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NC_042016.1__YP_009612601.1__FDI43_gp71__00071

Bact-Vir

NC_042016.1__YP_009612601.1__FDI43_gp71__00071

Identity

Accession:
NC_042016 ↗
Kingdom:
phage

Quality

63.6 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Rimavirus› Streptomyces_phage_DrGrey

TaxID: 2024284

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 10-64
PDB
Domain cluster: rep: MT310852.1__QJD49807.1__SEA_CLUBPENGUIN_83__00083__D10-62
CATH (16)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1wh2A01 3.30.1490.40 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › GYF domain 0.66 56.0 5.46e-01 100.0% 88.5%
4jgjA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.62 49.0 4.06e-01 89.1% 69.6%
1tjyA02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.56 47.0 3.53e-01 98.2% 93.5%
3urgA02 2.30.30.530 Mainly Beta › Roll › SH3 type barrels. › Calcium binding protein CcbP, beta-barrel domain 0.56 35.0 3.35e-01 100.0% 54.0%
5ejrA02 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.55 38.0 3.41e-01 74.5% 48.8%
1pyiA01 4.10.240.10 Few Secondary Structures › Irregular › CD2-Gal4 › Zn(2)-C6 fungal-type DNA-binding domain 0.55 42.0 4.12e-01 96.4% 77.4%
6g4gD01 3.40.720.10 Alpha Beta › 3-Layer(aba) Sandwich › Alkaline Phosphatase, subunit A › Alkaline Phosphatase, subunit A 0.55 44.0 2.89e-01 90.9% 35.4%
4ms4B02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.54 38.0 2.73e-01 76.4% 23.9%
6ks6a01 1.10.560.10 Mainly Alpha › Orthogonal Bundle › GROEL; domain 1 › GroEL-like equatorial domain 0.53 37.0 2.46e-01 76.4% 29.6%
2b30A02 3.30.1240.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Protein, Haloacid Dehalogenase-like Hydrolase; Chain: A; domain 2 › 0.53 41.0 3.33e-01 87.3% 78.0%
5tnvA00 3.20.20.150 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Divalent-metal-dependent TIM barrel enzymes 0.53 39.0 2.60e-01 90.9% 81.7%
2oap202 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.52 40.0 2.74e-01 98.2% 58.5%
1w36B03 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.51 35.0 2.29e-01 74.5% 25.4%
3vppB00 3.10.100.10 Alpha Beta › Roll › Mannose-Binding Protein A; Chain A › Mannose-Binding Protein A, subunit A 0.51 40.0 3.26e-01 94.5% 74.6%
6zepA01 3.40.630.10 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Zn peptidases 0.51 43.0 2.69e-01 98.2% 59.6%
3spdA00 3.30.428.10 Alpha Beta › 2-Layer Sandwich › HIT family, subunit A › HIT-like 0.50 38.0 2.78e-01 92.7% 63.5%
ECOD (43)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5075702 4050.1.1.0 ↗ few secondary structure elements › beta-barrel domain in Capz › beta-barrel domain in Capz › beta-barrel domain in Capz 0.72 35.0 3.53e-01 90.9% 43.6%
3255441 376.1.1.5 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-UBP 0.70 57.0 4.32e-01 98.2% 38.8%
3706777 386.1.1.14 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-LYAR 0.69 51.0 5.12e-01 100.0% 81.8%
3458276 822.1.1.1 ↗ a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF 0.67 57.0 5.45e-01 98.2% 83.1%
4463557 192.2.1.2 ↗ alpha bundles › Long alpha-hairpin › Prefoldin › Prefoldin › Prefoldin 0.65 45.0 3.76e-01 72.7% 43.2%
3710951 386.1.1.1 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-C2H2 0.64 41.0 3.39e-01 100.0% 36.0%
4024679 822.1.1.1 ↗ a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF 0.63 52.0 5.13e-01 100.0% 96.7%
4990751 2492.1.1.0 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like 0.61 54.0 4.49e-01 98.2% 66.3%
5044154 2492.1.1.0 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like 0.61 54.0 4.51e-01 98.2% 64.5%
4483288 2492.1.1.0 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like 0.61 53.0 4.36e-01 98.2% 61.0%
5046988 2492.1.1.0 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like 0.60 53.0 4.41e-01 98.2% 62.8%
3237398 376.1.1.20 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-RING_UBOX 0.60 43.0 3.60e-01 76.4% 61.0%
3800233 386.1.1.1 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-C2H2 0.59 48.0 4.87e-01 100.0% 98.2%
4581597 2492.1.1.0 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like 0.59 51.0 4.27e-01 98.2% 63.2%
4032740 2484.1.1.102 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DDE_Tnp_ISL3 0.58 40.0 2.71e-01 74.5% 17.1%
4398485 821.1.1.1 ↗ a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG 0.57 47.0 3.17e-01 100.0% 56.0%
3853801 386.1.1.398 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-C2H2, Zf-C2H2_ZNF451_2nd, Zf-C2H2_ZNF451 0.57 48.0 3.15e-01 100.0% 22.6%
4930539 375.8.1.0 ↗ few secondary structure elements › Rubredoxin-like › Zinc-binding domain of translation initiation factor 2 beta › Zinc-binding domain of translation initiation factor 2 beta 0.57 35.0 3.16e-01 96.4% 45.3%
3535929 386.1.1.248 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-C2H2_ZNF592 0.57 40.0 2.87e-01 76.4% 24.6%
4801459 1.1.2.2 ↗ beta barrels › cradle loop barrel › RIFT-related › double psi › RNA_pol_Rpb1_2 0.56 39.0 3.61e-01 85.5% 54.7%
3233807 376.1.1.0 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box 0.56 40.0 3.74e-01 78.2% 82.9%
3260248 386.1.1.74 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-Di19 0.55 40.0 4.05e-01 83.6% 94.8%
3289336 101.1.2.913 ↗ alpha arrays › HTH › HTH › winged helix domain › WH_Lhr 0.55 40.0 2.90e-01 78.2% 96.8%
3562527 386.1.1.358 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › Zf-C2H2_ZNF451 0.55 45.0 4.44e-01 100.0% 86.7%
3535928 386.1.1.1 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-C2H2 0.55 41.0 4.00e-01 80.0% 78.3%
None — 0.54 37.0 3.01e-01 72.7% 70.9%
None — 0.54 44.0 4.38e-01 100.0% 86.7%
4978375 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.54 32.0 3.39e-01 94.5% 66.0%
4428918 376.1.1.37 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › SLX1_C 0.54 39.0 3.74e-01 78.2% 90.8%
4190223 2004.1.1.455 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › UvrD-helicase, UvrD_C, UvrD_C_2 0.54 40.0 2.20e-01 81.8% 5.8%
4969862 2002.1.1.120 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Radical_SAM 0.54 41.0 2.53e-01 85.5% 29.7%
4203118 376.1.1.37 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › SLX1_C 0.53 38.0 3.27e-01 76.4% 87.8%
4503505 376.1.1.37 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › SLX1_C 0.53 38.0 3.01e-01 76.4% 85.0%
4535284 2004.1.1.363 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › UvrD-helicase+UvrD_C 0.53 39.0 2.16e-01 81.8% 5.2%
3515297 261.1.1.1 ↗ a+b complex topology › Hect, E3 ligase catalytic domain › Hect, E3 ligase catalytic domain › Hect, E3 ligase catalytic domain › HECT 0.52 36.0 2.28e-01 74.5% 20.6%
3841511 101.1.1.384 ↗ alpha arrays › HTH › HTH › Three-helical HTH › ADNP_N 0.52 39.0 2.87e-01 85.5% 28.1%
3992139 275.1.1.1 ↗ a+b two layers › MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase › MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase › MoeA-I/Ornithine decarboxylase-C/Reverse ferredoxin-like domain in RNA-polymerase › RNA_pol_Rpb1_2 0.52 42.0 3.82e-01 90.9% 63.7%
4332197 376.1.1.1 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-C3HC4 0.52 36.0 3.18e-01 76.4% 64.4%
3268075 376.1.1.0 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box 0.52 43.0 3.87e-01 98.2% 77.5%
4354093 376.1.1.37 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › SLX1_C 0.52 36.0 3.17e-01 76.4% 74.4%
3738593 376.1.1.37 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › SLX1_C 0.51 36.0 3.34e-01 76.4% 84.0%
3204533 304.24.1.0 ↗ a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like 0.50 38.0 3.55e-01 89.1% 74.7%
3778751 376.1.1.20 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › zf-RING_UBOX 0.50 35.0 2.86e-01 76.4% 50.4%
D2 high residues 78-134
PDB