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SR-VP_2-4_scaffold_141_2952615_prodigal-single.1__X__X__00264
Bact-VirSR-VP_2-4_scaffold_141_2952615_prodigal-single.1__X__X__00264
Identity
- Kingdom:
- phage
Quality
74.6
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 11-50
Domain cluster:
representative
Pfam (1)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF14239.12 best | RRXRR | 35.4 | 1.40e-08 | 100.0% | 23.0% |
CATH (25)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 1tifA00 | 3.10.20.80 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › Translation initiation factor 3 (IF-3), N-terminal domain | 0.67 | 56.0 | 4.67e-01 | 100.0% | 57.9% |
| 4orlA00 | 3.10.450.50 | Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › | 0.63 | 53.0 | 3.95e-01 | 100.0% | 70.9% |
| 4b9kE00 | 3.30.710.10 | Alpha Beta › 2-Layer Sandwich › Potassium Channel Kv1.1; Chain A › Potassium Channel Kv1.1; Chain A | 0.62 | 46.0 | 3.74e-01 | 100.0% | 40.7% |
| 3bxwA03 | 3.10.50.10 | Alpha Beta › Roll › Chitinase A; domain 3 › | 0.60 | 48.0 | 4.46e-01 | 97.5% | 98.2% |
| 1wgrA01 | 3.10.20.90 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 | 0.59 | 49.0 | 4.03e-01 | 100.0% | 95.1% |
| 1gg3A02 | 3.10.20.90 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 | 0.59 | 45.0 | 3.94e-01 | 100.0% | 93.6% |
| 3pvlA02 | 3.10.20.90 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 | 0.58 | 46.0 | 3.68e-01 | 100.0% | 90.6% |
| 5eupA00 | 3.30.710.10 | Alpha Beta › 2-Layer Sandwich › Potassium Channel Kv1.1; Chain A › Potassium Channel Kv1.1; Chain A | 0.57 | 45.0 | 3.42e-01 | 100.0% | 34.2% |
| 2yg3A02 | 3.90.660.10 | Alpha Beta › Alpha-Beta Complex › Polyamine Oxidase; Chain A, domain 2 › | 0.57 | 44.0 | 3.09e-01 | 92.5% | 62.2% |
| 2k54A00 | 3.10.450.50 | Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › | 0.57 | 44.0 | 3.31e-01 | 100.0% | 65.9% |
| 2bw2A01 | 3.10.20.420 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › Bypass-of-forespore C, N-terminal domain | 0.56 | 41.0 | 4.00e-01 | 100.0% | 89.1% |
| 7pyvC02 | 3.10.20.90 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 | 0.56 | 43.0 | 3.86e-01 | 100.0% | 95.7% |
| 7sbiB01 | 3.10.20.90 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 | 0.56 | 42.0 | 3.76e-01 | 100.0% | 94.7% |
| 2kmaA02 | 3.10.20.90 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 | 0.55 | 42.0 | 3.61e-01 | 100.0% | 91.6% |
| 4uyiA00 | 3.30.710.10 | Alpha Beta › 2-Layer Sandwich › Potassium Channel Kv1.1; Chain A › Potassium Channel Kv1.1; Chain A | 0.55 | 42.0 | 3.18e-01 | 100.0% | 37.8% |
| 2dzkA01 | 3.10.20.90 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 | 0.55 | 42.0 | 3.67e-01 | 100.0% | 93.5% |
| 1m94A00 | 3.10.20.90 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 | 0.55 | 41.0 | 3.69e-01 | 100.0% | 93.2% |
| 1ttnA01 | 3.10.20.90 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 | 0.55 | 42.0 | 3.69e-01 | 100.0% | 93.2% |
| 3robA00 | 3.10.450.50 | Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › | 0.54 | 45.0 | 3.18e-01 | 97.5% | 67.9% |
| 1wh3A01 | 3.10.20.90 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 | 0.53 | 40.0 | 3.63e-01 | 100.0% | 95.8% |
| 6icmD00 | 3.10.20.30 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › Beta-grasp domain | 0.51 | 38.0 | 3.28e-01 | 100.0% | 97.7% |
| 5zliA01 | 3.10.20.70 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › Glutamine synthetase, N-terminal domain | 0.51 | 41.0 | 3.17e-01 | 100.0% | 68.9% |
| 2ra9A01 | 3.10.540.10 | Alpha Beta › Roll › duf1285 like fold › duf1285 like domain | 0.51 | 40.0 | 3.64e-01 | 80.0% | 77.8% |
| 3qc8B00 | 3.10.20.90 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 | 0.51 | 36.0 | 3.25e-01 | 100.0% | 90.0% |
| 2mlbA00 | 3.10.20.90 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 | 0.50 | 37.0 | 3.30e-01 | 100.0% | 86.1% |
ECOD (24)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4999907 | 2484.1.1.337 ↗ | mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RRXRR | 0.94 | 87.0 | 5.10e-01 | 100.0% | 15.3% |
| 4950806 | 4.6.1.8 ↗ | beta barrels › SH3 › PRC-barrel domain › PRC-barrel domain › WH_Lhr | 0.70 | 59.0 | 5.41e-01 | 100.0% | 85.5% |
| 5027955 | 4961.1.1.1 ↗ | a+b complex topology › inserted a+b domain in yeast RNA polymerase beta subunit › inserted a+b domain in yeast RNA polymerase beta subunit › inserted a+b domain in yeast RNA polymerase beta subunit › RNA_pol_Rpb2_4 | 0.69 | 57.0 | 5.29e-01 | 100.0% | 89.1% |
| 3502554 | 221.2.1.1 ↗ | a+b two layers › beta-Grasp › IF3-N › IF3-N › IF3_N | 0.68 | 58.0 | 5.02e-01 | 100.0% | 70.8% |
| 4500967 | 221.2.1.1 ↗ | a+b two layers › beta-Grasp › IF3-N › IF3-N › IF3_N | 0.67 | 56.0 | 4.58e-01 | 100.0% | 55.0% |
| 3275203 | 221.2.1.1 ↗ | a+b two layers › beta-Grasp › IF3-N › IF3-N › IF3_N | 0.66 | 56.0 | 4.45e-01 | 100.0% | 51.8% |
| 4329803 | 242.2.1.0 ↗ | a+b two layers › Homing endonucleases-like › tRNA-intron endonuclease N-terminal domain-like › tRNA-intron endonuclease N-terminal domain-like | 0.65 | 50.0 | 4.59e-01 | 100.0% | 63.3% |
| 3668077 | 221.2.1.1 ↗ | a+b two layers › beta-Grasp › IF3-N › IF3-N › IF3_N | 0.64 | 49.0 | 4.29e-01 | 100.0% | 60.0% |
| 2452648 | 221.2.1.1 ↗ | a+b two layers › beta-Grasp › IF3-N › IF3-N › IF3_N | 0.62 | 52.0 | 4.15e-01 | 100.0% | 49.5% |
| 3673967 | 226.1.1.5 ↗ | a+b two layers › POZ domain › POZ domain › POZ domain › Skp1_POZ | 0.62 | 51.0 | 4.15e-01 | 100.0% | 51.8% |
| 4957877 | 221.1.1.0 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like | 0.62 | 49.0 | 4.34e-01 | 100.0% | 97.1% |
| 3432937 | 3121.1.1.8 ↗ | a+b duplicates or obligate multimers › Polypeptide transport-associated (POTRA) domain › Polypeptide transport-associated (POTRA) domain › Polypeptide transport-associated (POTRA) domain › POTRA1_3_Toc75 | 0.62 | 50.0 | 4.12e-01 | 100.0% | 90.6% |
| 1349265 | 226.1.1.5 ↗ | a+b two layers › POZ domain › POZ domain › POZ domain › Skp1_POZ | 0.62 | 45.0 | 3.65e-01 | 100.0% | 39.1% |
| 4459724 | 221.9.1.1 ↗ | a+b two layers › beta-Grasp › N-terminal domain of bypass of forespore C, BofC › N-terminal domain of bypass of forespore C, BofC › BOFC_N | 0.61 | 48.0 | 4.33e-01 | 100.0% | 73.8% |
| 3374702 | 1.1.11.1 ↗ | beta barrels › cradle loop barrel › RIFT-related › Type II restriction endonuclease effector domain › B3 | 0.59 | 50.0 | 4.25e-01 | 100.0% | 68.6% |
| 3935405 | 221.1.1.0 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like | 0.58 | 45.0 | 3.71e-01 | 100.0% | 91.1% |
| 6411 | 243.1.1.18 ↗ | a+b two layers › Cystatin-like › NTF2-like › NTF2-like › SnoaL_2 | 0.57 | 44.0 | 3.31e-01 | 100.0% | 65.9% |
| 4026392 | 221.1.1.0 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like | 0.56 | 46.0 | 4.14e-01 | 97.5% | 95.0% |
| 3621807 | 226.1.1.0 ↗ | a+b two layers › POZ domain › POZ domain › POZ domain | 0.56 | 41.0 | 3.45e-01 | 100.0% | 45.3% |
| 4942297 | 103.2.1.2 ↗ | alpha arrays › RuvA-C › ATP cone › ATP cone › ATP-cone | 0.56 | 39.0 | 3.19e-01 | 70.0% | 48.6% |
| 3303816 | 221.1.1.82 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › PADRE | 0.55 | 44.0 | 3.85e-01 | 100.0% | 82.9% |
| 3514415 | 221.1.1.162 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RBD_SIN1 | 0.54 | 42.0 | 3.53e-01 | 100.0% | 88.2% |
| 4954187 | 221.10.1.1 ↗ | a+b two layers › beta-Grasp › FdhD/NarQ beta-grasp fold domain › FdhD/NarQ beta-grasp fold domain › FdhD-NarQ | 0.52 | 39.0 | 3.69e-01 | 100.0% | 86.7% |
| 4994194 | 103.2.1.2 ↗ | alpha arrays › RuvA-C › ATP cone › ATP cone › ATP-cone | 0.51 | 37.0 | 2.99e-01 | 100.0% | 41.3% |
D2
high
residues 81-187
Domain cluster:
representative
CATH (5)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4avaA01 | 2.60.120.10 | Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls | 0.63 | 48.0 | 4.35e-01 | 100.0% | 60.4% |
| 4wksC02 | 2.30.120.10 | Mainly Beta › Roll › Penicillin G acylase, beta-roll domain › Aminohydrolase, N-terminal nucleophile (Ntn) domain, beta-sheet knob region | 0.57 | 25.0 | 2.96e-01 | 86.0% | 57.3% |
| 1to6A02 | 3.90.1510.10 | Alpha Beta › Alpha-Beta Complex › Glycerate kinase, domain 2 › Glycerate kinase, domain 2 | 0.55 | 40.0 | 3.19e-01 | 78.5% | 99.1% |
| 4kncA02 | 2.60.120.1380 | Mainly Beta › Sandwich › Jelly Rolls › C-terminal carbohydrate-binding module | 0.52 | 36.0 | 3.53e-01 | 70.1% | 100.0% |
| 1h4rA03 | 2.30.29.30 | Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) | 0.52 | 24.0 | 2.65e-01 | 73.8% | 51.6% |
ECOD (7)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3656728 | 252.1.1.0 ↗ | a+b two layers › DNA-binding domain › Methyl-CpG-binding domain, MBD › Methyl-CpG-binding domain, MBD | 0.67 | 24.0 | 3.24e-01 | 92.5% | 59.3% |
| 3801966 | 252.1.1.2 ↗ | a+b two layers › DNA-binding domain › Methyl-CpG-binding domain, MBD › Methyl-CpG-binding domain, MBD › DUF7028 | 0.59 | 24.0 | 2.80e-01 | 92.5% | 50.7% |
| 3432156 | 386.1.1.117 ↗ | few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › DUF7028 | 0.56 | 23.0 | 3.05e-01 | 91.6% | 69.1% |
| 4999507 | 330.7.1.2 ↗ | a+b two layers › dsRBD-like › PI-Pfui intein middle domain › PI-Pfui intein middle domain › HicA_toxin | 0.53 | 27.0 | 3.31e-01 | 99.1% | 75.7% |
| 4012023 | 2003.1.5.0 ↗ | a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases | 0.53 | 43.0 | 3.33e-01 | 90.7% | 84.4% |
| 3178390 | 373.1.1.0 ↗ | few secondary structure elements › Zn2/Cys6 DNA-binding domain › Zn2/Cys6 DNA-binding domain › Zn2/Cys6 DNA-binding domain | 0.52 | 29.0 | 3.49e-01 | 93.5% | 86.2% |
| 4991926 | 2004.1.1.146 ↗ | a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ATPase | 0.51 | 42.0 | 3.26e-01 | 92.5% | 83.1% |
D3
high
residues 213-277
Domain cluster:
representative
CATH (13)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 2jqqA00 | 1.20.58.1240 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.66 | 55.0 | 4.34e-01 | 100.0% | 66.9% |
| 2guzB00 | 1.10.287.110 | Mainly Alpha › Orthogonal Bundle › Helix Hairpins › DnaJ domain | 0.65 | 44.0 | 4.48e-01 | 70.8% | 83.1% |
| 4mk3A02 | 1.20.1050.10 | Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › | 0.63 | 52.0 | 4.49e-01 | 100.0% | 87.8% |
| 2vixA03 | 1.20.1280.240 | Mainly Alpha › Up-down Bundle › Monooxygenase › | 0.62 | 53.0 | 4.51e-01 | 100.0% | 61.9% |
| 3pe0A02 | 1.20.58.60 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.62 | 47.0 | 4.06e-01 | 84.6% | 86.8% |
| 4d8mA01 | 1.20.190.10 | Mainly Alpha › Up-down Bundle › Delta-Endotoxin; domain 1 › Pesticidal crystal protein, N-terminal domain | 0.62 | 51.0 | 3.70e-01 | 100.0% | 54.6% |
| 2e52B01 | 3.40.91.70 | Alpha Beta › 3-Layer(aba) Sandwich › Restriction Endonuclease › Type II restriction endonuclease, HindIII | 0.60 | 51.0 | 3.58e-01 | 100.0% | 76.3% |
| 3nbxX03 | 1.20.58.1510 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › | 0.59 | 41.0 | 3.67e-01 | 75.4% | 82.2% |
| 3dpjF00 | 1.10.357.10 | Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 | 0.58 | 47.0 | 3.56e-01 | 96.9% | 54.8% |
| 2lt3A01 | 1.20.58.1290 | Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › CarD-like, C-terminal domain | 0.57 | 46.0 | 4.07e-01 | 90.8% | 60.0% |
| 2ycdA02 | 1.20.1050.10 | Mainly Alpha › Up-down Bundle › Glutathione S-transferase Yfyf (Class Pi); Chain A, domain 2 › | 0.57 | 47.0 | 4.04e-01 | 100.0% | 83.8% |
| 3rhfD00 | 3.40.50.300 | Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases | 0.54 | 46.0 | 3.14e-01 | 100.0% | 40.9% |
| 2wg7A00 | 1.20.90.10 | Mainly Alpha › Up-down Bundle › Phospholipase A2 › Phospholipase A2 domain | 0.52 | 36.0 | 3.09e-01 | 76.9% | 77.7% |
ECOD (14)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4954354 | 7516.1.1.2 ↗ | a/b three-layered sandwiches › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Nucleotide-diphospho-sugar transferases › Glycos_transf_2 | 0.77 | 67.0 | 4.23e-01 | 100.0% | 25.5% |
| 3180163 | 109.4.1.46 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › IBN_N | 0.66 | 56.0 | 3.61e-01 | 100.0% | 23.6% |
| 4062860 | 109.4.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat | 0.64 | 57.0 | 4.21e-01 | 100.0% | 43.5% |
| 3272997 | 109.4.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat | 0.63 | 54.0 | 3.94e-01 | 100.0% | 62.1% |
| 3599594 | 109.4.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat | 0.63 | 53.0 | 3.15e-01 | 100.0% | 24.1% |
| 3685497 | 109.4.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat | 0.63 | 53.0 | 3.75e-01 | 100.0% | 37.3% |
| 3692533 | 109.4.1.0 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat | 0.62 | 53.0 | 4.06e-01 | 100.0% | 48.5% |
| 2634206 | 563.2.1.0 ↗ | alpha bundles › ATPD N-terminal domain-like › Cas Cmr5-like › Cas Cmr5-like | 0.61 | 43.0 | 3.29e-01 | 73.8% | 96.1% |
| 3462175 | 604.1.1.0 ↗ | alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat | 0.61 | 47.0 | 3.82e-01 | 84.6% | 65.4% |
| 3557037 | 109.4.1.893 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › UTP6_C | 0.59 | 49.0 | 3.84e-01 | 100.0% | 45.0% |
| 3790743 | 109.4.1.1303 ↗ | alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › HAT_PRP39_N, HAT_PRP39_C | 0.59 | 48.0 | 2.90e-01 | 100.0% | 11.4% |
| 4877931 | 2500.1.1.3 ↗ | a/b barrels › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › Ten stranded beta/alpha barrel › PFL-like | 0.57 | 47.0 | 2.79e-01 | 100.0% | 73.5% |
| 5038668 | 4266.2.1.0 ↗ | alpha bundles › Hyaluronidase domain-like › TTHA0068-like › TTHA0068-like | 0.54 | 46.0 | 4.22e-01 | 100.0% | 80.0% |
| 3734104 | 101.1.2.392 ↗ | alpha arrays › HTH › HTH › winged helix domain › SNRNP200_wHTH | 0.52 | 36.0 | 3.45e-01 | 73.8% | 95.0% |