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OK274245.1__UCR91159.1__X__00004

Bact-Vir

OK274245.1__UCR91159.1__X__00004

Identity

Accession:
OK274245 ↗
Kingdom:
phage

Quality

92.6 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Autographivirales› Autotranscriptaviridae› Serkorvirus› Ralstonia_phage_RpT1

TaxID: 2878557

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 medium residues 1-52
PDB
Domain cluster: representative
CATH (17)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2w43A02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.70 49.0 4.80e-01 75.0% 71.9%
1is8A01 1.10.286.10 Mainly Alpha › Orthogonal Bundle › GTP Cyclohydrolase I; Chain A, domain 1 › GTP cyclohydrolase I, N-terminal domain 0.64 44.0 4.24e-01 71.2% 70.0%
1dp7P00 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 0.61 42.0 3.69e-01 71.2% 71.1%
3qwwA03 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.61 47.0 3.27e-01 88.5% 52.4%
1erdA00 1.10.10.190 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.60 32.0 3.54e-01 71.2% 62.5%
1qd1B02 3.30.70.670 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Formiminotransferase, C-terminal subdomain 0.59 36.0 2.64e-01 100.0% 22.1%
4glwA01 3.30.470.30 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › DNA ligase/mRNA capping enzyme 0.59 41.0 2.69e-01 73.1% 32.4%
1tafA00 1.10.20.10 Mainly Alpha › Orthogonal Bundle › Histone, subunit A › Histone, subunit A 0.58 39.0 3.61e-01 71.2% 54.4%
1ni5A02 1.20.59.20 Mainly Alpha › Up-down Bundle › Chorismate Mutase Domain, subunit A › 0.57 45.0 4.01e-01 100.0% 73.3%
2wocA00 1.10.4080.10 Mainly Alpha › Orthogonal Bundle › ADP-ribosylglycohydrolase fold › ADP-ribosylation/Crystallin J1 0.56 46.0 2.99e-01 100.0% 38.5%
2l2oA00 1.10.10.1540 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Costar domain 0.56 37.0 3.13e-01 100.0% 41.2%
1wtyA00 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.56 44.0 3.60e-01 96.2% 50.0%
2d8dB00 1.20.59.10 Mainly Alpha › Up-down Bundle › Chorismate Mutase Domain, subunit A › Chorismate mutase 0.55 37.0 3.31e-01 73.1% 45.8%
5u3fB01 3.30.470.10 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › Aminotransferase class 4, branched-chain amino acid transferase, N-terminal domain 0.53 45.0 3.35e-01 96.2% 53.6%
2xr1A03 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.53 36.0 2.35e-01 73.1% 18.9%
4dqnA01 3.30.470.10 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › Aminotransferase class 4, branched-chain amino acid transferase, N-terminal domain 0.52 44.0 3.18e-01 96.2% 47.5%
7xpcA01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.52 42.0 2.65e-01 96.2% 34.5%
ECOD (30)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4602458 4082.1.1.5 ↗ alpha duplicates or obligate multimers › Hairy Orange domain › Hairy Orange domain › Hairy Orange domain › PF27473 0.73 50.0 3.83e-01 71.2% 34.8%
4018216 210.1.1.2 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome,Proteasome_A_N 0.70 51.0 3.30e-01 78.8% 31.7%
4061974 3018.1.1.1 ↗ a+b two layers › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › TilS 0.66 56.0 4.76e-01 100.0% 68.9%
4303875 3018.1.1.0 ↗ a+b two layers › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like 0.64 54.0 4.59e-01 98.1% 64.4%
3403695 5054.1.1.0 ↗ alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels 0.63 48.0 3.78e-01 100.0% 36.8%
3729476 101.1.2.34 ↗ alpha arrays › HTH › HTH › winged helix domain › RFX_DNA_binding 0.62 42.0 3.25e-01 71.2% 47.0%
3883278 101.1.2.34 ↗ alpha arrays › HTH › HTH › winged helix domain › RFX_DNA_binding 0.62 42.0 3.44e-01 71.2% 56.8%
4963200 601.7.1.34 ↗ alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain › DUF4129 0.61 42.0 3.35e-01 71.2% 92.0%
4240325 3018.1.1.1 ↗ a+b two layers › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › TilS 0.60 49.0 4.29e-01 100.0% 68.9%
4659415 3018.1.1.1 ↗ a+b two layers › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › TilS 0.60 49.0 4.29e-01 100.0% 70.0%
4012878 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.59 41.0 3.19e-01 71.2% 33.0%
3975014 2007.1.3.12 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › CheY-like › VpsT-like_REC 0.59 42.0 3.05e-01 98.1% 24.5%
3750567 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.58 48.0 2.97e-01 100.0% 15.0%
4429100 3018.1.1.1 ↗ a+b two layers › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › MesJ substrate recognition domain-like › TilS 0.58 47.0 4.11e-01 100.0% 70.0%
3611775 108.1.1.0 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand 0.57 50.0 3.98e-01 100.0% 57.1%
3788346 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.57 47.0 2.72e-01 100.0% 9.0%
5052010 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.56 39.0 3.49e-01 75.0% 72.5%
54487 601.7.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain 0.56 44.0 3.59e-01 96.2% 50.4%
3519357 148.1.3.42 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › RCF1-5-like_lid 0.55 47.0 4.39e-01 96.2% 95.4%
3934535 103.11.1.0 ↗ alpha arrays › RuvA-C › RMI1 N-terminal helical domain-related › RMI1 N-terminal helical domain-related 0.55 42.0 4.14e-01 90.4% 91.7%
3167402 108.1.1.116 ↗ alpha arrays › EF-hand › EF-hand-related › EF-hand › SAGA-Tad1 0.55 42.0 3.63e-01 88.5% 77.8%
3619080 148.1.1.6 ↗ alpha arrays › Histone-like › Histone-related › Histone › TFIID-31kDa 0.55 37.0 2.93e-01 71.2% 30.8%
3802534 148.1.1.12 ↗ alpha arrays › Histone-like › Histone-related › Histone › Bromo_TP 0.54 41.0 3.20e-01 84.6% 40.0%
3738669 101.46.1.0 ↗ alpha arrays › HTH › Parafibromin N-terminal domain › Parafibromin N-terminal domain 0.54 38.0 3.06e-01 84.6% 35.7%
3289135 148.1.3.315 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › DUF5682 0.54 43.0 4.00e-01 100.0% 90.7%
4116764 101.1.2.840 ↗ alpha arrays › HTH › HTH › winged helix domain › PF29821 0.52 35.0 2.89e-01 73.1% 57.4%
3926386 148.1.3.19 ↗ alpha arrays › Histone-like › Histone-related › AAA+ ATPase lid domain › AAA_lid_3 0.51 43.0 3.77e-01 100.0% 82.4%
3580501 101.46.1.1 ↗ alpha arrays › HTH › Parafibromin N-terminal domain › Parafibromin N-terminal domain › CDC73_N 0.51 37.0 3.01e-01 84.6% 38.2%
3261136 2499.1.1.1 ↗ a/b three-layered sandwiches › Subtilisin-like › Subtilisin-like › Subtilisin-like › Peptidase_S8 0.51 42.0 2.59e-01 94.2% 63.8%
4023077 2499.1.1.0 ↗ a/b three-layered sandwiches › Subtilisin-like › Subtilisin-like › Subtilisin-like 0.50 40.0 2.68e-01 100.0% 40.0%
D2 medium residues 53-109
PDB
Domain cluster: representative
CATH (7)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3lyeA00 3.20.20.60 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Phosphoenolpyruvate-binding domains 0.63 56.0 3.56e-01 100.0% 30.5%
2o8pA00 1.20.190.20 Mainly Alpha › Up-down Bundle › Delta-Endotoxin; domain 1 › 14-3-3 domain 0.62 53.0 3.66e-01 100.0% 32.0%
4mk3A02 1.20.1050.10 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.61 53.0 4.27e-01 100.0% 80.9%
3l84A01 3.40.50.970 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Thiamin diphosphate (ThDP)-binding fold, Pyr/PP domains 0.58 45.0 2.89e-01 87.7% 39.4%
2bskE00 1.10.287.810 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › Mitochondrial import inner membrane translocase subunit tim13 like domains 0.53 36.0 3.53e-01 75.4% 65.1%
4c91A03 1.20.58.2150 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.52 42.0 3.09e-01 96.5% 41.9%
1e6cA00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.51 39.0 2.85e-01 89.5% 28.2%
ECOD (13)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3615241 75.1.1.1 ↗ beta barrels › Cyclophilin-like › Cyclophilin-like › Cyclophilin-like › Pro_isomerase 0.66 51.0 3.24e-01 84.2% 64.5%
3915342 189.1.1.2 ↗ alpha bundles › GTPase activation domain, GAP › GTPase activation domain, GAP › GTPase activation domain, GAP › RhoGAP 0.65 57.0 3.82e-01 100.0% 51.9%
None — 0.63 50.0 3.64e-01 87.7% 76.2%
3742725 207.1.1.0 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.61 52.0 3.20e-01 98.2% 19.3%
3576883 604.1.1.0 ↗ alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.60 46.0 3.93e-01 86.0% 86.0%
5070319 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.60 51.0 3.87e-01 98.2% 62.1%
4002118 5054.1.1.1 ↗ alpha complex topology › Voltage-gated ion channels › Voltage-gated ion channels › Voltage-gated ion channels › Lig_chan 0.59 42.0 3.16e-01 77.2% 47.3%
3194082 207.1.1.0 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.59 50.0 3.05e-01 98.2% 18.2%
4478603 603.1.1.0 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.55 47.0 3.86e-01 94.7% 92.4%
4468389 5086.1.1.101 ↗ alpha bundles › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › helical hairpin of HlyD-like secretion proteins › SH3BP5 0.54 39.0 3.07e-01 77.2% 87.5%
3692962 4156.1.1.3 ↗ alpha arrays › Sec63 N-terminal subdomain-like › Sec63 N-terminal subdomain-like › Sec63 N-terminal subdomain-like › DSHCT 0.52 41.0 3.38e-01 87.7% 80.0%
3502658 603.1.1.100 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins › PF27017 0.51 40.0 3.07e-01 89.5% 73.1%
2089746 129.1.1.46 ↗ alpha arrays › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › TYRAAT1_C 0.50 36.0 3.24e-01 78.9% 84.9%