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MK291442.1__AZV00234.1__pkon1_p05__00005

Bact-Vir

MK291442.1__AZV00234.1__pkon1_p05__00005

Identity

Accession:
MK291442 ↗
Kingdom:
phage

Quality

82.1 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Paracoccus_phage_vB_PkoS_Pkon1

TaxID: 2500568

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 high residues 6-57
PDB
Domain cluster: representative
CATH (34)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2kumA01 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.65 51.0 5.04e-01 96.2% 82.5%
2a4vA01 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.64 53.0 3.98e-01 100.0% 81.1%
8eg0B01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.63 38.0 2.30e-01 71.2% 8.9%
2in3A01 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.62 48.0 4.36e-01 94.2% 98.8%
4m7xA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.60 45.0 3.85e-01 90.4% 48.4%
2dy1A01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.59 43.0 2.77e-01 80.8% 19.6%
3fehA02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.57 46.0 3.68e-01 100.0% 41.9%
2yt4A03 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.57 45.0 3.63e-01 98.1% 44.2%
5wjpA01 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.57 44.0 3.33e-01 94.2% 33.8%
2v14A00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.56 48.0 3.64e-01 98.1% 62.7%
6ui4A01 1.20.120.720 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Myosin VI head, motor domain, U50 subdomain 0.56 47.0 4.06e-01 98.1% 89.8%
2n8xA00 3.30.160.150 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Lipoprotein like domain 0.56 44.0 3.21e-01 92.3% 56.0%
2uvaG01 1.20.1050.120 Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › 0.56 38.0 2.97e-01 71.2% 27.9%
3rbtD01 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.56 42.0 3.37e-01 90.4% 64.0%
1e8oD00 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 44.0 4.05e-01 100.0% 65.8%
5da9A01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.55 45.0 2.81e-01 96.2% 15.3%
3sreA00 2.120.10.30 Mainly Beta › 6 Propeller › Neuraminidase › TolB, C-terminal domain 0.55 44.0 2.75e-01 92.3% 23.4%
3k6qA02 3.30.160.620 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.54 44.0 3.72e-01 98.1% 52.8%
4ntqB00 3.30.2450.20 Alpha Beta › 2-Layer Sandwich › Secreted effector protein pipB2 fold › 0.54 46.0 3.46e-01 100.0% 60.7%
3zm6A02 3.40.1190.10 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Mur-like, catalytic domain 0.54 45.0 3.05e-01 98.1% 50.7%
4oxwA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.54 43.0 3.64e-01 100.0% 84.9%
4cbvA02 2.40.50.1020 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › LytTr DNA-binding domain 0.53 45.0 3.55e-01 100.0% 56.8%
2l89A00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.53 42.0 3.57e-01 100.0% 66.7%
2dixA01 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.53 46.0 4.06e-01 100.0% 83.3%
2dmyA00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.53 39.0 3.31e-01 84.6% 44.3%
3napB00 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.53 44.0 2.89e-01 98.1% 20.6%
2zihC00 1.10.3630.10 Mainly Alpha › Orthogonal Bundle › yeast vps74-n-term truncation variant fold › yeast vps74-n-term truncation variant domain like 0.52 42.0 2.80e-01 100.0% 40.9%
1fxkB00 1.10.287.370 Mainly Alpha › Orthogonal Bundle › Helix Hairpins › 0.52 46.0 3.59e-01 100.0% 46.8%
4e1pA00 3.30.60.230 Alpha Beta › 2-Layer Sandwich › Wheat Germ Agglutinin (Isolectin 2); domain 1 › Lsr2, dimerisation domain 0.51 38.0 3.80e-01 86.5% 85.5%
2jveA00 2.10.60.10 Mainly Beta › Ribbon › CD59 › CD59 0.51 37.0 3.46e-01 82.7% 74.6%
5xrwA00 2.30.330.10 Mainly Beta › Roll › Surface presentation of antigens (SPOA) › SpoA-like 0.51 42.0 3.70e-01 92.3% 93.7%
2w3sA05 3.30.390.50 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › CO dehydrogenase flavoprotein, C-terminal domain 0.51 40.0 3.41e-01 100.0% 63.5%
3t2lA01 2.60.40.2620 Mainly Beta › Sandwich › Immunoglobulin-like › Fimbrillin-like 0.50 34.0 2.69e-01 75.0% 45.0%
3mk7C01 6.10.280.130 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.50 45.0 3.67e-01 100.0% 60.6%
ECOD (39)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3787064 7534.1.1.0 ↗ a/b three-layered sandwiches › Undecaprenyl diphosphate synthase › Undecaprenyl diphosphate synthase › Undecaprenyl diphosphate synthase 0.71 48.0 3.00e-01 100.0% 12.1%
3888868 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.68 57.0 4.37e-01 100.0% 40.8%
3978756 3197.1.1.1 ↗ a+b two layers › N-terminal domain of effector protein PipB2 › N-terminal domain of effector protein PipB2 › N-terminal domain of effector protein PipB2 › PipB2_N 0.67 48.0 3.67e-01 78.8% 33.3%
3394097 7502.1.1.0 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS 0.66 48.0 4.00e-01 90.4% 42.0%
3796100 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.64 54.0 3.99e-01 100.0% 34.7%
3166231 2003.1.1.51 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › DFP 0.64 49.0 3.50e-01 92.3% 26.8%
3388095 2003.1.1.51 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › DFP 0.64 51.0 3.55e-01 94.2% 26.5%
3411359 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.63 51.0 4.04e-01 98.1% 44.0%
5025231 2003.1.1.51 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › DFP 0.63 51.0 3.56e-01 96.2% 26.3%
4032084 220.1.1.76 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › bPH_2 0.63 52.0 4.45e-01 100.0% 58.9%
4564186 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.63 51.0 4.04e-01 100.0% 43.2%
3902875 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.61 47.0 4.44e-01 88.5% 70.8%
3750184 1170.1.1.1 ↗ beta barrels › IL8-related › IL8-related › IL8 › IL8 0.60 45.0 4.05e-01 88.5% 57.3%
3690970 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.60 43.0 2.60e-01 100.0% 12.6%
3862184 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.59 50.0 3.84e-01 100.0% 41.0%
4116396 2484.1.1.55 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › UvrC_RNaseH_dom 0.59 45.0 3.05e-01 88.5% 29.2%
5077887 304.139.1.2 ↗ a+b two layers › Alpha-beta plaits › Cas7-related › CRISPR-associated protein Cas7/Csa2-related › RAMPs 0.59 40.0 2.64e-01 71.2% 81.9%
3266642 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.58 47.0 3.56e-01 100.0% 34.8%
5022351 101.1.8.0 ↗ alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes 0.58 43.0 2.82e-01 100.0% 20.5%
3504365 633.23.1.38 ↗ alpha bundles › Bromodomain-like › Claudin › Claudin › TMEM127 0.58 48.0 3.16e-01 98.1% 21.3%
3730479 3991.1.1.2 ↗ alpha bundles › Rabin8 C-terminal domain › Rabin8 C-terminal domain › Rabin8 C-terminal domain › RAB3A-like_C 0.58 50.0 3.47e-01 100.0% 40.0%
4936961 220.1.1.76 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › bPH_2 0.58 46.0 4.09e-01 96.2% 60.0%
4022846 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.58 46.0 3.04e-01 86.5% 65.6%
5039029 220.1.1.76 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › bPH_2 0.57 47.0 3.99e-01 96.2% 57.8%
3286982 330.6.1.0 ↗ a+b two layers › dsRBD-like › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain 0.56 48.0 3.91e-01 100.0% 99.0%
3441980 11.1.4.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like 0.56 44.0 3.75e-01 96.2% 90.0%
3538203 358.1.1.0 ↗ a+b complex topology › SRCR-like › SRCR-like › SRCR-like 0.56 46.0 3.63e-01 94.2% 80.9%
3933919 220.1.1.176 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › DUF7778 0.56 43.0 3.43e-01 98.1% 39.3%
3787894 70.3.1.1 ↗ beta barrels › beta-clip › SET domain-like › SET domain-like › SET 0.56 38.0 2.28e-01 71.2% 31.5%
4947393 2.1.1.31 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › DNA_ligase_A_C 0.55 43.0 3.44e-01 88.5% 98.3%
3934401 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.55 42.0 3.43e-01 88.5% 83.6%
4968843 131.1.1.3 ↗ alpha complex topology › PDEase-like › HD-domain/PDEase-like › HD-domain/PDEase-like › HD 0.55 46.0 2.86e-01 100.0% 59.4%
3934686 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.55 43.0 3.75e-01 98.1% 65.3%
1489902 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.54 43.0 3.64e-01 100.0% 84.9%
3770527 358.1.1.1 ↗ a+b complex topology › SRCR-like › SRCR-like › SRCR-like › SRCR 0.52 41.0 3.32e-01 90.4% 76.4%
3406648 805.1.1.1 ↗ a+b complex topology › 5'-nucleotidase (syn. UDP-sugar hydrolase), C-terminal domain › 5'-nucleotidase (syn. UDP-sugar hydrolase), C-terminal domain › 5'-nucleotidase (syn. UDP-sugar hydrolase), C-terminal domain › 5_nucleotid_C 0.52 36.0 2.52e-01 80.8% 51.8%
4975762 101.1.8.1 ↗ alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase 0.51 44.0 3.38e-01 98.1% 84.8%
3278279 300.1.1.12 ↗ a+b three layers › Phospholipase D/nuclease › Phospholipase D/nuclease › Phospholipase D/nuclease › DUF5753 0.51 45.0 3.03e-01 98.1% 83.1%
2035461 3380.1.1.1 ↗ a+b duplicates or obligate multimers › Dimerization domain of Lsr2 › Dimerization domain of Lsr2 › Dimerization domain of Lsr2 › Lsr2 0.51 38.0 3.74e-01 86.5% 83.9%