Globins 0.53 41.0 3.56e-01 83.9% 94.0%
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 0.52 44.0 3.46e-01 92.5% 82.5%
3if8B02 1.20.58.730 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.52 39.0 3.90e-01 100.0% 75.0%
2ccyA00 1.20.120.10 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Cytochrome c/b562 0.50 37.0 3.35e-01 94.6% 56.7%
4qgpB00 1.10.287.1080 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › MazG-like 0.50 34.0 3.34e-01 83.9% 61.7%
ECOD (5)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3589888 4275.1.1.0 ↗ alpha arrays › Hypothetical protein YqbG-like › Hypothetical protein YqbG-like › Hypothetical protein YqbG-like 0.63 41.0 4.15e-01 96.8% 67.8%
3649574 5059.1.1.0 ↗ alpha bundles › Drug/Metabolite transporter › Drug/Metabolite transporter › Drug/Metabolite transporter 0.59 37.0 3.54e-01 91.4% 54.1%
3619922 197.1.1.3 ↗ alpha bundles › Acyl-CoA binding protein-like › Acyl-CoA binding protein-like › Acyl-CoA binding protein-like › ACBP 0.57 46.0 4.34e-01 89.2% 93.0%
3648452 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.56 32.0 2.95e-01 86.0% 40.8%
4029600 603.1.1.0 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.54 38.0 3.30e-01 74.2% 74.0%
D2 high residues 143-193
PDB
Domain cluster: representative
CATH (27)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4ne4A01 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.78 67.0 4.65e-01 96.1% 92.8%
1qdmA03 1.10.225.10 Mainly Alpha › Orthogonal Bundle › NK-Lysin › Saposin-like 0.73 48.0 4.21e-01 70.6% 45.5%
2lklA01 1.10.1900.40 Mainly Alpha › Orthogonal Bundle › c-terminal domain of poly(a) binding protein › Acidic terminal segments, variant surface antigen of PfEMP1 0.71 60.0 5.50e-01 100.0% 95.8%
6h7bA01 1.10.1900.10 Mainly Alpha › Orthogonal Bundle › c-terminal domain of poly(a) binding protein › c-terminal domain of poly(a) binding protein 0.69 58.0 5.27e-01 100.0% 85.1%
3nbiA01 1.10.8.1020 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › RecQ-mediated genome instability protein 1, N-terminal domain 0.68 56.0 5.49e-01 100.0% 100.0%
1j09A04 1.10.8.70 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Glutamate-tRNA synthetase, class I, anticodon-binding domain 1 0.68 55.0 5.60e-01 94.1% 100.0%
6wshA02 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.66 48.0 4.76e-01 80.4% 85.5%
7r97A01 1.10.1520.10 Mainly Alpha › Orthogonal Bundle › Ribonuclease iii, N-terminal Endonuclease Domain; Chain A › Ribonuclease III domain 0.65 54.0 4.03e-01 100.0% 73.6%
1s8nA02 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.64 50.0 4.85e-01 88.2% 87.9%
1fc6A01 3.30.750.44 Alpha Beta › 2-Layer Sandwich › Transcription Regulator spoIIAA › 0.62 52.0 4.32e-01 98.0% 59.2%
2vy1A00 1.10.4180.10 Mainly Alpha › Orthogonal Bundle › Protein LEAFY › Protein LEAFY 0.62 52.0 3.79e-01 100.0% 68.7%
3ed5A02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.61 51.0 4.49e-01 100.0% 72.6%
1ichA00 1.10.533.10 Mainly Alpha › Orthogonal Bundle › Death Domain, Fas › Death Domain, Fas 0.59 43.0 3.81e-01 94.1% 50.6%
3o8jA02 1.10.230.10 Mainly Alpha › Orthogonal Bundle › Cytochrome p450-Terp; domain 2 › Cytochrome P450-Terp, domain 2 0.58 47.0 3.77e-01 88.2% 53.5%
2kruA01 1.10.8.550 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Proto-chlorophyllide reductase 57 kD subunit B 0.57 48.0 4.80e-01 98.0% 96.2%
2iw3A02 1.20.1390.20 Mainly Alpha › Up-down Bundle › PWI domain › 0.56 46.0 4.00e-01 100.0% 74.4%
1q5nA03 1.10.40.30 Mainly Alpha › Orthogonal Bundle › Ribonucleotide Reductase Protein R1; domain 1 › Fumarase/aspartase (C-terminal domain) 0.56 45.0 4.04e-01 100.0% 61.7%
2avuB00 1.10.4000.10 Mainly Alpha › Orthogonal Bundle › Flagellar transcriptional activator fold › Flagellar transcriptional activator FlhD 0.56 38.0 3.14e-01 72.5% 65.4%
1ltlA01 3.30.1640.10 Alpha Beta › 2-Layer Sandwich › mini-chromosome maintenance (MCM) complex, chain A, domain 1 › mini-chromosome maintenance (MCM) complex, chain A, domain 1 0.55 39.0 3.29e-01 74.5% 53.3%
1u9pA00 1.10.1220.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant › Met repressor-like 0.55 39.0 3.38e-01 82.4% 85.4%
1lkoA01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.53 46.0 3.39e-01 100.0% 85.5%
3v5uA01 6.10.280.80 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › NCX, peripheral helical region 0.53 36.0 3.08e-01 70.6% 100.0%
1fm2A00 1.10.439.10 Mainly Alpha › Orthogonal Bundle › Penicillin Amidohydrolase; domain 1 › Penicillin Amidohydrolase, domain 1 0.53 37.0 2.80e-01 78.4% 56.6%
2qgsB01 1.10.472.50 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › HD-domain/PDEase-like 0.53 45.0 3.80e-01 98.0% 97.7%
4me3A01 3.30.1640.10 Alpha Beta › 2-Layer Sandwich › mini-chromosome maintenance (MCM) complex, chain A, domain 1 › mini-chromosome maintenance (MCM) complex, chain A, domain 1 0.51 35.0 3.01e-01 76.5% 40.4%
1s3qG00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.51 45.0 3.16e-01 100.0% 81.6%
4qloA00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.51 40.0 2.47e-01 90.2% 36.7%
ECOD (27)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3254545 103.11.1.0 ↗ alpha arrays › RuvA-C › RMI1 N-terminal helical domain-related › RMI1 N-terminal helical domain-related 0.74 63.0 6.22e-01 100.0% 98.2%
4473190 304.8.1.53 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › GlnD_5th 0.73 63.0 4.37e-01 100.0% 29.7%
3460094 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.73 63.0 5.38e-01 100.0% 64.7%
4062262 304.8.1.65 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT, PF27446 0.73 61.0 4.48e-01 100.0% 35.3%
3376652 148.1.3.0 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain 0.71 60.0 4.90e-01 100.0% 55.0%
4585171 103.1.1.6 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain › RuvA_C 0.68 55.0 5.49e-01 100.0% 100.0%
4971986 3651.1.1.1 ↗ 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 › IF-2B 0.68 47.0 3.62e-01 72.5% 34.5%
3995291 103.1.1.0 ↗ alpha arrays › RuvA-C › RuvA-C, UBA, CRAL/TRIO-N, HBS1 › UBA-like domain 0.66 55.0 5.18e-01 100.0% 89.2%
3960463 103.12.1.0 ↗ alpha arrays › RuvA-C › ANTAR domain › ANTAR domain 0.66 52.0 4.95e-01 88.2% 83.3%
3649222 2004.1.1.23 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SNF2-rel_dom 0.63 42.0 2.58e-01 70.6% 10.7%
3627089 198.1.1.0 ↗ alpha arrays › Saposin-like › Saposin-like › Saposin-like 0.63 53.0 4.52e-01 92.2% 82.5%
3171073 145.1.1.3 ↗ alpha arrays › F-box domain › F-box domain › F-box domain › F-box-like 0.63 53.0 4.17e-01 100.0% 53.9%
4405860 103.4.1.0 ↗ alpha arrays › RuvA-C › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein 0.62 52.0 4.62e-01 96.1% 77.3%
3996790 103.4.1.6 ↗ alpha arrays › RuvA-C › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › Elongation factor TFIIS domain 2/ Kix domain of creb binding protein › EloA-BP1 0.61 49.0 4.43e-01 94.1% 77.3%
4117575 610.3.1.1 ↗ alpha arrays › ERP29 C domain-like › GatB/GatE C-terminal domain › GatB/GatE C-terminal domain › GatB_Yqey 0.61 49.0 3.47e-01 96.1% 29.1%
3279597 632.7.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain 0.59 49.0 3.95e-01 96.1% 85.7%
3220003 198.1.1.0 ↗ alpha arrays › Saposin-like › Saposin-like › Saposin-like 0.58 50.0 4.43e-01 98.0% 70.7%
3870171 192.17.1.0 ↗ alpha bundles › Long alpha-hairpin › Rabenosyn-5 Rab-binding domain-like › Rabenosyn-5 Rab-binding domain-like 0.56 38.0 3.46e-01 70.6% 68.6%
3213609 198.1.1.0 ↗ alpha arrays › Saposin-like › Saposin-like › Saposin-like 0.56 46.0 4.07e-01 94.1% 83.3%
119018 4953.1.1.2 ↗ beta barrels › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like › ADSL_C 0.55 45.0 3.84e-01 100.0% 57.9%
3387468 4953.1.1.2 ↗ beta barrels › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like › ADSL_C 0.55 44.0 3.93e-01 94.1% 67.5%
3971689 4953.1.1.0 ↗ beta barrels › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like 0.55 45.0 4.19e-01 100.0% 77.1%
3730771 4953.1.1.2 ↗ beta barrels › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like › ADSL_C 0.55 45.0 3.96e-01 100.0% 64.7%
3563272 375.1.1.202 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Tmemb_55A 0.55 37.0 3.63e-01 70.6% 98.2%
3606827 150.5.1.0 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › ESAT-6 like › ESAT-6 like 0.54 36.0 3.71e-01 70.6% 94.0%
198144 4953.1.1.2 ↗ beta barrels › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like › L-aspartase C-terminal domain-like › ADSL_C 0.53 42.0 3.72e-01 100.0% 64.0%
3995629 633.23.1.0 ↗ alpha bundles › Bromodomain-like › Claudin › Claudin 0.51 44.0 3.04e-01 96.1% 76.0%