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SRR1747065_scaffold_38_prodigal-single.1__X__X__00183

Bact-Vir

SRR1747065_scaffold_38_prodigal-single.1__X__X__00183

Identity

Kingdom:
phage

Quality

91.9 mean pLDDT

3D Structure

Domains

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

D1 medium residues 1-81
PDB
Domain cluster: representative
CATH (4)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3qc7A02 6.10.140.1630 Special › Helix non-globular › Helix Hairpins › 0.74 29.0 3.68e-01 84.0% 58.8%
3au2A04 3.30.210.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 3 › DNA polymerase, thumb domain 0.67 37.0 4.09e-01 84.0% 67.7%
3fnrA02 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.60 42.0 2.83e-01 98.8% 19.4%
2bcqA04 3.30.210.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 3 › DNA polymerase, thumb domain 0.57 38.0 4.12e-01 84.0% 83.6%
ECOD (6)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4250277 502.1.1.1 ↗ a+b two layers › Anti-LPS factor/recA domain › Anti-LPS factor/recA domain › Anti-LPS factor/recA domain › RecA_C 0.62 45.0 4.81e-01 91.4% 88.6%
4277443 2008.1.1.141 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDDEXK_19 0.54 43.0 3.85e-01 90.1% 90.8%
4037784 2008.1.1.6 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 0.53 39.0 3.36e-01 79.0% 96.2%
4329875 2008.1.1.6 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 0.52 38.0 3.35e-01 79.0% 91.2%
119096 3071.1.1.0 ↗ a+b complex topology › C-terminal insertion domain in phage tail proteins › C-terminal insertion domain in phage tail proteins › C-terminal insertion domain in phage tail proteins 0.51 32.0 3.76e-01 84.0% 91.1%
4066769 2008.1.1.6 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › UPF0102 0.51 39.0 3.60e-01 82.7% 97.2%
D2 medium residues 82-156
PDB
Domain cluster: representative
CATH (37)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2l2nA00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.79 53.0 5.47e-01 70.7% 73.2%
2l2mA00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.77 51.0 5.27e-01 70.7% 72.9%
2l6mA00 3.30.160.400 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.73 50.0 4.53e-01 70.7% 68.3%
3c4bA02 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.73 46.0 4.83e-01 70.7% 71.6%
3ro6C01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.72 49.0 4.40e-01 70.7% 97.2%
1whqA01 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.71 48.0 4.94e-01 70.7% 73.2%
2khxA00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.71 47.0 4.64e-01 70.7% 64.6%
3ddmA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.69 47.0 3.95e-01 70.7% 87.2%
1vw4502 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.66 45.0 4.25e-01 72.0% 64.1%
2kvtA00 3.30.730.30 Alpha Beta › 2-Layer Sandwich › GCC-box Binding Domain › YaiA protein 0.65 45.0 4.60e-01 72.0% 77.5%
3obwA02 3.30.420.60 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › eRF1 domain 2 0.63 35.0 3.03e-01 100.0% 33.9%
4ibnA01 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.60 45.0 3.43e-01 82.7% 59.6%
3q9oA01 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.59 41.0 2.95e-01 70.7% 74.1%
3qooA00 3.10.129.10 Alpha Beta › Roll › Thiol Ester Dehydrase; Chain A › Hotdog Thioesterase 0.59 35.0 2.94e-01 98.7% 32.8%
1mgpA02 3.30.1180.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Protein Tm841; Chain: A;domain 3 › 0.58 39.0 3.41e-01 70.7% 47.1%
2cm4A00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.57 38.0 3.09e-01 81.3% 35.2%
4jn7A01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.57 50.0 4.32e-01 98.7% 89.9%
1xteA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.57 39.0 3.47e-01 72.0% 96.6%
2p97A00 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.56 45.0 3.34e-01 89.3% 87.1%
1lshA03 2.20.50.20 Mainly Beta › Single Sheet › Outer Surface Protein A; domain 2 › Lipovitellin. Chain A, domain 3 0.54 43.0 4.02e-01 88.0% 82.7%
2v14A00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.54 38.0 3.23e-01 74.7% 90.3%
6t5kC00 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.54 43.0 3.09e-01 86.7% 71.4%
1zs7A01 3.10.450.120 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › Pre-PUA domain; domain 1 0.54 41.0 3.72e-01 82.7% 74.0%
5jciA03 3.30.390.30 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › FAD/NAD-linked reductase, C-terminal dimerisation domain 0.54 37.0 3.56e-01 72.0% 94.4%
2rajA02 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.53 36.0 3.10e-01 70.7% 72.2%
6etzA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 37.0 3.57e-01 96.0% 65.5%
1pzxA03 3.30.1180.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Protein Tm841; Chain: A;domain 3 › 0.52 35.0 3.05e-01 70.7% 45.9%
2qguA01 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.52 36.0 3.37e-01 77.3% 55.4%
6jptA00 3.30.230.90 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › 0.52 39.0 3.38e-01 81.3% 80.2%
6u5uG07 3.30.1120.100 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › 0.52 42.0 3.63e-01 97.3% 53.8%
3apuB00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.51 35.0 2.78e-01 82.7% 31.4%
1lshA04 2.20.80.10 Mainly Beta › Single Sheet › Lipovitellin-phosvitin complex, chain A, domain 4 › Lipovitellin-phosvitin complex, chain A, domain 4 0.51 39.0 2.77e-01 84.0% 53.4%
1krlA00 6.20.50.130 Special › Other non-globular › N-terminal domain of TfIIb › 0.51 29.0 3.33e-01 96.0% 88.6%
2gqwA03 3.30.390.30 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › FAD/NAD-linked reductase, C-terminal dimerisation domain 0.51 37.0 3.55e-01 78.7% 91.0%
2k75A01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.51 37.0 3.38e-01 78.7% 65.0%
3ktnA00 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.50 38.0 2.59e-01 86.7% 92.1%
6qp7A01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.50 42.0 2.65e-01 100.0% 30.0%
ECOD (61)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3221077 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.80 55.0 5.38e-01 70.7% 67.5%
3252638 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.79 52.0 5.13e-01 70.7% 63.7%
3815823 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.79 52.0 4.89e-01 70.7% 56.7%
3253472 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.79 52.0 5.00e-01 70.7% 60.0%
3327575 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.78 52.0 4.76e-01 70.7% 52.0%
3299579 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.77 50.0 5.16e-01 70.7% 71.4%
3727458 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.76 52.0 4.97e-01 70.7% 63.5%
3333267 330.1.1.5 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › DND1_DSRM 0.75 51.0 4.75e-01 70.7% 65.3%
3305941 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.75 50.0 4.23e-01 70.7% 42.5%
3369111 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.75 50.0 4.86e-01 70.7% 61.2%
3245175 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.75 53.0 4.94e-01 74.7% 63.2%
5021438 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.75 61.0 5.54e-01 88.0% 72.0%
3436776 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.75 49.0 4.43e-01 70.7% 50.0%
3449957 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.74 50.0 4.61e-01 70.7% 54.7%
3403381 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.73 47.0 4.29e-01 70.7% 49.0%
3452167 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.73 51.0 4.22e-01 72.0% 46.9%
3333919 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.73 49.0 4.74e-01 70.7% 61.2%
3426692 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.73 49.0 4.92e-01 70.7% 69.3%
4245955 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 0.73 50.0 4.11e-01 70.7% 41.5%
3669022 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.73 50.0 4.64e-01 72.0% 57.9%
3965319 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 0.72 49.0 4.26e-01 70.7% 47.0%
3329514 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.72 48.0 4.76e-01 70.7% 65.0%
3830762 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.72 49.0 4.52e-01 70.7% 60.0%
3653274 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.72 47.0 4.56e-01 70.7% 60.0%
3517153 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.71 48.0 4.75e-01 70.7% 67.5%
3670605 330.1.1.3 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › Dicer_dimer 0.71 48.0 4.54e-01 70.7% 70.0%
4510000 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 0.71 48.0 4.24e-01 70.7% 49.1%
3481288 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.70 56.0 4.87e-01 86.7% 67.8%
3348638 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.70 48.0 4.14e-01 70.7% 47.0%
1244069 243.1.1.27 ↗ a+b two layers › Cystatin-like › NTF2-like › NTF2-like › DUF4348 0.69 37.0 3.19e-01 88.0% 34.2%
3299580 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.69 48.0 5.10e-01 72.0% 84.6%
3739762 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 0.69 47.0 4.05e-01 70.7% 45.0%
4169235 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 0.69 47.0 4.01e-01 70.7% 43.9%
4507935 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 0.68 47.0 3.97e-01 70.7% 43.9%
3625247 241.15.1.0 ↗ a+b two layers › Type III secretory system chaperone-like › FP (Fbxo7/PI31) dimerization domain › FP (Fbxo7/PI31) dimerization domain 0.67 46.0 4.10e-01 72.0% 65.5%
3250471 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.66 45.0 4.19e-01 70.7% 61.1%
1170111 243.1.1.27 ↗ a+b two layers › Cystatin-like › NTF2-like › NTF2-like › DUF4348 0.65 35.0 3.06e-01 88.0% 34.2%
119245 252.3.1.1 ↗ a+b two layers › DNA-binding domain › Uncharacterized protein yaiA › Uncharacterized protein yaiA › YaiA 0.65 45.0 4.60e-01 72.0% 77.5%
4002087 3698.1.1.1 ↗ beta sandwiches › Arginine methyltransferase oligomerization subdomain › Arginine methyltransferase oligomerization subdomain › Arginine methyltransferase oligomerization subdomain › PRMT5_C 0.65 43.0 3.31e-01 97.3% 31.9%
4228218 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 0.64 44.0 3.66e-01 70.7% 45.1%
3626173 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.60 38.0 2.53e-01 100.0% 15.1%
3386946 9.1.1.11 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › Lipocalin_2 0.60 43.0 3.49e-01 82.7% 38.9%
4426056 227.1.1.4 ↗ a+b two layers › DNA clamp › DNA clamp › DNA clamp › Rad1 0.59 35.0 2.75e-01 94.7% 27.7%
4124320 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 0.58 40.0 3.44e-01 73.3% 42.3%
3235708 214.1.1.0 ↗ a+b two layers › SH2 › SH2 › SH2 0.58 39.0 3.61e-01 70.7% 68.0%
3744517 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.57 39.0 3.42e-01 72.0% 96.7%
4117325 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 0.56 39.0 3.36e-01 74.7% 42.3%
5055629 3604.1.1.0 ↗ a+b two layers › Uncharacterized protein MK0293 C-terminal domain › Uncharacterized protein MK0293 C-terminal domain › Uncharacterized protein MK0293 C-terminal domain 0.55 33.0 3.56e-01 86.7% 71.7%
3220873 214.1.1.9 ↗ a+b two layers › SH2 › SH2 › SH2 › DUF7063 0.55 37.0 3.44e-01 70.7% 68.0%
4132235 2002.1.1.120 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Radical_SAM 0.55 42.0 2.90e-01 86.7% 92.5%
4956582 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.53 38.0 3.32e-01 77.3% 47.2%
3643787 5.1.3.142 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › Beta-prop_AT5G49610-like 0.53 41.0 2.66e-01 84.0% 22.0%
3695010 3435.1.1.3 ↗ a+b two layers › Recombination-associated protein rdgC › Recombination-associated protein rdgC › Recombination-associated protein rdgC › CENP-L 0.53 36.0 2.71e-01 72.0% 89.6%
3168583 3435.1.1.2 ↗ a+b two layers › Recombination-associated protein rdgC › Recombination-associated protein rdgC › Recombination-associated protein rdgC › CENP-N 0.53 44.0 3.72e-01 94.7% 70.8%
5047469 331.10.2.0 ↗ a+b two layers › TBP-like › S-adenosylmethionine decarboxylase-related › Bacterial S-adenosylmethionine decarboxylase 0.52 36.0 3.14e-01 74.7% 74.6%
3257603 277.1.1.1 ↗ a+b two layers › PX domain › PX domain › PX domain › PX 0.51 38.0 3.38e-01 82.7% 95.0%
3038786 298.1.1.8 ↗ a+b two layers › FwdE/GAPDH domain-like › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain › Glyceraldehyde-3-phosphate dehydrogenase-like, C-terminal domain › GFO_IDH_MocA_C 0.51 37.0 2.81e-01 82.7% 38.5%
168731 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.51 37.0 3.44e-01 78.7% 68.4%
4985567 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.51 37.0 3.48e-01 80.0% 72.6%
3212636 206.1.1.0 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase 0.51 41.0 2.45e-01 89.3% 37.7%
4156379 2484.1.1.41 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › AnmK 0.50 38.0 3.04e-01 84.0% 47.3%