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SR-VP_2-4_scaffold_141_1208361_prodigal-single.1__X__X__00564
Bact-VirSR-VP_2-4_scaffold_141_1208361_prodigal-single.1__X__X__00564
Identity
- Kingdom:
- phage
Quality
90.6
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 3-82
Domain cluster:
representative
CATH (27)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1f7uA01 | 3.40.50.620 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs | 0.64 | 45.0 | 2.91e-01 | 72.5% | 45.8% |
| 1xmkA00 | 1.10.10.10 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain | 0.60 | 40.0 | 4.11e-01 | 70.0% | 74.7% |
| 4i2oA02 | 1.10.10.10 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain | 0.59 | 40.0 | 4.01e-01 | 81.2% | 70.0% |
| 1oyiA00 | 1.10.10.10 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain | 0.58 | 37.0 | 4.18e-01 | 71.2% | 83.9% |
| 1cw1A00 | 3.40.718.10 | Alpha Beta › 3-Layer(aba) Sandwich › Isopropylmalate Dehydrogenase › Isopropylmalate Dehydrogenase | 0.58 | 46.0 | 2.91e-01 | 86.3% | 18.1% |
| 4r5qA00 | 3.90.320.10 | Alpha Beta › Alpha-Beta Complex › Lambda Exonuclease; Chain A › | 0.57 | 42.0 | 3.19e-01 | 80.0% | 45.1% |
| 1li5B01 | 3.40.50.620 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs | 0.57 | 47.0 | 3.19e-01 | 86.3% | 39.1% |
| 5c68A00 | 3.10.180.10 | Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 | 0.57 | 36.0 | 3.26e-01 | 80.0% | 45.9% |
| 3bwgB01 | 1.10.10.10 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain | 0.56 | 34.0 | 3.65e-01 | 73.8% | 69.6% |
| 2mdiA00 | 2.20.70.10 | Mainly Beta › Single Sheet › Ubiquitin Ligase Nedd4; Chain: W; › | 0.56 | 29.0 | 3.45e-01 | 83.7% | 73.2% |
| 4hqeA00 | 1.10.10.10 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain | 0.55 | 38.0 | 3.46e-01 | 70.0% | 59.0% |
| 3df8A00 | 1.10.10.10 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain | 0.55 | 38.0 | 3.50e-01 | 71.2% | 53.2% |
| 1c0wA01 | 1.10.10.10 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain | 0.55 | 37.0 | 3.87e-01 | 72.5% | 78.1% |
| 2hs5A01 | 1.10.10.10 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain | 0.55 | 32.0 | 3.48e-01 | 70.0% | 68.7% |
| 4paaA01 | 3.50.50.60 | Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain | 0.55 | 45.0 | 3.27e-01 | 93.8% | 71.8% |
| 3edpA01 | 1.10.10.10 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain | 0.54 | 34.0 | 3.55e-01 | 70.0% | 67.1% |
| 2isyA01 | 1.10.10.10 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain | 0.54 | 37.0 | 3.17e-01 | 72.5% | 42.0% |
| 1stzA01 | 1.10.10.10 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain | 0.54 | 37.0 | 3.67e-01 | 71.2% | 69.4% |
| 3b73B00 | 1.10.10.10 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain | 0.53 | 36.0 | 3.48e-01 | 70.0% | 62.9% |
| 1hw1A01 | 1.10.10.10 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain | 0.52 | 33.0 | 3.45e-01 | 71.2% | 68.0% |
| 1k78B00 | 1.10.10.10 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain | 0.52 | 37.0 | 3.48e-01 | 76.2% | 68.6% |
| 3egyX00 | 3.30.572.10 | Alpha Beta › 2-Layer Sandwich › Thymidylate Synthase; Chain A › Thymidylate synthase/dCMP hydroxymethylase domain | 0.52 | 41.0 | 3.04e-01 | 88.7% | 53.8% |
| 2fxaA00 | 1.10.10.10 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain | 0.52 | 40.0 | 3.29e-01 | 85.0% | 66.7% |
| 2jmzA01 | 2.170.16.10 | Mainly Beta › Beta Complex › Endonuclease - Pi-scei; Chain A, domain 1 › Hedgehog/Intein (Hint) domain | 0.51 | 36.0 | 2.89e-01 | 75.0% | 100.0% |
| 2cnqA02 | 3.30.470.20 | Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain | 0.51 | 39.0 | 3.21e-01 | 82.5% | 78.3% |
| 3py8A04 | 1.10.150.20 | Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › 5' to 3' exonuclease, C-terminal subdomain | 0.50 | 37.0 | 3.15e-01 | 80.0% | 97.2% |
| 4mymA00 | 3.10.180.10 | Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 | 0.50 | 38.0 | 3.16e-01 | 90.0% | 43.7% |
ECOD (30)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3789788 | 2005.1.1.7 ↗ | a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › tRNA-synt_1d | 0.69 | 48.0 | 3.08e-01 | 72.5% | 40.4% |
| 3790093 | 2005.1.1.0 ↗ | a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains | 0.69 | 48.0 | 2.94e-01 | 72.5% | 31.6% |
| 5071019 | 2005.1.1.7 ↗ | a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › tRNA-synt_1d | 0.66 | 45.0 | 3.09e-01 | 71.2% | 53.3% |
| 3470611 | 2005.1.1.7 ↗ | a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › tRNA-synt_1d | 0.65 | 44.0 | 2.91e-01 | 70.0% | 39.7% |
| 3184687 | 376.1.6.0 ↗ | few secondary structure elements › RING/U-box-like › RING/U-box-like › IBR domain | 0.65 | 28.0 | 3.91e-01 | 72.5% | 82.5% |
| 5028816 | 2005.1.1.7 ↗ | a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › tRNA-synt_1d | 0.65 | 46.0 | 2.75e-01 | 73.8% | 26.9% |
| 3932457 | 2005.1.1.7 ↗ | a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › tRNA-synt_1d | 0.64 | 43.0 | 2.97e-01 | 71.2% | 54.8% |
| 3942405 | 4312.1.1.5 ↗ | a+b two layers › RelE-like › RelE-like › RelE-like › RelE | 0.61 | 40.0 | 3.81e-01 | 78.8% | 55.8% |
| 3975793 | 4312.1.1.5 ↗ | a+b two layers › RelE-like › RelE-like › RelE-like › RelE | 0.61 | 39.0 | 3.77e-01 | 78.8% | 55.8% |
| 3876302 | 101.1.2.206 ↗ | alpha arrays › HTH › HTH › winged helix domain › SAMD1_WH | 0.60 | 41.0 | 3.81e-01 | 71.2% | 57.1% |
| 4647064 | 211.1.1.0 ↗ | a+b two layers › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase | 0.60 | 40.0 | 4.49e-01 | 83.7% | 91.7% |
| 4261306 | 2005.1.1.12 ↗ | a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › tRNA-synt_1e | 0.59 | 48.0 | 3.05e-01 | 86.3% | 34.7% |
| 4240820 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.58 | 39.0 | 3.31e-01 | 71.2% | 41.9% |
| 4657866 | 101.1.2.27 ↗ | alpha arrays › HTH › HTH › winged helix domain › LexA_DNA_bind | 0.58 | 39.0 | 3.98e-01 | 70.0% | 76.2% |
| 3726440 | 316.1.1.0 ↗ | a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase | 0.58 | 44.0 | 3.41e-01 | 83.7% | 45.9% |
| 4230066 | 101.1.2.27 ↗ | alpha arrays › HTH › HTH › winged helix domain › LexA_DNA_bind | 0.57 | 38.0 | 3.73e-01 | 70.0% | 73.3% |
| None | — | 0.57 | 46.0 | 3.03e-01 | 86.3% | 41.9% | |
| 3518355 | 101.1.2.383 ↗ | alpha arrays › HTH › HTH › winged helix domain › HTH_69 | 0.56 | 37.0 | 3.61e-01 | 70.0% | 58.9% |
| 3799828 | 207.1.1.0 ↗ | beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats | 0.56 | 37.0 | 2.60e-01 | 70.0% | 38.4% |
| 4269668 | 7000.1.1.0 ↗ | alpha arrays › inserted region in the C-terminal domain of the archeal LeuRS › inserted region in the C-terminal domain of the archeal LeuRS › inserted region in the C-terminal domain of the archeal LeuRS | 0.56 | 35.0 | 3.94e-01 | 78.8% | 90.9% |
| 5074949 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.55 | 37.0 | 3.62e-01 | 70.0% | 66.7% |
| 3780643 | 101.1.2.36 ↗ | alpha arrays › HTH › HTH › winged helix domain › z-alpha | 0.55 | 36.0 | 3.69e-01 | 70.0% | 68.8% |
| 4266402 | 3692.1.1.1 ↗ | a+b two layers › Ornithine cyclodeaminase-like enzymes dimerization domain › Ornithine cyclodeaminase-like enzymes dimerization domain › Ornithine cyclodeaminase-like enzymes dimerization domain › OCD_Mu_crystall | 0.54 | 40.0 | 3.43e-01 | 77.5% | 96.0% |
| 3973673 | 101.1.2.0 ↗ | alpha arrays › HTH › HTH › winged helix domain | 0.53 | 35.0 | 3.59e-01 | 72.5% | 68.8% |
| 3228605 | 101.1.2.309 ↗ | alpha arrays › HTH › HTH › winged helix domain › GPAT_C | 0.53 | 40.0 | 3.17e-01 | 83.7% | 90.8% |
| 4943276 | 101.1.2.652 ↗ | alpha arrays › HTH › HTH › winged helix domain › Fe_dep_repr_C | 0.53 | 35.0 | 2.99e-01 | 70.0% | 41.7% |
| 3784616 | 211.1.1.0 ↗ | a+b two layers › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase | 0.52 | 34.0 | 3.77e-01 | 80.0% | 88.3% |
| 3285546 | 211.1.1.0 ↗ | a+b two layers › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase | 0.52 | 38.0 | 3.50e-01 | 87.5% | 58.2% |
| 5044888 | 101.1.2.136 ↗ | alpha arrays › HTH › HTH › winged helix domain › HTH_20 | 0.51 | 35.0 | 2.98e-01 | 72.5% | 45.0% |
| 3394463 | 2004.1.1.230 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Tsr1_G-like | 0.51 | 40.0 | 3.18e-01 | 90.0% | 61.1% |