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RifSed_csp1_19ft_3_scaffold_4_curated_prodigal-single.1__X__X__00422

Bact-Vir

RifSed_csp1_19ft_3_scaffold_4_curated_prodigal-single.1__X__X__00422

Identity

Kingdom:
phage

Quality

82.5 mean pLDDT

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 medium residues 1-12_28-43_69-94
PDB
Domain cluster: representative
CATH (12)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2zutA04 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.57 32.0 3.12e-01 72.2% 44.1%
3fw6A01 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.57 36.0 2.84e-01 77.8% 29.1%
5e6zC01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 45.0 3.65e-01 100.0% 45.3%
3au0A01 2.60.40.1280 Mainly Beta › Sandwich › Immunoglobulin-like › 0.55 47.0 3.44e-01 98.1% 40.3%
5aozA00 2.60.40.680 Mainly Beta › Sandwich › Immunoglobulin-like › 0.53 40.0 2.96e-01 94.4% 31.2%
4a15A03 1.10.275.40 Mainly Alpha › Orthogonal Bundle › Fumarase C; Chain B, domain 1 › 0.53 41.0 3.14e-01 88.9% 100.0%
4mbrA01 2.60.40.1280 Mainly Beta › Sandwich › Immunoglobulin-like › 0.53 45.0 3.34e-01 100.0% 67.3%
2ww8A02 2.60.40.2110 Mainly Beta › Sandwich › Immunoglobulin-like › 0.52 44.0 3.02e-01 96.3% 37.4%
3axbA02 3.30.9.10 Alpha Beta › 2-Layer Sandwich › D-Amino Acid Oxidase; Chain A, domain 2 › D-Amino Acid Oxidase, subunit A, domain 2 0.52 45.0 3.16e-01 100.0% 31.8%
1y8fA00 3.30.60.20 Alpha Beta › 2-Layer Sandwich › Wheat Germ Agglutinin (Isolectin 2); domain 1 › 0.50 34.0 3.54e-01 72.2% 76.5%
4l1nA00 2.40.128.660 Mainly Beta › Beta Barrel › Lipocalin › Uncharacterised protein PF15525, DUF4652 0.50 41.0 3.08e-01 100.0% 40.4%
3tg9A00 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.50 43.0 2.70e-01 100.0% 91.6%
ECOD (8)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3924477 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 0.62 44.0 3.29e-01 77.8% 33.8%
4013690 284.2.1.0 ↗ a+b two layers › FKBP-like › Chitinase insertion domain › Chitinase insertion domain 0.60 52.0 5.26e-01 98.1% 98.2%
4379979 11.1.5.53 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f › GBS104-like_Ig 0.58 49.0 3.49e-01 96.3% 32.3%
1887485 11.1.5.9 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f › Cohesin 0.53 40.0 2.96e-01 94.4% 31.2%
5070697 11.1.1.124 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Glucodextran_B 0.53 35.0 3.10e-01 96.3% 44.7%
3702792 2003.1.2.12 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › DAO 0.51 38.0 2.30e-01 100.0% 10.6%
3411355 220.1.1.115 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_19 0.51 43.0 3.30e-01 98.1% 66.2%
4001623 4019.1.1.1 ↗ alpha complex topology › alpha-helical domain in beta-lactamase/transpeptidase-like proteins › alpha-helical domain in beta-lactamase/transpeptidase-like proteins › alpha-helical domain in beta-lactamase/transpeptidase-like proteins › Beta-lactamase 0.50 43.0 2.61e-01 100.0% 86.3%
D2 medium residues 44-68_95-131
PDB
Domain cluster: representative
CATH (2)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2pmaA01 2.40.70.10 Mainly Beta › Beta Barrel › Cathepsin D, subunit A; domain 1 › Acid Proteases 0.52 40.0 3.28e-01 87.1% 66.9%
2fh5B00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.50 38.0 2.79e-01 82.3% 92.6%
ECOD (8)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5011605 2498.1.1.0 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" 0.62 41.0 2.95e-01 79.0% 23.3%
4882945 1.1.1.5 ↗ beta barrels › cradle loop barrel › RIFT-related › acid protease › Zn_protease 0.54 42.0 3.39e-01 87.1% 60.3%
4968004 2004.1.1.73 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › MMR_HSR1 0.54 41.0 3.02e-01 83.9% 84.0%
3895931 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.54 42.0 3.34e-01 87.1% 71.5%
3564841 2004.1.1.168 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › SRPRB 0.52 41.0 2.75e-01 85.5% 75.7%
3713947 603.1.1.0 ↗ alpha bundles › STAT-like › t-snare proteins › t-snare proteins 0.51 43.0 2.90e-01 100.0% 49.4%
3960953 2004.1.1.85 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ArsA_ATPase 0.51 37.0 2.30e-01 79.0% 16.1%
3951210 2003.1.1.88 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › OpcA_G6PD_assem 0.50 32.0 2.69e-01 77.4% 35.7%