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NC_024366.1__YP_009043658.1__PBI_OKIROE_57__00056

Bact-Vir

NC_024366.1__YP_009043658.1__PBI_OKIROE_57__00056

Identity

Accession:
NC_024366 ↗
Kingdom:
phage

Quality

66.6 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Kratiovirus› Mycobacterium_phage_OkiRoe

TaxID: 1486473

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 20-79
PDB
Domain cluster: rep: OQ938594.1__WIF20583.1__SEA_JFLIX2_93__00093__D4-46
CATH (42)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2kvtA00 3.30.730.30 Alpha Beta › 2-Layer Sandwich › GCC-box Binding Domain › YaiA protein 0.77 59.0 5.53e-01 81.7% 74.6%
4nswA02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.73 54.0 4.39e-01 83.3% 43.1%
2p97A00 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.70 35.0 2.38e-01 81.7% 13.4%
1txdA02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.70 54.0 4.24e-01 88.3% 41.3%
3k6qA02 3.30.160.620 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.69 53.0 4.66e-01 90.0% 56.2%
2rovA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.68 51.0 4.10e-01 81.7% 49.6%
1h10A00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.67 55.0 4.42e-01 95.0% 46.2%
2y7bA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.67 56.0 4.26e-01 90.0% 53.0%
2n3gA00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.67 49.0 4.66e-01 78.3% 69.4%
1zc3B00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.67 51.0 4.17e-01 88.3% 45.0%
2v14A00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.65 58.0 4.47e-01 100.0% 73.1%
6l4lA02 3.10.310.10 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 0.65 45.0 3.48e-01 73.3% 97.1%
2ltrA00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.61 46.0 3.88e-01 85.0% 46.7%
2innB00 1.10.620.20 Mainly Alpha › Orthogonal Bundle › Ribonucleotide Reductase, subunit A › Ribonucleotide Reductase, subunit A 0.61 50.0 2.99e-01 93.3% 39.4%
1x1fA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.60 52.0 3.97e-01 100.0% 53.7%
2lkoA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.60 44.0 3.41e-01 80.0% 35.5%
4h0oA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.59 40.0 2.87e-01 78.3% 23.6%
2dixA01 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.58 44.0 4.17e-01 88.3% 74.4%
4gxbA03 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.58 46.0 3.85e-01 88.3% 57.7%
1rm6A03 3.30.365.10 Alpha Beta › 2-Layer Sandwich › Aldehyde Oxidoreductase; domain 4 › Aldehyde oxidase/xanthine dehydrogenase, molybdopterin binding domain 0.58 40.0 3.16e-01 73.3% 78.0%
4oxwA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.57 45.0 3.80e-01 86.7% 84.9%
2lqkA00 2.40.10.170 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.57 41.0 4.00e-01 78.3% 67.1%
1y2mD01 1.10.275.10 Mainly Alpha › Orthogonal Bundle › Fumarase C; Chain B, domain 1 › Fumarase/aspartase (N-terminal domain) 0.57 34.0 2.37e-01 98.3% 16.4%
4hasA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.56 47.0 3.96e-01 93.3% 79.8%
2kumA01 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.56 40.0 4.15e-01 76.7% 80.7%
3rbtD01 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.56 39.0 3.19e-01 76.7% 63.2%
2dmyA00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.56 42.0 3.60e-01 80.0% 51.5%
2rajA02 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.56 46.0 3.67e-01 93.3% 72.2%
1fxkB00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.55 50.0 4.07e-01 100.0% 56.9%
6epkA02 3.30.67.10 Alpha Beta › 2-Layer Sandwich › Viral Envelope Glycoprotein; domain 2 › Viral Envelope Glycoprotein, domain 2 0.55 39.0 3.72e-01 75.0% 67.6%
1e8oA00 3.30.720.10 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › Signal recognition particle alu RNA binding heterodimer, srp9/1 0.55 40.0 3.77e-01 78.3% 64.9%
2giaA00 2.30.31.40 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › 0.55 43.0 3.24e-01 86.7% 86.4%
2zdiB00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.54 48.0 3.98e-01 100.0% 60.4%
5ucoA02 3.40.47.10 Alpha Beta › 3-Layer(aba) Sandwich › Peroxisomal Thiolase; Chain A, domain 1 › Thiolase/Chalcone synthase 0.54 42.0 3.07e-01 83.3% 36.6%
1l1oF01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.52 44.0 3.53e-01 98.3% 78.6%
4bndA01 3.40.50.1000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HAD superfamily/HAD-like 0.52 38.0 2.80e-01 76.7% 96.8%
3oqgA00 3.40.1440.50 Alpha Beta › 3-Layer(aba) Sandwich › GIY-YIG endonuclease › 0.52 40.0 2.90e-01 85.0% 59.1%
4pavB00 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.52 41.0 3.18e-01 86.7% 75.6%
3kbqB00 3.40.980.10 Alpha Beta › 3-Layer(aba) Sandwich › Molybdenum Cofactor Biosythetic Enzyme; Chain A › MoaB/Mog-like domain 0.51 39.0 2.84e-01 81.7% 97.0%
4ntqB00 3.30.2450.20 Alpha Beta › 2-Layer Sandwich › Secreted effector protein pipB2 fold › 0.51 41.0 3.26e-01 95.0% 57.2%
2xf4A00 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.51 35.0 2.49e-01 73.3% 58.6%
2nykA01 3.30.500.30 Alpha Beta › 2-Layer Sandwich › Murine Class I Major Histocompatibility Complex, H2-DB; Chain A, domain 1 › 0.50 38.0 3.00e-01 86.7% 90.5%
ECOD (61)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5004725 302.4.1.0 ↗ a+b two layers › Reverse ferredoxin › a+b domain in Acetophenone carboxylase (Apc) alpha subunit › a+b domain in Acetophenone carboxylase (Apc) alpha subunit 0.89 75.0 6.12e-01 90.0% 61.9%
5018724 872.3.1.0 ↗ a+b two layers › Dodecin subunit-like › YbjQ-like › YbjQ-like 0.89 73.0 6.10e-01 91.7% 54.7%
4007827 386.1.1.81 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › DUF1391 0.88 52.0 6.25e-01 75.0% 90.0%
3949260 4120.1.1.0 ↗ few secondary structure elements › Tim10/DDP › Tim10/DDP › Tim10/DDP 0.87 66.0 5.28e-01 86.7% 43.6%
5003371 302.4.1.0 ↗ a+b two layers › Reverse ferredoxin › a+b domain in Acetophenone carboxylase (Apc) alpha subunit › a+b domain in Acetophenone carboxylase (Apc) alpha subunit 0.85 66.0 5.79e-01 90.0% 57.6%
3654417 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.84 53.0 6.06e-01 71.7% 88.6%
4282578 386.1.1.1 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-C2H2 0.83 54.0 4.85e-01 73.3% 50.0%
3929173 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.79 59.0 5.18e-01 78.3% 69.4%
3482603 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.77 54.0 4.48e-01 76.7% 44.0%
3882657 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.75 60.0 4.95e-01 95.0% 49.5%
3224950 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.74 57.0 4.73e-01 95.0% 47.6%
3629491 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.72 50.0 5.27e-01 76.7% 80.0%
5039400 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.72 50.0 3.19e-01 73.3% 57.7%
3903260 109.4.1.2707 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PH_21 0.72 59.0 3.50e-01 95.0% 12.3%
3544618 4292.2.1.0 ↗ a+b two layers › FlaG-like › MAGUK binding stalk (MBS) domain › MAGUK binding stalk (MBS) domain 0.71 49.0 4.33e-01 71.7% 68.2%
3625596 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.71 56.0 5.06e-01 91.7% 63.7%
3777923 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.71 48.0 3.69e-01 70.0% 52.0%
3584264 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.70 56.0 4.45e-01 96.7% 42.4%
3882796 1021.1.1.2 ↗ a+b two layers › C-terminal domain in RNA helicases › C-terminal domain in RNA helicases › C-terminal domain in RNA helicases › RNA_hel_CTD 0.70 55.0 4.89e-01 96.7% 60.0%
3513564 386.1.1.1 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-C2H2 0.68 48.0 4.68e-01 73.3% 87.7%
3740759 4099.1.1.3 ↗ a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like › Spc24 0.67 46.0 4.62e-01 71.7% 81.7%
3906610 220.1.1.170 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_alsin 0.67 53.0 4.06e-01 90.0% 37.1%
3512851 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.67 59.0 4.52e-01 98.3% 47.4%
5015133 4100.1.1.9 ↗ a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › DUF7387 0.66 47.0 4.76e-01 83.3% 75.0%
3792405 206.1.1.0 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase 0.65 57.0 3.37e-01 100.0% 11.9%
3564088 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.65 48.0 3.96e-01 83.3% 43.6%
3299579 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.64 52.0 4.95e-01 88.3% 75.7%
3718300 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.64 48.0 4.51e-01 83.3% 66.7%
3708818 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.63 46.0 3.66e-01 76.7% 49.6%
3990213 220.1.1.7 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › IRS 0.63 50.0 4.26e-01 95.0% 53.0%
5059406 220.1.1.291 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › bPH_4 0.62 46.0 4.27e-01 83.3% 62.7%
3927894 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.61 53.0 4.14e-01 100.0% 65.9%
3619264 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.61 50.0 4.49e-01 95.0% 63.3%
4026577 252.2.1.1 ↗ a+b two layers › DNA-binding domain › GCC-box binding domain-like › GCC-box binding domain-like › AP2 0.61 45.0 4.73e-01 81.7% 89.1%
4959886 4100.1.1.0 ↗ a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like 0.60 41.0 4.26e-01 81.7% 76.4%
3967506 300.1.1.8 ↗ a+b three layers › Phospholipase D/nuclease › Phospholipase D/nuclease › Phospholipase D/nuclease › PLDc_2 0.59 41.0 2.71e-01 71.7% 75.4%
4942627 324.1.1.1 ↗ a+b two layers › OsmC-like › OsmC-like › OsmC-like › OsmC 0.58 49.0 3.77e-01 98.3% 46.7%
3518948 214.1.1.9 ↗ a+b two layers › SH2 › SH2 › SH2 › DUF7063 0.58 37.0 3.29e-01 75.0% 44.7%
3591633 1021.1.1.0 ↗ a+b two layers › C-terminal domain in RNA helicases › C-terminal domain in RNA helicases › C-terminal domain in RNA helicases 0.58 49.0 4.04e-01 96.7% 51.8%
5061930 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.57 42.0 3.73e-01 83.3% 51.6%
3505867 2.4.1.0 ↗ beta barrels › OB-fold › MOP-like › MOP-like 0.57 40.0 3.76e-01 75.0% 58.7%
3733718 4292.2.1.0 ↗ a+b two layers › FlaG-like › MAGUK binding stalk (MBS) domain › MAGUK binding stalk (MBS) domain 0.57 47.0 4.16e-01 90.0% 82.4%
3308710 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.57 40.0 3.79e-01 73.3% 68.6%
4959991 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.57 39.0 3.79e-01 73.3% 64.3%
3712081 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.57 49.0 4.09e-01 100.0% 69.1%
3579472 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.56 49.0 3.86e-01 100.0% 53.8%
3633449 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.56 49.0 3.55e-01 98.3% 77.1%
4017372 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.56 49.0 3.99e-01 100.0% 66.1%
60305 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.55 50.0 4.10e-01 100.0% 58.5%
3935332 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.55 49.0 3.80e-01 100.0% 47.7%
3228583 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.55 49.0 3.93e-01 100.0% 53.9%
3550136 192.2.1.1 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin_2 0.54 48.0 3.89e-01 100.0% 53.9%
3959539 3708.1.1.0 ↗ a+b three layers › ESX-1 secretion system protein eccB1 modular domains › ESX-1 secretion system protein eccB1 modular domains › ESX-1 secretion system protein eccB1 modular domains 0.54 40.0 4.29e-01 95.0% 92.5%
3593339 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.53 47.0 3.84e-01 100.0% 53.9%
3714703 1021.1.1.0 ↗ a+b two layers › C-terminal domain in RNA helicases › C-terminal domain in RNA helicases › C-terminal domain in RNA helicases 0.53 45.0 3.83e-01 96.7% 57.0%
4995786 3153.1.1.0 ↗ a+b two layers › PipX › PipX › PipX 0.53 40.0 3.58e-01 81.7% 87.1%
3406351 192.2.1.0 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin 0.53 43.0 3.57e-01 100.0% 50.0%
5001270 512.1.1.0 ↗ a+b two layers › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) 0.52 37.0 3.46e-01 80.0% 58.7%
4348096 3675.1.1.1 ↗ a+b complex topology › DNA gyrase subunit B insertion domain › DNA gyrase subunit B insertion domain › DNA gyrase subunit B insertion domain › GyrB_insert 0.52 41.0 2.99e-01 86.7% 65.5%
3820157 5.1.4.550 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Kelch_FKB95 0.51 34.0 2.53e-01 70.0% 67.0%
5076987 2004.1.1.308 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_21 0.50 39.0 2.44e-01 83.3% 39.0%