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Ubiquitin
Euk-VirPandoravirus_salinus
Ubiquitin__YP_008437930__Pandoravirus_salinus__1349410
Identity
- Accession:
- YP_008437930 ↗
- Protein ID:
- Ubiquitin
- Kingdom:
- euk
Quality
76.0
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 6-69
Domain cluster:
representative
CATH (18)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 6djwA01 | 3.10.20.90 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 | 0.81 | 71.0 | 6.82e-01 | 100.0% | 84.7% |
| 2m4nA00 | 3.10.20.90 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 | 0.80 | 72.0 | 6.00e-01 | 100.0% | 76.9% |
| 2fazA00 | 3.10.20.90 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 | 0.80 | 71.0 | 6.71e-01 | 100.0% | 81.8% |
| 6qlyA01 | 3.10.20.90 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 | 0.79 | 71.0 | 6.50e-01 | 100.0% | 79.5% |
| 1wgdA00 | 3.10.20.90 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 | 0.78 | 69.0 | 6.15e-01 | 100.0% | 68.8% |
| 6kykA01 | 3.10.20.90 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 | 0.78 | 70.0 | 6.37e-01 | 100.0% | 83.3% |
| 2gbmA00 | 3.10.20.90 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 | 0.76 | 68.0 | 6.29e-01 | 100.0% | 85.2% |
| 2cs4A00 | 3.10.20.90 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 | 0.76 | 67.0 | 5.86e-01 | 100.0% | 66.3% |
| 1v5tA00 | 3.10.20.90 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 | 0.74 | 66.0 | 5.85e-01 | 100.0% | 70.0% |
| 1x1mA00 | 3.10.20.90 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 | 0.74 | 65.0 | 5.52e-01 | 100.0% | 71.0% |
| 1v6eA01 | 3.10.20.90 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 | 0.74 | 65.0 | 6.06e-01 | 100.0% | 86.3% |
| 2dafA01 | 3.10.20.90 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 | 0.74 | 63.0 | 5.96e-01 | 100.0% | 81.6% |
| 2byvE05 | 3.10.20.90 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 | 0.73 | 66.0 | 6.13e-01 | 100.0% | 79.7% |
| 1wxvA01 | 3.10.20.90 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 | 0.72 | 63.0 | 5.99e-01 | 100.0% | 88.2% |
| 1wgyA01 | 3.10.20.90 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 | 0.72 | 63.0 | 6.03e-01 | 100.0% | 84.2% |
| 1fm0D00 | 3.10.20.30 | Alpha Beta › Roll › Ubiquitin-like (UB roll) › Beta-grasp domain | 0.67 | 57.0 | 5.33e-01 | 98.4% | 86.4% |
| 1tzfA00 | 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 | 0.54 | 41.0 | 2.86e-01 | 85.9% | 77.7% |
| 3g2bA00 | 1.10.10.1150 | Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Coenzyme PQQ synthesis protein D (PqqD) | 0.52 | 40.0 | 3.64e-01 | 90.6% | 60.0% |
ECOD (27)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3464487 | 221.1.1.2 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › ubiquitin | 0.85 | 76.0 | 7.19e-01 | 100.0% | 82.7% |
| 3195579 | 221.1.1.2 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › ubiquitin | 0.83 | 76.0 | 6.59e-01 | 100.0% | 71.6% |
| 4012521 | 221.1.1.2 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › ubiquitin | 0.82 | 72.0 | 7.18e-01 | 95.3% | 96.9% |
| 3252553 | 221.1.1.2 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › ubiquitin | 0.81 | 72.0 | 6.79e-01 | 100.0% | 82.7% |
| 3485847 | 221.1.1.36 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › FERM_N | 0.81 | 73.0 | 6.35e-01 | 100.0% | 70.5% |
| 3701490 | 221.1.1.2 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › ubiquitin | 0.80 | 70.0 | 6.67e-01 | 100.0% | 82.7% |
| 3540538 | 221.1.1.0 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like | 0.80 | 73.0 | 6.57e-01 | 100.0% | 83.5% |
| 4018328 | 221.1.1.0 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like | 0.79 | 71.0 | 6.44e-01 | 98.4% | 84.7% |
| 3915455 | 221.1.1.2 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › ubiquitin | 0.79 | 72.0 | 6.84e-01 | 100.0% | 86.7% |
| 3485674 | 109.3.1.163 ↗ | alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat › Ank, Ank_2, Ank_4, Ank_5 | 0.79 | 71.0 | 4.34e-01 | 100.0% | 19.5% |
| 3251876 | 221.1.1.56 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › FERM_f0 | 0.79 | 71.0 | 6.62e-01 | 100.0% | 87.5% |
| 3582056 | 221.1.1.76 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RA_2 | 0.78 | 70.0 | 5.46e-01 | 100.0% | 83.0% |
| 4146813 | 221.1.1.36 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › FERM_N | 0.78 | 70.0 | 6.24e-01 | 100.0% | 82.2% |
| 4888701 | 221.1.1.41 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › UN_NPL4 | 0.77 | 68.0 | 6.11e-01 | 100.0% | 84.4% |
| 2448270 | 221.1.1.33 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › DWNN | 0.77 | 68.0 | 6.10e-01 | 98.4% | 76.1% |
| 299809 | 221.1.1.2 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › ubiquitin | 0.77 | 68.0 | 6.34e-01 | 100.0% | 86.3% |
| 3787211 | 221.1.1.0 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like | 0.76 | 68.0 | 5.84e-01 | 100.0% | 69.0% |
| 3744801 | 221.1.1.0 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like | 0.75 | 63.0 | 6.17e-01 | 100.0% | 87.0% |
| 3483645 | 221.1.1.6 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RA | 0.74 | 65.0 | 6.07e-01 | 100.0% | 78.8% |
| 3740109 | 221.1.1.88 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › CLU_N | 0.74 | 66.0 | 6.00e-01 | 100.0% | 76.5% |
| 3248306 | 221.1.1.0 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like | 0.70 | 61.0 | 5.57e-01 | 100.0% | 74.1% |
| 4003832 | 221.1.1.0 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like | 0.69 | 58.0 | 5.60e-01 | 100.0% | 84.0% |
| 3237655 | 221.1.1.0 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like | 0.68 | 59.0 | 5.33e-01 | 100.0% | 72.2% |
| 3260557 | 221.1.1.56 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › FERM_f0 | 0.68 | 59.0 | 5.67e-01 | 100.0% | 89.3% |
| 3398588 | 221.1.1.0 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like | 0.67 | 58.0 | 5.37e-01 | 100.0% | 85.9% |
| 4929390 | 221.1.1.14 ↗ | a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › ThiS | 0.66 | 56.0 | 5.06e-01 | 98.4% | 87.8% |
| 5051480 | 2484.1.1.94 ↗ | mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › HypF_C_2 | 0.51 | 44.0 | 2.97e-01 | 100.0% | 88.9% |
D2
high
residues 425-558
Domain cluster:
representative
CATH (13)
| Domain ID | Class ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 4h4nA00 | 2.60.40.3750 | Mainly Beta › Sandwich › Immunoglobulin-like › | 0.59 | 27.0 | 3.80e-01 | 99.3% | 91.9% |
| 4yrdA02 | 2.60.120.10 | Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls | 0.59 | 41.0 | 4.31e-01 | 83.6% | 79.0% |
| 4il7A00 | 2.60.120.1300 | Mainly Beta › Sandwich › Jelly Rolls › | 0.58 | 33.0 | 3.98e-01 | 75.4% | 85.9% |
| 1uijB01 | 2.60.120.10 | Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls | 0.57 | 43.0 | 4.04e-01 | 85.1% | 64.2% |
| 3d0jA00 | 2.60.120.10 | Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls | 0.56 | 40.0 | 3.96e-01 | 85.8% | 70.3% |
| 3ejkA00 | 2.60.120.10 | Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls | 0.54 | 43.0 | 4.09e-01 | 97.8% | 71.3% |
| 3am2A02 | 2.60.120.1050 | Mainly Beta › Sandwich › Jelly Rolls › | 0.54 | 37.0 | 3.98e-01 | 100.0% | 82.1% |
| 1nc7A00 | 2.60.290.11 | Mainly Beta › Sandwich › Hypothetical Protein Tm1070; Chain: A › TM1070-like | 0.53 | 34.0 | 3.67e-01 | 79.1% | 75.0% |
| 3pl0B00 | 2.60.120.620 | Mainly Beta › Sandwich › Jelly Rolls › q2cbj1_9rhob like domain | 0.53 | 46.0 | 3.81e-01 | 97.0% | 92.9% |
| 5j11C02 | 2.60.40.10 | Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins | 0.53 | 28.0 | 3.17e-01 | 79.9% | 67.3% |
| 1nlqE00 | 2.60.120.340 | Mainly Beta › Sandwich › Jelly Rolls › Nucleoplasmin core domain | 0.53 | 34.0 | 3.83e-01 | 74.6% | 87.8% |
| 4qkbA00 | 2.60.120.590 | Mainly Beta › Sandwich › Jelly Rolls › Alpha-ketoglutarate-dependent dioxygenase AlkB-like | 0.51 | 45.0 | 4.07e-01 | 97.0% | 86.8% |
| 1wapA00 | 2.60.40.50 | Mainly Beta › Sandwich › Immunoglobulin-like › TRAP-like | 0.51 | 27.0 | 3.58e-01 | 99.3% | 100.0% |
ECOD (13)
| UID | F-ID | Classification | TM-score | Bits | E-value | Q cov | T cov |
|---|---|---|---|---|---|---|---|
| 3270321 | 72.1.1.3 ↗ | beta sandwiches › gamma-Crystallin-like › gamma-Crystallin-like › gamma-Crystallin-like › Crystall_3 | 0.59 | 41.0 | 4.64e-01 | 88.1% | 98.9% |
| 3924473 | 10.32.1.0 ↗ | beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like | 0.58 | 42.0 | 3.73e-01 | 75.4% | 91.1% |
| 5055086 | 10.1.2.0 ↗ | beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) | 0.54 | 34.0 | 3.92e-01 | 74.6% | 88.4% |
| 146645 | 10.32.1.16 ↗ | beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › Clenterotox | 0.54 | 37.0 | 3.96e-01 | 100.0% | 80.7% |
| 1269 | 10.7.1.1 ↗ | beta sandwiches › jelly-roll › Hypothetical protein TM1070 › Hypothetical protein TM1070 › ASRT | 0.53 | 34.0 | 3.67e-01 | 79.1% | 75.0% |
| 3231572 | 11.1.1.0 ↗ | beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like | 0.52 | 36.0 | 4.01e-01 | 79.1% | 94.0% |
| 3591207 | 10.12.1.0 ↗ | beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix | 0.51 | 45.0 | 3.63e-01 | 97.0% | 79.6% |
| 3625923 | 10.12.1.0 ↗ | beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix | 0.51 | 45.0 | 3.85e-01 | 96.3% | 85.6% |
| 2605261 | 10.5.1.0 ↗ | beta sandwiches › jelly-roll › Viral protein domain › Viral protein domain | 0.51 | 35.0 | 3.79e-01 | 99.3% | 82.8% |
| 2883188 | 929.1.1.0 ↗ | beta duplicates or obligate multimers › Resistin › Resistin › Resistin | 0.51 | 28.0 | 3.51e-01 | 78.4% | 89.9% |
| 3237938 | 10.4.1.1 ↗ | beta sandwiches › jelly-roll › Spermadhesin, CUB domain › Spermadhesin, CUB domain › CUB | 0.51 | 37.0 | 3.97e-01 | 76.1% | 100.0% |
| 5036139 | 10.7.1.0 ↗ | beta sandwiches › jelly-roll › Hypothetical protein TM1070 › Hypothetical protein TM1070 | 0.50 | 30.0 | 3.55e-01 | 74.6% | 87.8% |
| 3931572 | 10.4.1.1 ↗ | beta sandwiches › jelly-roll › Spermadhesin, CUB domain › Spermadhesin, CUB domain › CUB | 0.50 | 37.0 | 3.84e-01 | 76.1% | 97.6% |
D3
medium
residues 342-412
Domain cluster:
rep: IMGVR_UViG_3300021400_004370-3300021400-Ga0224422_126570053__D12-86
Pfam (2)
| Accession | Name | Score | E-value | Q cov | HMM cov |
|---|---|---|---|---|---|
| PF11976.15 best | Rad60-SLD | 41.8 | 1.10e-10 | 100.0% | 98.6% |
| PF00240.30 | ubiquitin | 71.1 | 7.30e-20 | 97.2% | 95.8% |
D4
medium
residues 565-626