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S16_GE16_scaffold_10741_prodigal-single.1__X__X__00213

Bact-Vir

S16_GE16_scaffold_10741_prodigal-single.1__X__X__00213

Identity

Kingdom:
phage

Quality

69.1 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 13-64
PDB
Domain cluster: representative
CATH (47)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1j8bA00 3.30.1310.10 Alpha Beta › 2-Layer Sandwich › Ybab; Chain: A; › Nucleoid-associated protein YbaB-like domain 0.82 53.0 4.31e-01 100.0% 38.0%
1ybxA00 3.30.1310.10 Alpha Beta › 2-Layer Sandwich › Ybab; Chain: A; › Nucleoid-associated protein YbaB-like domain 0.78 52.0 4.25e-01 100.0% 39.6%
6accA01 2.60.120.960 Mainly Beta › Sandwich › Jelly Rolls › Spike glycoprotein, N-terminal domain 0.74 51.0 3.15e-01 71.2% 89.6%
3f42A00 3.30.1310.10 Alpha Beta › 2-Layer Sandwich › Ybab; Chain: A; › Nucleoid-associated protein YbaB-like domain 0.73 53.0 4.31e-01 100.0% 43.0%
3jclA01 2.60.120.960 Mainly Beta › Sandwich › Jelly Rolls › Spike glycoprotein, N-terminal domain 0.72 50.0 3.08e-01 73.1% 84.0%
4fr9A00 3.10.450.360 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.71 50.0 3.57e-01 80.8% 27.0%
3u1wA01 3.10.450.360 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.70 49.0 3.28e-01 80.8% 20.8%
3pvlA04 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.70 50.0 4.11e-01 76.9% 56.6%
1z6nA00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.67 47.0 3.31e-01 75.0% 62.0%
3t69A01 3.30.420.300 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › 2-keto-3-deoxy-galactonokinase, substrate binding domain 0.67 48.0 4.27e-01 76.9% 73.3%
2a4hA01 3.40.30.50 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Sep15/SelM thioredoxin-like domain, active-site redox motif 0.66 47.0 4.26e-01 76.9% 100.0%
3cynB00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.66 55.0 3.92e-01 98.1% 80.9%
6j9eJ00 3.30.160.560 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.66 50.0 4.64e-01 82.7% 81.8%
3ll3B01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.66 48.0 3.09e-01 78.8% 91.4%
2nnwA01 3.30.420.220 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › 0.65 49.0 3.79e-01 82.7% 63.1%
2ap1A01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.65 49.0 3.65e-01 84.6% 69.1%
2lydA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.64 46.0 3.52e-01 80.8% 32.1%
2dhoA00 3.90.79.10 Alpha Beta › Alpha-Beta Complex › Nucleoside Triphosphate Pyrophosphohydrolase › Nucleoside Triphosphate Pyrophosphohydrolase 0.63 43.0 2.90e-01 73.1% 63.3%
8gpsA02 3.10.580.10 Alpha Beta › Roll › CBS-domain › CBS-domain 0.63 43.0 3.46e-01 73.1% 43.9%
4hwtA02 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.63 50.0 3.92e-01 88.5% 42.7%
1wsrA02 3.30.70.1400 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Aminomethyltransferase beta-barrel domains 0.62 45.0 3.81e-01 78.8% 93.4%
2bmxB01 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.62 47.0 3.27e-01 82.7% 71.5%
4eo3A01 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.62 50.0 3.64e-01 88.5% 81.9%
2yziB00 3.10.580.10 Alpha Beta › Roll › CBS-domain › CBS-domain 0.61 43.0 3.19e-01 75.0% 43.0%
3gd0A02 3.30.920.50 Alpha Beta › 2-Layer Sandwich › Metal Transport, Frataxin; Chain A › Beta-1,3-glucanase, C-terminal domain 0.61 47.0 3.68e-01 84.6% 59.8%
2gupA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.60 48.0 3.99e-01 90.4% 91.8%
2w18A00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.60 44.0 2.68e-01 76.9% 13.4%
4htlA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.59 46.0 3.87e-01 90.4% 93.0%
3id6A01 3.30.420.220 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › 0.59 45.0 3.64e-01 84.6% 72.6%
5f7pA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.58 45.0 3.55e-01 90.4% 77.2%
2w40A01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.58 52.0 3.32e-01 100.0% 24.8%
1xc3A01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.58 46.0 3.76e-01 90.4% 90.3%
2rihA00 3.10.580.10 Alpha Beta › Roll › CBS-domain › CBS-domain 0.56 39.0 3.01e-01 75.0% 42.7%
7dd9A02 2.70.98.30 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › Golgi alpha-mannosidase II; domain 4 0.56 41.0 2.68e-01 80.8% 91.4%
2j1vA00 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.56 39.0 2.89e-01 75.0% 88.7%
5bpxA00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.55 45.0 3.28e-01 92.3% 75.2%
1nrjA00 3.30.450.60 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.55 50.0 3.53e-01 98.1% 48.3%
5c71A02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 38.0 3.15e-01 76.9% 86.5%
3ddjA02 3.10.580.10 Alpha Beta › Roll › CBS-domain › CBS-domain 0.53 47.0 3.43e-01 100.0% 97.2%
3m70A01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.53 38.0 3.03e-01 76.9% 43.4%
2itmA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.52 44.0 2.82e-01 92.3% 24.9%
5nckA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.52 40.0 3.34e-01 90.4% 91.4%
4tkcA00 2.90.10.10 Mainly Beta › Orthogonal Prism › Agglutinin, subunit A › Bulb-type lectin domain 0.52 40.0 3.29e-01 94.2% 67.8%
4cvhA01 3.90.550.10 Alpha Beta › Alpha-Beta Complex › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A 0.52 42.0 2.78e-01 90.4% 71.2%
6jwfA01 2.120.10.30 Mainly Beta › 6 Propeller › Neuraminidase › TolB, C-terminal domain 0.52 42.0 2.62e-01 100.0% 77.8%
3icyA00 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.51 38.0 2.96e-01 80.8% 57.6%
3cjxA01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.50 40.0 2.96e-01 90.4% 81.3%
ECOD (64)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4527834 245.2.1.1 ↗ a+b two layers › Ribonuclease PH domain 2-like › YbaB › YbaB › YbaB_DNA_bd 0.80 52.0 4.81e-01 100.0% 53.8%
4067567 245.2.1.1 ↗ a+b two layers › Ribonuclease PH domain 2-like › YbaB › YbaB › YbaB_DNA_bd 0.80 52.0 4.18e-01 100.0% 36.8%
4139864 245.2.1.1 ↗ a+b two layers › Ribonuclease PH domain 2-like › YbaB › YbaB › YbaB_DNA_bd 0.78 52.0 4.15e-01 100.0% 36.7%
4975364 56.2.1.0 ↗ beta sandwiches › Epsilon subunit of F1F0-ATP synthase-N › CO dehydrogenase accessory protein CooT › CO dehydrogenase accessory protein CooT 0.77 50.0 4.69e-01 82.7% 53.8%
4994856 220.1.1.219 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › CheF-arch 0.76 59.0 4.51e-01 92.3% 39.1%
3386831 2484.1.1.29 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Ppx-GppA 0.73 50.0 3.82e-01 71.2% 53.9%
3250883 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.72 52.0 4.12e-01 76.9% 61.0%
3576679 2485.1.1.32 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like › Sep15_SelM 0.71 51.0 3.89e-01 76.9% 60.8%
3604410 2004.1.1.293 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_15 0.71 54.0 3.66e-01 80.8% 30.6%
4650684 3239.1.1.1 ↗ alpha complex topology › Cas1 › Cas1 › Cas1 › Cas_Cas1 0.71 57.0 3.42e-01 86.5% 18.5%
3630433 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.71 53.0 4.08e-01 86.5% 36.5%
4004179 220.1.1.22 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › FERM_C 0.69 57.0 3.74e-01 94.2% 21.7%
3260272 220.1.1.10 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › SSrecog 0.69 54.0 4.02e-01 84.6% 50.8%
4169299 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.69 56.0 4.43e-01 92.3% 50.5%
4110965 2484.1.1.37 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Pan_kinase 0.67 49.0 3.54e-01 76.9% 39.3%
4116094 2484.1.1.37 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Pan_kinase 0.67 48.0 3.75e-01 76.9% 42.6%
3269373 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.67 54.0 4.66e-01 96.2% 58.9%
4979642 3407.1.1.0 ↗ mixed a+b and a/b › Nop N-terminal domain › Nop N-terminal domain › Nop N-terminal domain 0.66 50.0 4.08e-01 82.7% 81.0%
3618164 5.1.4.298 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Beta-prop_ELP1_1st, Beta-prop_ELP1_2nd 0.66 52.0 2.90e-01 84.6% 27.2%
3250206 65.1.1.0 ↗ beta sandwiches › Composite domain of metallo-dependent hydrolases › Composite domain of metallo-dependent hydrolases › Composite domain of metallo-dependent hydrolases 0.65 49.0 4.41e-01 82.7% 76.0%
5009633 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.65 50.0 4.20e-01 84.6% 62.2%
3289369 220.1.1.255 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › bPH_10 0.65 46.0 4.16e-01 82.7% 52.5%
3977273 2484.1.1.8 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › ROK 0.64 49.0 3.64e-01 84.6% 67.9%
3478678 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.64 47.0 4.13e-01 76.9% 62.7%
3975175 2484.1.1.8 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › ROK 0.64 49.0 3.80e-01 84.6% 80.0%
5048832 2485.1.1.0 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like 0.63 50.0 3.87e-01 88.5% 85.0%
5039434 207.2.1.22 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Pectin lyase-like › Pectin lyase-like › Beta_helix 0.63 53.0 3.08e-01 92.3% 28.9%
4995988 3407.1.1.2 ↗ mixed a+b and a/b › Nop N-terminal domain › Nop N-terminal domain › Nop N-terminal domain › Nop5_56-rel_N_Arc 0.62 54.0 3.93e-01 94.2% 97.0%
4967196 2008.1.1.63 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › MvaI_BcnI 0.62 45.0 3.36e-01 76.9% 54.1%
3702049 2485.1.1.12 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like › SCO1-SenC 0.62 55.0 3.93e-01 98.1% 73.3%
5075934 3407.1.1.2 ↗ mixed a+b and a/b › Nop N-terminal domain › Nop N-terminal domain › Nop N-terminal domain › Nop5_56-rel_N_Arc 0.62 55.0 4.03e-01 98.1% 95.6%
4297945 4325.1.1.1 ↗ mixed a+b and a/b › YegP-like › YegP-like › YegP-like › DUF1508 0.62 46.0 4.55e-01 80.8% 87.3%
3781209 4.1.1.308 ↗ beta barrels › SH3 › SH3 › SH3 › PF31073 0.61 54.0 4.28e-01 96.2% 85.0%
4996926 2485.1.1.0 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like 0.61 47.0 4.05e-01 82.7% 80.0%
3252596 719.2.1.1 ↗ beta barrels › XRCC4, N-terminal domain-like › NE0471 N-terminal domain-like › NE0471 N-terminal domain-like › GBBH-like_N 0.61 49.0 3.72e-01 90.4% 90.8%
3606563 719.2.1.1 ↗ beta barrels › XRCC4, N-terminal domain-like › NE0471 N-terminal domain-like › NE0471 N-terminal domain-like › GBBH-like_N 0.61 49.0 3.69e-01 90.4% 80.8%
4545531 220.1.1.255 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › bPH_10 0.60 44.0 3.90e-01 82.7% 51.2%
4932280 3407.1.1.0 ↗ mixed a+b and a/b › Nop N-terminal domain › Nop N-terminal domain › Nop N-terminal domain 0.60 43.0 3.61e-01 76.9% 53.3%
5020026 3407.1.1.0 ↗ mixed a+b and a/b › Nop N-terminal domain › Nop N-terminal domain › Nop N-terminal domain 0.60 52.0 4.36e-01 94.2% 96.5%
4670927 2003.1.3.1 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › Nucleotide-binding domain › DAO 0.60 47.0 3.09e-01 88.5% 89.6%
5077158 3407.1.1.2 ↗ mixed a+b and a/b › Nop N-terminal domain › Nop N-terminal domain › Nop N-terminal domain › Nop5_56-rel_N_Arc 0.59 50.0 3.75e-01 96.2% 95.6%
153187 2485.1.1.4 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like › AhpC-TSA 0.59 49.0 3.61e-01 94.2% 98.6%
5001814 3407.1.1.0 ↗ mixed a+b and a/b › Nop N-terminal domain › Nop N-terminal domain › Nop N-terminal domain 0.58 51.0 4.29e-01 96.2% 96.5%
5035449 7516.1.1.1 ↗ a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › NTP_transferase 0.57 39.0 2.61e-01 75.0% 78.0%
3661144 5.1.3.118 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › FBA_3 0.57 47.0 2.96e-01 100.0% 47.5%
4977323 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.57 48.0 3.68e-01 96.2% 56.8%
3974688 4325.1.1.0 ↗ mixed a+b and a/b › YegP-like › YegP-like › YegP-like 0.57 41.0 4.17e-01 80.8% 90.0%
3629558 304.9.1.1 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_1 0.56 43.0 3.42e-01 84.6% 59.1%
4127375 7516.1.1.5 ↗ a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › IspD 0.56 41.0 2.73e-01 80.8% 75.4%
5022868 244.4.1.2 ↗ 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 › NiFeSe_Hases 0.56 46.0 3.81e-01 88.5% 61.4%
4429348 2484.1.1.311 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › SHS2_FTSA, DDR, FtsA 0.56 50.0 2.92e-01 100.0% 18.6%
None — 0.56 49.0 2.97e-01 100.0% 27.3%
3958242 885.1.1.0 ↗ a+b complex topology › Transcription factor NusA, N-terminal domain › Transcription factor NusA, N-terminal domain › Transcription factor NusA, N-terminal domain 0.56 48.0 3.83e-01 94.2% 77.0%
None — 0.56 46.0 2.92e-01 92.3% 18.9%
3700370 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.56 47.0 2.76e-01 100.0% 10.4%
4650838 2003.1.3.1 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › Nucleotide-binding domain › DAO 0.55 47.0 2.86e-01 100.0% 30.3%
4484607 2003.1.3.1 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › Nucleotide-binding domain › DAO 0.55 48.0 2.85e-01 100.0% 25.1%
4928587 7516.1.1.1 ↗ a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › NTP_transferase 0.54 40.0 2.80e-01 82.7% 96.4%
3712968 2485.1.1.12 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like › SCO1-SenC 0.54 45.0 3.09e-01 98.1% 82.8%
3343216 2484.1.1.67 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RVT_3 0.53 40.0 3.24e-01 88.5% 77.5%
3506427 71.1.1.0 ↗ beta meanders › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB 0.53 42.0 3.36e-01 98.1% 52.8%
4940711 7516.1.1.1 ↗ a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › NTP_transferase 0.52 41.0 2.60e-01 82.7% 94.0%
5078474 7516.1.1.1 ↗ a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › NTP_transferase 0.52 40.0 2.65e-01 90.4% 51.1%
5053230 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.51 42.0 3.27e-01 94.2% 45.0%