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MK937595.1__QDH92148.1__SEA_DUBU_43__00043

Bact-Vir

MK937595.1__QDH92148.1__SEA_DUBU_43__00043

Identity

Accession:
MK937595 ↗
Kingdom:
phage

Quality

51.5 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Dubuvirus› Streptomyces_phage_Dubu

TaxID: 2591226

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 218-297
PDB
D2 high residues 324-399
PDB
Domain cluster: representative
CATH (33)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
6oziB00 3.30.2170.10 Alpha Beta › 2-Layer Sandwich › archaeoglobus fulgidus dsm 4304 fold › archaeoglobus fulgidus dsm 4304 superfamily 0.74 61.0 4.28e-01 90.8% 80.1%
4nspA00 3.30.2170.10 Alpha Beta › 2-Layer Sandwich › archaeoglobus fulgidus dsm 4304 fold › archaeoglobus fulgidus dsm 4304 superfamily 0.73 60.0 4.23e-01 90.8% 79.0%
8b0qA01 3.30.420.340 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › UvrC, RNAse H endonuclease domain 0.70 60.0 4.58e-01 94.7% 64.8%
2w35A00 3.30.2170.10 Alpha Beta › 2-Layer Sandwich › archaeoglobus fulgidus dsm 4304 fold › archaeoglobus fulgidus dsm 4304 superfamily 0.69 57.0 4.05e-01 90.8% 77.6%
3i8bA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.67 55.0 3.69e-01 89.5% 97.2%
4o8uA00 3.30.420.440 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Protein of unknown function DUF4152 0.67 55.0 3.95e-01 92.1% 62.1%
3q0xA01 2.170.210.20 Mainly Beta › Beta Complex › Dna Repair Protein Xrcc4; Chain: A, domain 1 › Spindle assembly abnormal protein 6, N-terminal domain 0.66 48.0 3.79e-01 76.3% 61.9%
2hqsA01 3.40.50.10070 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › TolB, N-terminal domain 0.63 47.0 3.81e-01 100.0% 42.3%
4g79A00 2.170.210.20 Mainly Beta › Beta Complex › Dna Repair Protein Xrcc4; Chain: A, domain 1 › Spindle assembly abnormal protein 6, N-terminal domain 0.62 45.0 3.71e-01 75.0% 65.7%
7kx7A03 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.62 54.0 3.89e-01 96.1% 78.6%
3f6gA02 3.30.160.340 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.62 43.0 4.58e-01 72.4% 96.8%
2qdeA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.62 54.0 4.41e-01 96.1% 97.8%
1wr2A01 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.61 51.0 4.15e-01 97.4% 62.4%
4g3wA00 3.30.450.40 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › GAF domain 0.59 51.0 4.23e-01 98.7% 65.7%
4zfvB01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.59 48.0 3.64e-01 90.8% 93.6%
3mdqA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.58 48.0 4.10e-01 90.8% 91.9%
2zgyA02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.57 50.0 4.09e-01 97.4% 93.6%
3ndiA02 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.57 44.0 3.24e-01 100.0% 31.7%
1hjrA00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.57 47.0 3.78e-01 94.7% 94.9%
4hkqA04 3.10.20.370 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.56 45.0 4.51e-01 90.8% 94.7%
4gniA03 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.56 47.0 4.53e-01 96.1% 95.4%
4rv9A02 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.56 43.0 3.19e-01 100.0% 31.8%
4z9cB00 2.40.50.110 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.55 44.0 3.82e-01 100.0% 56.5%
2xzmZ00 3.30.1230.20 Alpha Beta › 2-Layer Sandwich › Hypothetical Cytosolic Protein; Chain: A; › Ribosomal protein S21 0.55 39.0 3.68e-01 88.2% 59.8%
1vwxr00 3.30.390.110 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › 0.55 44.0 3.79e-01 89.5% 56.8%
4gm6A00 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.54 38.0 2.57e-01 75.0% 21.6%
5w1eA01 3.30.450.40 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › GAF domain 0.53 46.0 3.55e-01 100.0% 70.6%
4xrtA02 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.53 38.0 3.14e-01 80.3% 81.9%
5aa5E00 1.10.645.10 Mainly Alpha › Orthogonal Bundle › Cytochrome-c3 Hydrogenase; chain B › Cytochrome-c3 Hydrogenase, chain B 0.53 42.0 2.52e-01 86.8% 96.4%
2la7A01 2.40.128.270 Mainly Beta › Beta Barrel › Lipocalin › 0.53 42.0 3.56e-01 88.2% 79.7%
3it8D01 3.30.500.10 Alpha Beta › 2-Layer Sandwich › Murine Class I Major Histocompatibility Complex, H2-DB; Chain A, domain 1 › MHC class I-like antigen recognition-like 0.52 46.0 3.53e-01 100.0% 92.8%
4ckmB00 2.170.210.20 Mainly Beta › Beta Complex › Dna Repair Protein Xrcc4; Chain: A, domain 1 › Spindle assembly abnormal protein 6, N-terminal domain 0.52 45.0 3.73e-01 100.0% 54.9%
4ckbD03 2.40.50.830 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.52 44.0 3.75e-01 100.0% 85.1%
ECOD (54)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4945290 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.76 52.0 5.77e-01 100.0% 90.0%
3429580 2484.1.1.43 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Endonuclease_5 0.75 61.0 4.77e-01 88.2% 68.8%
3837099 2484.1.1.43 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Endonuclease_5 0.74 62.0 4.26e-01 90.8% 74.5%
4106254 2484.1.1.37 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Pan_kinase 0.74 63.0 5.23e-01 90.8% 88.8%
4371406 2484.1.1.55 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › UvrC_RNaseH_dom 0.72 60.0 4.54e-01 90.8% 80.0%
4182115 2484.1.1.55 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › UvrC_RNaseH_dom 0.72 60.0 4.65e-01 90.8% 85.0%
4116396 2484.1.1.55 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › UvrC_RNaseH_dom 0.71 59.0 4.24e-01 90.8% 63.9%
4121071 2484.1.1.55 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › UvrC_RNaseH_dom 0.71 59.0 4.50e-01 90.8% 80.0%
4368803 2484.1.1.22 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DUF99 0.71 60.0 4.54e-01 93.4% 90.6%
3672774 2484.1.1.43 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Endonuclease_5 0.70 56.0 4.33e-01 86.8% 48.2%
4599948 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.70 57.0 4.44e-01 90.8% 80.6%
3690580 2484.1.1.223 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › PF27036 0.69 60.0 4.62e-01 96.1% 80.0%
4115185 2484.1.1.174 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › UvrC_RNaseH 0.68 57.0 4.75e-01 90.8% 80.8%
3831169 5.1.5.66 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed › FBA_1 0.68 60.0 4.06e-01 97.4% 100.0%
4572085 7503.1.1.3 ↗ a/b three-layered sandwiches › TolB, N-terminal domain › TolB, N-terminal domain › TolB, N-terminal domain › TolB_N 0.66 47.0 4.04e-01 100.0% 47.5%
3989194 2484.1.1.174 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › UvrC_RNaseH 0.65 54.0 4.58e-01 90.8% 77.6%
4628536 2484.1.1.174 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › UvrC_RNaseH 0.65 53.0 4.69e-01 90.8% 87.8%
4200618 2484.1.1.174 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › UvrC_RNaseH 0.65 53.0 4.66e-01 89.5% 90.4%
4382988 2484.1.1.174 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › UvrC_RNaseH 0.65 53.0 4.60e-01 89.5% 82.5%
4078209 7503.1.1.3 ↗ a/b three-layered sandwiches › TolB, N-terminal domain › TolB, N-terminal domain › TolB, N-terminal domain › TolB_N 0.65 46.0 3.70e-01 100.0% 38.6%
4642685 7503.1.1.3 ↗ a/b three-layered sandwiches › TolB, N-terminal domain › TolB, N-terminal domain › TolB, N-terminal domain › TolB_N 0.65 46.0 3.87e-01 100.0% 44.8%
4679171 2484.1.1.174 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › UvrC_RNaseH 0.65 53.0 4.63e-01 90.8% 85.2%
4187143 7503.1.1.3 ↗ a/b three-layered sandwiches › TolB, N-terminal domain › TolB, N-terminal domain › TolB, N-terminal domain › TolB_N 0.65 47.0 3.85e-01 100.0% 43.0%
5046724 2484.1.1.174 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › UvrC_RNaseH 0.64 53.0 4.65e-01 90.8% 91.3%
4010765 2484.1.1.174 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › UvrC_RNaseH 0.64 52.0 4.50e-01 90.8% 86.4%
4956532 2484.1.1.22 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DUF99 0.64 53.0 4.06e-01 92.1% 77.8%
4298591 7503.1.1.3 ↗ a/b three-layered sandwiches › TolB, N-terminal domain › TolB, N-terminal domain › TolB, N-terminal domain › TolB_N 0.64 46.0 3.71e-01 100.0% 39.3%
3510139 223.1.1.3 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains › GAF 0.64 57.0 4.24e-01 100.0% 50.8%
4606103 2484.1.1.174 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › UvrC_RNaseH 0.64 52.0 4.51e-01 90.8% 80.0%
3958207 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.64 53.0 4.32e-01 90.8% 83.6%
4253671 2484.1.1.174 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › UvrC_RNaseH 0.63 51.0 4.09e-01 90.8% 80.0%
3892722 11.2.1.12 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › DOCK-C2 0.62 44.0 3.33e-01 75.0% 80.0%
4639186 7503.1.1.3 ↗ a/b three-layered sandwiches › TolB, N-terminal domain › TolB, N-terminal domain › TolB, N-terminal domain › TolB_N 0.62 45.0 3.52e-01 100.0% 36.3%
4162427 2484.1.1.25 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RuvC 0.61 52.0 4.08e-01 94.7% 93.8%
3439646 284.1.3.2 ↗ a+b two layers › FKBP-like › FKBP-like › WNK1 autoinhibitory domain › OSR1_C 0.61 49.0 4.46e-01 90.8% 69.5%
3592742 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.57 40.0 3.87e-01 75.0% 74.4%
3945393 7089.1.1.2 ↗ a+b two layers › Methane monooxygenase hydroxylase, MmoD › Methane monooxygenase hydroxylase, MmoD › Methane monooxygenase hydroxylase, MmoD › DUF5405 0.56 42.0 4.20e-01 82.9% 96.2%
3269121 220.1.1.20 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_TFIIH 0.55 43.0 3.80e-01 82.9% 68.2%
None — 0.55 44.0 2.62e-01 93.4% 42.7%
3792948 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.55 46.0 4.10e-01 92.1% 74.5%
4981234 896.1.1.0 ↗ a+b two layers › SRP9/14-like › Signal recognition particle alu RNA binding heterodimer SRP9/14-related › Signal recognition particle alu RNA binding heterodimer SRP9/14-related 0.55 41.0 4.35e-01 90.8% 92.3%
4304407 220.1.1.8 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › GRAM 0.54 41.0 3.43e-01 96.1% 46.7%
4030649 11.2.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › C2 0.53 45.0 2.81e-01 100.0% 27.5%
3761570 330.1.1.22 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › PF26536 0.53 40.0 3.57e-01 100.0% 54.8%
3712697 4252.1.1.0 ↗ beta barrels › AttH-like › AttH-like › AttH-like 0.53 45.0 3.63e-01 94.7% 95.3%
4230632 2.4.1.2 ↗ beta barrels › OB-fold › MOP-like › MOP-like › TOBE_2 0.52 35.0 2.98e-01 100.0% 39.8%
3805053 5.1.4.550 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Kelch_FKB95 0.52 43.0 2.98e-01 96.1% 80.0%
3965385 304.14.1.1 ↗ a+b two layers › Alpha-beta plaits › Sporulation related repeat (SPOR) › Sporulation related repeat (SPOR) › SPOR 0.52 32.0 3.34e-01 100.0% 65.7%
4158830 220.1.1.19 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › Rttp106-like_middle 0.51 39.0 3.35e-01 89.5% 49.2%
5055184 295.1.1.0 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain 0.51 36.0 3.50e-01 73.7% 65.9%
3963172 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.51 44.0 3.51e-01 94.7% 87.3%
4002681 377.1.2.0 ↗ few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › PARP-type zinc finger 0.51 40.0 3.83e-01 89.5% 74.4%
4507316 220.1.1.20 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_TFIIH 0.51 39.0 3.42e-01 94.7% 54.8%
3506831 245.1.1.0 ↗ a+b two layers › Ribonuclease PH domain 2-like › Ribonuclease PH domain 2 › Ribonuclease PH domain 2 0.50 38.0 3.82e-01 96.1% 77.5%
D3 medium residues 8-104
PDB