Back to structures

MN128593.1__QDK04843.1__FK484_0110__00110

Bact-Vir

MN128593.1__QDK04843.1__FK484_0110__00110

Identity

Accession:
MN128593 ↗
Kingdom:
phage

Quality

85.2 mean pLDDT

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 8-55
PDB
Domain cluster: representative
CATH (57)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2bseA00 2.60.40.1830 Mainly Beta › Sandwich › Immunoglobulin-like › Phage tail base-plate Siphoviridae RBP, head domain 0.81 67.0 5.17e-01 100.0% 42.1%
2fsdA00 2.60.40.2460 Mainly Beta › Sandwich › Immunoglobulin-like › Phage bIL170 RBP, head domain 0.69 57.0 4.43e-01 100.0% 41.8%
1asuA00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.68 48.0 3.32e-01 75.0% 22.2%
6qm7A00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.68 56.0 3.59e-01 93.8% 32.4%
5a0tB01 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.68 46.0 2.85e-01 79.2% 11.9%
2kvtA00 3.30.730.30 Alpha Beta › 2-Layer Sandwich › GCC-box Binding Domain › YaiA protein 0.66 46.0 4.09e-01 75.0% 53.5%
8cukB01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.64 55.0 3.37e-01 100.0% 97.6%
3fcyA00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.64 44.0 2.70e-01 72.9% 11.7%
2wweA01 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.63 42.0 3.29e-01 70.8% 31.7%
2xtsA02 2.60.40.650 Mainly Beta › Sandwich › Immunoglobulin-like › 0.62 51.0 3.85e-01 97.9% 90.0%
1wjmA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.61 53.0 3.96e-01 100.0% 66.7%
3anzC00 2.70.240.10 Mainly Beta › Distorted Sandwich › Leukocidin-like › Leukocidin/porin MspA 0.61 48.0 3.05e-01 95.8% 92.5%
4uxuA00 2.70.170.10 Mainly Beta › Distorted Sandwich › Acetylcholine Binding Protein; Chain: A, › Neurotransmitter-gated ion-channel ligand-binding domain 0.60 50.0 3.37e-01 100.0% 30.0%
4h61A00 3.10.450.580 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › Mediator complex, subunit Med6 0.60 52.0 3.81e-01 100.0% 78.8%
6kmoB00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.60 40.0 2.46e-01 70.8% 20.7%
4hcsA00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.59 45.0 4.03e-01 100.0% 58.2%
6qm7K00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.59 47.0 3.16e-01 93.8% 27.7%
1wsrA02 3.30.70.1400 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Aminomethyltransferase beta-barrel domains 0.59 50.0 4.17e-01 100.0% 64.8%
1qwoA01 3.40.50.1240 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Phosphoglycerate mutase-like 0.59 43.0 2.59e-01 81.2% 78.5%
2ww8A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.59 48.0 3.72e-01 89.6% 81.1%
3iplB01 3.40.50.12780 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › ANL, N-terminal domain 0.59 42.0 2.50e-01 75.0% 73.4%
1t4lB00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.59 40.0 3.37e-01 72.9% 38.9%
1nr4C00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.58 43.0 3.93e-01 100.0% 59.1%
3a0oA03 2.70.98.70 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › 0.58 45.0 2.85e-01 89.6% 49.5%
7b9cA02 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.58 50.0 2.90e-01 93.8% 16.0%
6z46V01 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.58 42.0 2.92e-01 97.9% 21.4%
2fhdA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.58 41.0 3.92e-01 81.2% 88.7%
4ir8A01 3.30.540.10 Alpha Beta › 2-Layer Sandwich › Fructose-1,6-Bisphosphatase; Chain A, domain 1 › Fructose-1,6-Bisphosphatase, subunit A, domain 1 0.57 46.0 3.27e-01 100.0% 82.0%
4yokA01 2.60.40.1120 Mainly Beta › Sandwich › Immunoglobulin-like › Carboxypeptidase-like, regulatory domain 0.57 44.0 3.80e-01 100.0% 55.3%
8gq6A01 2.120.10.80 Mainly Beta › 6 Propeller › Neuraminidase › Kelch-type beta propeller 0.57 39.0 2.43e-01 72.9% 11.8%
1eigA00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.57 43.0 3.75e-01 100.0% 54.8%
4k15A00 2.60.40.3860 Mainly Beta › Sandwich › Immunoglobulin-like › 0.56 46.0 3.47e-01 100.0% 73.2%
1v5vA02 3.30.70.1400 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Aminomethyltransferase beta-barrel domains 0.56 48.0 3.94e-01 100.0% 64.1%
2ldkA00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.56 43.0 3.01e-01 89.6% 39.5%
1eotA00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.55 42.0 3.66e-01 100.0% 54.1%
5mteA00 3.90.45.10 Alpha Beta › Alpha-Beta Complex › Peptide Deformylase › Peptide deformylase 0.55 39.0 3.04e-01 83.3% 72.3%
4dm5A00 3.30.1450.10 Alpha Beta › 2-Layer Sandwich › Beta-lactamase Inhibitory Protein; Chain:B, domain 1 › 0.55 44.0 3.85e-01 100.0% 66.7%
4ntqA00 3.10.380.20 Alpha Beta › Roll › Ribonuclease domain of colicin e3 (Residues 456-551) › Novel toxin 21 (CdiA), C-terminal domain 0.55 36.0 3.23e-01 70.8% 42.1%
4i6xA00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.55 42.0 3.25e-01 81.2% 72.6%
2eyqA05 2.40.10.170 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.55 38.0 3.67e-01 77.1% 74.6%
1g8kC01 2.60.40.4210 Mainly Beta › Sandwich › Immunoglobulin-like › 0.54 47.0 3.57e-01 100.0% 69.8%
2v5yA05 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.54 42.0 3.58e-01 100.0% 54.6%
6az1E03 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.54 37.0 3.33e-01 100.0% 50.0%
1gd5A00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.53 36.0 2.77e-01 72.9% 29.2%
5j9bA00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.53 44.0 3.16e-01 100.0% 85.3%
5amhA00 2.170.150.20 Mainly Beta › Beta Complex › Metal Binding Protein, Guanine Nucleotide Exchange Factor; Chain A › Peptide methionine sulfoxide reductase. 0.53 44.0 3.54e-01 100.0% 50.9%
6gp1A00 3.30.1300.40 Alpha Beta › 2-Layer Sandwich › Pantoate--beta-alanine Ligase; Chain: A,domain 2 › 0.53 37.0 3.50e-01 77.1% 63.1%
4o38A01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.53 44.0 3.58e-01 95.8% 94.8%
4js8A01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.53 43.0 3.60e-01 95.8% 94.4%
1v5mA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.52 45.0 3.29e-01 100.0% 63.2%
3iuwA00 2.30.130.30 Mainly Beta › Roll › Archaeosine Trna-guanine Transglycosylase; Chain: A, domain 4 › Hypothetical protein. 0.52 42.0 3.69e-01 97.9% 74.7%
4id2A00 2.40.128.510 Mainly Beta › Beta Barrel › Lipocalin › Protein of unknown function DUF4738 0.51 42.0 3.11e-01 95.8% 43.4%
2x5pA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 43.0 3.45e-01 97.9% 84.6%
1ugiD00 3.10.450.20 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › Bacteriophage PBS2, uracil-glycosylase inhibitor 0.51 43.0 3.64e-01 95.8% 63.4%
2i9xA00 3.30.1120.40 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › Stage V sporulation protein G 0.51 35.0 3.10e-01 77.1% 58.1%
4pz6A02 3.30.470.30 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › DNA ligase/mRNA capping enzyme 0.51 35.0 2.39e-01 79.2% 66.9%
1nrkA02 3.30.70.1400 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Aminomethyltransferase beta-barrel domains 0.50 41.0 3.53e-01 100.0% 66.7%
ECOD (50)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3588403 5092.1.1.0 beta sandwiches › Domain in virus attachment proteins › Domain in virus attachment proteins › Domain in virus attachment proteins 0.88 76.0 5.76e-01 100.0% 43.7%
3322023 64.1.1.8 beta meanders › WW domain-like › WW domain › WW domain › DUF7028 0.70 46.0 4.39e-01 70.8% 58.2%
3505021 3966.1.1.1 a+b complex topology › Mitoribosomal protein mS22 › Mitoribosomal protein mS22 › Mitoribosomal protein mS22 › MRP-S22 0.70 62.0 4.02e-01 100.0% 24.3%
3478107 3966.1.1.1 a+b complex topology › Mitoribosomal protein mS22 › Mitoribosomal protein mS22 › Mitoribosomal protein mS22 › MRP-S22 0.70 61.0 3.68e-01 100.0% 16.5%
3411804 3966.1.1.1 a+b complex topology › Mitoribosomal protein mS22 › Mitoribosomal protein mS22 › Mitoribosomal protein mS22 › MRP-S22 0.70 61.0 3.61e-01 97.9% 14.5%
3234486 3966.1.1.1 a+b complex topology › Mitoribosomal protein mS22 › Mitoribosomal protein mS22 › Mitoribosomal protein mS22 › MRP-S22 0.69 62.0 3.78e-01 100.0% 17.5%
3797755 3966.1.1.0 a+b complex topology › Mitoribosomal protein mS22 › Mitoribosomal protein mS22 › Mitoribosomal protein mS22 0.69 61.0 3.78e-01 100.0% 17.9%
3577562 3966.1.1.1 a+b complex topology › Mitoribosomal protein mS22 › Mitoribosomal protein mS22 › Mitoribosomal protein mS22 › MRP-S22 0.69 61.0 3.74e-01 100.0% 17.2%
3626977 3966.1.1.1 a+b complex topology › Mitoribosomal protein mS22 › Mitoribosomal protein mS22 › Mitoribosomal protein mS22 › MRP-S22 0.69 61.0 3.73e-01 100.0% 16.9%
2633991 3966.1.1.1 a+b complex topology › Mitoribosomal protein mS22 › Mitoribosomal protein mS22 › Mitoribosomal protein mS22 › MRP-S22 0.68 60.0 3.67e-01 100.0% 16.9%
3526482 331.3.1.9 a+b two layers › TBP-like › Bet v1-like › Bet v1-like › AHSA1 0.66 55.0 4.43e-01 100.0% 61.0%
3670347 252.1.1.1 a+b two layers › DNA-binding domain › Methyl-CpG-binding domain, MBD › Methyl-CpG-binding domain, MBD › MBD 0.66 45.0 3.85e-01 70.8% 75.9%
4569258 5.1.4.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.66 57.0 3.46e-01 97.9% 98.7%
1723644 5.1.4.1 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.65 54.0 3.25e-01 100.0% 95.2%
4964235 3435.1.1.0 a+b two layers › Recombination-associated protein rdgC › Recombination-associated protein rdgC › Recombination-associated protein rdgC 0.64 54.0 3.46e-01 100.0% 90.8%
3992587 5.1.4.1 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.62 48.0 2.74e-01 87.5% 55.8%
3994175 6.1.1.4 beta duplicates or obligate multimers › beta-Trefoil › beta-Trefoil › beta-Trefoil › Ricin_B_lectin 0.62 49.0 3.64e-01 89.6% 82.3%
3701501 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.62 42.0 3.80e-01 70.8% 52.3%
1117795 316.1.1.25 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › Nrap_D4 0.62 54.0 3.56e-01 100.0% 47.8%
3244141 5.1.4.320 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Beta-prop_LRRK2 0.62 51.0 3.12e-01 100.0% 93.0%
3376400 323.1.1.3 a+b complex topology › CoA-dependent acyltransferases › CoA-dependent acyltransferases › CoA-dependent acyltransferases › AMP-binding 0.61 42.0 2.69e-01 72.9% 84.9%
3839549 247.1.1.2 a+b four layers › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Lactamase_B,RMMBL 0.60 43.0 2.67e-01 75.0% 94.1%
3852806 389.1.1.93 few secondary structure elements › EGF-like › EGF-related › EGF/Laminin › Ephrin_CRD 0.60 47.0 4.26e-01 91.7% 94.3%
3549809 389.1.1.105 few secondary structure elements › EGF-like › EGF-related › EGF/Laminin › Ephrin_rec_like, Ephrin_CRD 0.60 47.0 3.54e-01 91.7% 50.4%
3954941 244.4.1.0 a+b two layers › FAD-linked reductases, C-terminal domain-like › Ni-Fe binding domain in nickel-iron hydrogenase large subunit › Ni-Fe binding domain in nickel-iron hydrogenase large subunit 0.58 39.0 3.28e-01 72.9% 40.0%
3790904 4.8.1.2 beta barrels › SH3 › Chromo domain-like › Chromo domain-like › Chromo_shadow 0.57 37.0 3.46e-01 70.8% 51.7%
4064490 2484.1.1.26 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Piwi 0.56 46.0 2.95e-01 100.0% 19.6%
143630 331.3.1.9 a+b two layers › TBP-like › Bet v1-like › Bet v1-like › AHSA1 0.56 43.0 3.04e-01 89.6% 41.5%
134234 809.1.1.2 a+b two layers › BLIP-like › beta-lactamase-inhibitor protein, BLIP › beta-lactamase-inhibitor protein, BLIP › BLIP 0.56 47.0 4.01e-01 100.0% 78.3%
4847869 5.1.4.16 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › CPSF_A 0.56 45.0 2.88e-01 89.6% 25.2%
3550735 223.2.1.33 a+b three layers › Profilin-like › profilin-like › profilin-like › Fuz_longin_3 0.56 47.0 3.38e-01 100.0% 62.1%
3802068 1.1.1.28 beta barrels › cradle loop barrel › RIFT-related › acid protease › Asp, TAXi_C, TAXi_N 0.55 42.0 2.65e-01 93.8% 35.0%
5069960 247.1.1.1 a+b four layers › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Lactamase_B 0.55 37.0 2.38e-01 72.9% 76.5%
3664404 2003.1.2.18 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain 0.54 43.0 2.54e-01 100.0% 10.3%
5037599 5.1.5.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed 0.54 46.0 2.82e-01 95.8% 30.0%
3212636 206.1.1.0 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase 0.54 44.0 2.50e-01 95.8% 16.4%
3771322 233.1.1.3 a+b two layers › MHC antigen-recognition domain › MHC antigen-recognition domain › MHC antigen-recognition domain › MHC_II_alpha 0.54 35.0 2.90e-01 75.0% 33.7%
4888970 316.1.1.58 a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › Nrap_D4, Nrap_D5 0.53 40.0 2.88e-01 100.0% 49.0%
3702551 206.1.1.1 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.53 39.0 2.39e-01 87.5% 27.5%
3391222 220.1.1.207 beta barrels › PH domain-like › PH domain-like › PH domain-like › PF25916 0.53 44.0 3.37e-01 100.0% 65.6%
3586913 11.1.4.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like 0.53 42.0 3.46e-01 100.0% 47.6%
4374623 3523.1.1.0 beta meanders › Periplasmic lipopolysaccharide transport protein LptA (YhbN) › Periplasmic lipopolysaccharide transport protein LptA (YhbN) › Periplasmic lipopolysaccharide transport protein LptA (YhbN) 0.52 37.0 2.53e-01 75.0% 21.1%
3232376 11.1.4.7 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like › TTR-52 0.52 41.0 3.65e-01 100.0% 56.5%
4928221 2.1.1.15 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › tRNA_anti-codon 0.52 41.0 3.11e-01 89.6% 71.8%
3902773 209.1.1.1 a+b complex topology › C-type lectin-like › C-type lectin-like › C-type lectin-like › Lectin_C 0.51 38.0 3.10e-01 89.6% 47.8%
4493573 4964.1.1.2 alpha arrays › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › helical bundle in Bacillus stearothermophilus-like DNA polymerase I › RNA_pol 0.51 42.0 2.83e-01 95.8% 36.5%
4398429 1.1.8.5 beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain › tRNA_Me_trans_C 0.51 41.0 3.66e-01 100.0% 65.0%
4186732 1001.1.1.0 a+b two layers › Formate dehydrogenase/DMSO reductase, domain 1 › Formate dehydrogenase/DMSO reductase, domain 1 › Formate dehydrogenase/DMSO reductase, domain 1 0.51 39.0 3.52e-01 85.4% 68.6%
4972276 247.1.1.12 a+b four layers › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Lactamase_B_3 0.50 43.0 2.80e-01 100.0% 56.4%
3907827 206.1.1.1 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.50 38.0 2.46e-01 93.8% 38.6%