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SR-VP_0-2_scaffold_141_4939684_prodigal-single.1__X__X__00176

Bact-Vir

SR-VP_0-2_scaffold_141_4939684_prodigal-single.1__X__X__00176

Identity

Kingdom:
phage

Quality

69.9 mean pLDDT

Cluster

Singleton — not in a non-trivial cluster

3D Structure

Download PDB Download Scores JSON

Domains

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

D1 high residues 11-63
PDB
Domain cluster: representative
CATH (16)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3d00A02 3.30.60.80 Alpha Beta › 2-Layer Sandwich › Wheat Germ Agglutinin (Isolectin 2); domain 1 › 0.76 39.0 4.86e-01 88.7% 86.7%
4n4fA02 3.30.40.10 Alpha Beta › 2-Layer Sandwich › Herpes Virus-1 › Zinc/RING finger domain, C3HC4 (zinc finger) 0.72 45.0 5.03e-01 84.9% 85.0%
5fb0C01 3.30.40.10 Alpha Beta › 2-Layer Sandwich › Herpes Virus-1 › Zinc/RING finger domain, C3HC4 (zinc finger) 0.66 48.0 4.65e-01 100.0% 68.9%
1rfhA01 3.30.60.20 Alpha Beta › 2-Layer Sandwich › Wheat Germ Agglutinin (Isolectin 2); domain 1 › 0.65 40.0 4.39e-01 88.7% 80.5%
3p2aA01 2.30.30.380 Mainly Beta › Roll › SH3 type barrels. › Zn-finger domain of Sec23/24 0.59 35.0 4.08e-01 84.9% 86.1%
2apoB00 2.20.28.40 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › H/ACA ribonucleoprotein complex, subunit Nop10 0.58 30.0 2.98e-01 86.8% 40.0%
4xxbB00 2.30.30.380 Mainly Beta › Roll › SH3 type barrels. › Zn-finger domain of Sec23/24 0.57 30.0 3.28e-01 84.9% 59.5%
5sviB00 3.30.40.100 Alpha Beta › 2-Layer Sandwich › Herpes Virus-1 › 0.56 38.0 3.89e-01 83.0% 71.7%
2rsiA02 3.30.160.60 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Classic Zinc Finger 0.56 31.0 3.65e-01 96.2% 96.6%
2j9uB00 2.30.30.380 Mainly Beta › Roll › SH3 type barrels. › Zn-finger domain of Sec23/24 0.56 35.0 3.73e-01 84.9% 72.3%
7r0kA02 1.10.150.20 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › 5' to 3' exonuclease, C-terminal subdomain 0.56 38.0 2.73e-01 71.7% 58.4%
2ewlA00 3.30.160.330 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.54 37.0 3.68e-01 71.7% 67.9%
2w0tA00 3.30.60.160 Alpha Beta › 2-Layer Sandwich › Wheat Germ Agglutinin (Isolectin 2); domain 1 › 0.54 34.0 3.69e-01 98.1% 81.4%
2vrdA00 3.30.160.60 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Classic Zinc Finger 0.51 31.0 3.00e-01 96.2% 50.8%
4kyzA00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.51 36.0 2.58e-01 75.5% 51.5%
2epcA01 3.30.160.60 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Classic Zinc Finger 0.51 30.0 3.45e-01 100.0% 93.9%
ECOD (20)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5073000 4123.1.1.0 ↗ few secondary structure elements › E7 C-terminal domain-like › E7 C-terminal domain-like › E7 C-terminal domain-like 0.75 53.0 5.91e-01 100.0% 97.5%
4940877 377.1.1.130 ↗ few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like › zf_Tbcl_2 0.75 45.0 5.31e-01 88.7% 91.4%
3392574 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.74 52.0 5.61e-01 100.0% 86.7%
3425436 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.73 52.0 5.88e-01 96.2% 100.0%
3392085 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.63 33.0 3.39e-01 90.6% 52.0%
3218015 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.61 41.0 4.13e-01 71.7% 96.4%
3318055 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.60 36.0 4.06e-01 86.8% 80.0%
3596494 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.60 38.0 4.39e-01 90.6% 97.1%
3243252 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.57 39.0 3.79e-01 71.7% 86.7%
4323337 4009.1.1.0 ↗ alpha bundles › alpha-helical domain in AF1104-like proteins › alpha-helical domain in AF1104-like proteins › alpha-helical domain in AF1104-like proteins 0.56 38.0 3.35e-01 71.7% 57.6%
3506749 633.21.1.23 ↗ alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107 › CD20 0.56 38.0 2.78e-01 71.7% 48.5%
3654865 376.1.3.6 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › FYVE/PHD zinc finger › zf-CW 0.56 39.0 3.77e-01 73.6% 86.4%
5046198 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.52 36.0 3.61e-01 86.8% 70.9%
4318542 376.1.1.0 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box 0.52 29.0 3.46e-01 94.3% 90.0%
3785476 375.1.1.57 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Vps36-NZF-N 0.51 35.0 3.75e-01 71.7% 88.9%
3777746 375.1.1.78 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › zf-3CxxC_2 0.51 29.0 3.14e-01 81.1% 61.9%
3220135 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.51 28.0 3.45e-01 96.2% 86.2%
3165333 375.1.1.14 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Ribosomal_L32p 0.51 28.0 3.38e-01 88.7% 82.9%
3828334 109.4.1.1254 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, E_motif 0.51 34.0 2.19e-01 71.7% 19.8%
3552151 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.50 30.0 3.25e-01 100.0% 72.5%