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MK291445.1__AZV00458.1__pyei1_p41__00041

Bact-Vir

MK291445.1__AZV00458.1__pyei1_p41__00041

Identity

Accession:
MK291445 ↗
Kingdom:
phage

Quality

90.8 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Paracoccus_phage_vB_PyeM_Pyei1

TaxID: 2500566

Cluster

View cluster (3 members)

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 3-170
PDB
Domain cluster: rep: NC_024392.1__YP_009045168.1__LP114_114__00113__D16-138
CATH (23)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4frwA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.76 31.0 4.05e-01 72.6% 66.7%
4acvA00 3.30.2000.30 Alpha Beta › 2-Layer Sandwich › STM4215-like › 0.74 50.0 5.80e-01 100.0% 96.6%
2y3uA02 3.30.980.50 Alpha Beta › 2-Layer Sandwich › Threonyl-tRNA Synthetase; Chain A, domain 2 › 0.69 42.0 5.03e-01 100.0% 89.4%
4r6uA03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.69 29.0 3.71e-01 88.7% 64.1%
4noiA01 3.30.1360.10 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › RNA polymerase, RBP11-like subunit 0.67 33.0 4.07e-01 73.8% 73.8%
1bdfA01 3.30.1360.10 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › RNA polymerase, RBP11-like subunit 0.67 34.0 4.15e-01 88.1% 74.5%
3ce8A00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.67 33.0 4.33e-01 93.5% 86.5%
1g84A00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.66 32.0 3.92e-01 73.8% 71.4%
4za1C00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.66 31.0 4.10e-01 91.7% 80.4%
2l25A00 3.30.2000.20 Alpha Beta › 2-Layer Sandwich › STM4215-like › 0.66 51.0 5.49e-01 100.0% 96.5%
4ozjA00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.63 35.0 4.36e-01 94.6% 86.5%
2ek0A00 3.30.110.20 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › Alba-like domain 0.61 31.0 4.02e-01 90.5% 87.8%
3w1eA02 3.40.50.10610 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › ABC-type transport auxiliary lipoprotein component 0.59 37.0 3.67e-01 100.0% 58.2%
3qkbA00 3.30.110.70 Alpha Beta › 2-Layer Sandwich › Translation Initiation Factor IF3 › Hypothetical protein apc22750. Chain B 0.59 33.0 4.32e-01 95.2% 97.9%
1uw4A00 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.59 31.0 3.93e-01 92.9% 89.0%
4jb9H01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.58 33.0 3.71e-01 88.7% 71.0%
3o4oB03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.58 30.0 3.65e-01 74.4% 76.1%
3tx8A02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.57 32.0 3.79e-01 93.5% 78.9%
1repC02 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 0.57 33.0 4.12e-01 91.7% 100.0%
1aq3A00 3.30.380.10 Alpha Beta › 2-Layer Sandwich › MS2 Viral Coat Protein › MS2 Viral Coat Protein 0.54 31.0 3.49e-01 100.0% 71.3%
3jamD02 3.30.1140.32 Alpha Beta › 2-Layer Sandwich › Ribosomal protein S3 C-terminal domain › Ribosomal protein S3, C-terminal domain 0.53 31.0 3.42e-01 83.9% 70.7%
2wyhA05 2.60.40.2210 Mainly Beta › Sandwich › Immunoglobulin-like › 0.53 32.0 3.50e-01 94.0% 73.1%
1omsA00 3.30.70.1050 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Trigger factor ribosome-binding domain 0.51 34.0 4.04e-01 86.9% 99.1%
ECOD (28)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3972057 11.1.1.410 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › BatD 0.81 35.0 4.46e-01 71.4% 66.7%
4034134 304.124.1.0 ↗ a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like 0.80 58.0 6.66e-01 99.4% 99.2%
4954449 310.3.1.0 ↗ a+b two layers › RRF/tRNA synthetase additional domain-like › General secretion pathway protein M (EpsM) periplasmic domain-related › General secretion pathway protein M (EpsM) periplasmic domain-related 0.72 42.0 5.32e-01 100.0% 97.0%
3589225 304.124.1.0 ↗ a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like 0.70 53.0 5.81e-01 100.0% 95.6%
4342449 305.1.1.1 ↗ a+b two layers › DCoH-like › RBP11-like subunits of RNA polymerase › RBP11-like subunits of RNA polymerase › RNA_pol_L 0.67 35.0 4.06e-01 74.4% 69.2%
4945381 304.3.1.0 ↗ a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain 0.67 32.0 4.22e-01 87.5% 85.9%
4941817 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.62 36.0 4.33e-01 87.5% 86.2%
4290251 306.7.1.1 ↗ a+b two layers › Glucose permease domain IIB-like › Trigger factor ribosome-binding domain › Trigger factor ribosome-binding domain › Trigger_N 0.60 34.0 4.37e-01 86.9% 97.9%
4132858 11.1.1.97 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › I-set 0.59 30.0 3.75e-01 88.7% 78.1%
4502274 306.7.1.1 ↗ a+b two layers › Glucose permease domain IIB-like › Trigger factor ribosome-binding domain › Trigger factor ribosome-binding domain › Trigger_N 0.59 34.0 4.28e-01 86.3% 97.9%
4946218 304.4.1.0 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.58 28.0 3.43e-01 97.6% 69.5%
3387344 7503.1.1.4 ↗ a/b three-layered sandwiches › TolB, N-terminal domain › TolB, N-terminal domain › TolB, N-terminal domain › LptE 0.56 30.0 3.23e-01 98.8% 58.6%
4447560 306.7.1.1 ↗ a+b two layers › Glucose permease domain IIB-like › Trigger factor ribosome-binding domain › Trigger factor ribosome-binding domain › Trigger_N 0.56 32.0 3.92e-01 86.3% 89.5%
3992575 11.12.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Nicotinic receptor ligand binding domain-like › Nicotinic receptor ligand binding domain-like › Neur_chan_LBD 0.55 37.0 3.81e-01 96.4% 69.1%
3605491 328.1.1.1 ↗ a+b two layers › IF3-like › AlbA-like › AlbA-like › Alba 0.55 30.0 3.54e-01 98.2% 74.2%
3588078 872.3.1.0 ↗ a+b two layers › Dodecin subunit-like › YbjQ-like › YbjQ-like 0.54 30.0 3.91e-01 92.9% 98.9%
4881129 11.12.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Nicotinic receptor ligand binding domain-like › Nicotinic receptor ligand binding domain-like › Neur_chan_LBD 0.54 37.0 3.91e-01 96.4% 79.5%
3592692 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.53 33.0 3.60e-01 89.3% 73.6%
2388936 11.12.1.2 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Nicotinic receptor ligand binding domain-like › Nicotinic receptor ligand binding domain-like › Neur_chan_LBD,Neur_chan_memb 0.53 35.0 3.00e-01 91.1% 40.6%
4311026 306.7.1.1 ↗ a+b two layers › Glucose permease domain IIB-like › Trigger factor ribosome-binding domain › Trigger factor ribosome-binding domain › Trigger_N 0.53 35.0 3.99e-01 85.7% 89.6%
3907282 11.1.1.297 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Integrin_A_Ig_2 0.53 33.0 3.53e-01 89.3% 71.0%
3512571 273.1.1.0 ↗ a+b three layers › PR-1-like › PR-1-like › PR-1-like 0.53 31.0 3.49e-01 81.5% 73.1%
5042257 256.1.1.0 ↗ a+b two layers › MTH1598-like › MTH1598-like › MTH1598-like 0.52 36.0 4.17e-01 82.7% 95.2%
4539710 306.7.1.1 ↗ a+b two layers › Glucose permease domain IIB-like › Trigger factor ribosome-binding domain › Trigger factor ribosome-binding domain › Trigger_N 0.52 35.0 4.10e-01 72.6% 99.1%
4616711 306.7.1.1 ↗ a+b two layers › Glucose permease domain IIB-like › Trigger factor ribosome-binding domain › Trigger factor ribosome-binding domain › Trigger_N 0.51 35.0 3.94e-01 86.3% 92.0%
3701983 304.153.1.0 ↗ a+b two layers › Alpha-beta plaits › Collagenase G catalytic helper subdomain › Collagenase G catalytic helper subdomain 0.51 46.0 4.55e-01 99.4% 93.1%
4215969 872.3.1.1 ↗ a+b two layers › Dodecin subunit-like › YbjQ-like › YbjQ-like › YbjQ_1 0.51 33.0 3.93e-01 95.2% 95.6%
3972919 306.7.1.1 ↗ a+b two layers › Glucose permease domain IIB-like › Trigger factor ribosome-binding domain › Trigger factor ribosome-binding domain › Trigger_N 0.51 33.0 3.77e-01 84.5% 88.8%
D2 medium residues 185-230
PDB
Domain cluster: representative
CATH (1)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3gw2A00 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 0.60 41.0 3.38e-01 73.9% 46.2%
ECOD (4)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3683716 304.6.1.3 ↗ a+b two layers › Alpha-beta plaits › FAD-linked oxidases, C-terminal domain › FAD-linked oxidases, C-terminal domain › BBE 0.55 46.0 2.98e-01 100.0% 34.0%
5003771 101.1.2.14 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_5 0.54 36.0 3.22e-01 71.7% 46.3%
5042890 101.1.2.14 ↗ alpha arrays › HTH › HTH › winged helix domain › HTH_5 0.54 38.0 3.67e-01 84.8% 71.2%
3813077 304.6.1.3 ↗ a+b two layers › Alpha-beta plaits › FAD-linked oxidases, C-terminal domain › FAD-linked oxidases, C-terminal domain › BBE 0.53 43.0 2.76e-01 100.0% 29.9%