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NC_048751.1__YP_009843745.1__HWC07_gp064__00064

Bact-Vir

NC_048751.1__YP_009843745.1__HWC07_gp064__00064

Identity

Accession:
NC_048751 ↗
Kingdom:
phage

Quality

69.6 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Lietduovirus› Pantoea_phage_vB_PagM_LIET2

TaxID: 2508071

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 4-86
PDB
Domain cluster: representative
CATH (20)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3qwmA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.74 51.0 4.36e-01 71.1% 47.2%
1f9cA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.63 48.0 4.18e-01 79.5% 64.8%
4fpwB00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.60 49.0 3.93e-01 88.0% 91.3%
2l6mA00 3.30.160.400 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.60 41.0 3.84e-01 71.1% 81.2%
2mdrA00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.57 41.0 3.92e-01 96.4% 64.9%
3sszA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.57 43.0 3.69e-01 79.5% 64.7%
7kx7A03 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.57 46.0 3.45e-01 89.2% 48.8%
3k44B00 3.30.2450.30 Alpha Beta › 2-Layer Sandwich › Secreted effector protein pipB2 fold › 0.56 46.0 3.88e-01 90.4% 85.0%
5iroD00 2.60.40.3530 Mainly Beta › Sandwich › Immunoglobulin-like › 0.55 42.0 3.98e-01 85.5% 66.7%
2rp4A00 6.10.280.60 Special › Helix non-globular › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Transcription factor p53, C-terminal domain 0.55 35.0 3.80e-01 91.6% 76.1%
2qkbA00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.54 44.0 3.67e-01 90.4% 76.3%
3u4vA00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.54 41.0 3.63e-01 79.5% 67.2%
1gd5A00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.54 39.0 3.36e-01 75.9% 65.4%
3n8bA00 3.10.450.700 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.54 42.0 4.44e-01 85.5% 92.0%
3nixB00 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.53 45.0 3.00e-01 100.0% 56.5%
3gvzA00 3.60.60.10 Alpha Beta › 4-Layer Sandwich › Penicillin V Acylase; Chain A › Penicillin V Acylase; Chain A 0.52 44.0 3.11e-01 92.8% 51.6%
6ipaA00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.52 38.0 3.11e-01 79.5% 86.7%
2czoA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.51 39.0 3.43e-01 83.1% 80.0%
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 0.51 43.0 3.63e-01 90.4% 84.3%
1vq0A01 3.55.30.10 Alpha Beta › 3-Layer(bab) Sandwich › Hsp33 domain › Hsp33 domain 0.51 42.0 3.20e-01 97.6% 83.3%
ECOD (46)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3873956 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.80 50.0 4.39e-01 86.7% 44.2%
3312151 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.76 54.0 4.34e-01 73.5% 39.4%
3887124 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.76 50.0 3.84e-01 72.3% 32.0%
3843748 220.1.1.48 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › Jak1_Phl 0.74 50.0 4.22e-01 90.4% 43.0%
3623434 220.1.1.58 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH-GRAM_MTMR6-like 0.73 49.0 4.22e-01 78.3% 44.6%
4019656 220.1.1.211 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › DUF7612 0.73 42.0 3.54e-01 84.3% 35.6%
4889666 11.2.1.117 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › PI-PLC-Y 0.69 44.0 3.86e-01 73.5% 44.9%
3707461 218.1.1.2 ↗ a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › Enolase_N 0.67 41.0 3.51e-01 94.0% 38.5%
3859768 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.65 46.0 3.58e-01 72.3% 40.0%
4929364 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 0.64 39.0 4.32e-01 85.5% 76.9%
3615163 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.64 38.0 3.53e-01 85.5% 46.7%
3338423 3131.1.1.2 ↗ a+b two layers › FYR domain › FYR domain › FYR domain › FYRN 0.63 53.0 4.35e-01 91.6% 52.7%
4140206 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.63 44.0 4.39e-01 100.0% 70.6%
3327575 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.63 46.0 4.31e-01 89.2% 63.0%
4020977 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.63 53.0 3.94e-01 91.6% 59.8%
3641525 223.2.1.6 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like › uDENN 0.62 44.0 3.42e-01 74.7% 37.2%
3616935 220.1.1.5 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PID 0.62 43.0 3.45e-01 73.5% 78.8%
4024174 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.61 52.0 3.51e-01 94.0% 51.5%
3167305 223.2.1.13 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like › SRX 0.61 43.0 3.43e-01 73.5% 43.0%
3495405 3131.1.1.1 ↗ a+b two layers › FYR domain › FYR domain › FYR domain › FYRN,FYRC 0.60 48.0 3.99e-01 89.2% 48.0%
4089593 330.6.1.1 ↗ a+b two layers › dsRBD-like › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain › LeuA_dimer 0.60 43.0 3.70e-01 74.7% 47.7%
149737 218.1.1.1 ↗ a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › MR_MLE_N 0.60 45.0 4.09e-01 79.5% 65.8%
4929306 2003.1.2.24 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › Pyr_redox_2 0.59 44.0 2.84e-01 79.5% 80.5%
3220656 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.59 48.0 3.26e-01 91.6% 33.2%
5006851 330.4.1.1 ↗ a+b two layers › dsRBD-like › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobil_deamC 0.58 43.0 4.54e-01 79.5% 95.9%
3502940 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.58 40.0 3.77e-01 90.4% 59.0%
5076884 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.58 42.0 3.47e-01 75.9% 87.6%
3669022 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.57 40.0 3.91e-01 89.2% 64.2%
3460491 223.2.1.6 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like › uDENN 0.56 44.0 3.37e-01 85.5% 52.5%
3887951 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.56 43.0 3.97e-01 98.8% 62.6%
4939488 2484.1.1.34 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.55 43.0 2.98e-01 84.3% 89.0%
3620642 207.1.1.0 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.55 46.0 3.00e-01 95.2% 40.2%
4160544 295.1.1.0 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain 0.55 46.0 3.77e-01 91.6% 83.3%
3609915 2484.8.1.1 ↗ mixed a+b and a/b › Ribonuclease H-like › Separase pseudo-protease domain (PPD) › Separase pseudo-protease domain (PPD) › Peptidase_C50 0.55 41.0 2.80e-01 88.0% 21.6%
3589706 2003.6.1.5 ↗ a/b three-layered sandwiches › Rossmann-like › Ribokinase-like › Ribokinase-like › Phos_pyr_kin 0.54 45.0 3.16e-01 90.4% 95.8%
3501861 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.54 45.0 4.23e-01 98.8% 75.2%
3786015 5.1.5.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed › WD40 0.53 42.0 2.52e-01 88.0% 31.2%
3789865 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.53 35.0 3.50e-01 84.3% 63.3%
3506232 4099.1.1.20 ↗ a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like › Med14_RM6 0.53 41.0 3.16e-01 84.3% 85.1%
4942959 2003.1.2.24 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › Pyr_redox_2 0.53 41.0 3.00e-01 83.1% 70.4%
3199354 206.1.1.0 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase 0.53 46.0 3.03e-01 97.6% 86.2%
3275744 206.1.1.14 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › ABC1 0.52 43.0 2.72e-01 90.4% 27.2%
3617638 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.52 34.0 3.14e-01 85.5% 51.4%
3716893 5.1.3.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.52 44.0 2.88e-01 100.0% 62.1%
4423214 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.51 44.0 4.11e-01 98.8% 82.9%
3456571 223.1.1.0 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains 0.51 42.0 3.07e-01 97.6% 90.4%