←Back to structures

KY606587.1__ARB06155.1__vBDshSR5C_101__00101

Bact-Vir

KY606587.1__ARB06155.1__vBDshSR5C_101__00101

Identity

Accession:
KY606587 ↗
Kingdom:
phage

Quality

69.5 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Nanhaivirus› Dinoroseobacter_phage_vB_DshS-R5C

TaxID: 1965368

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 4-81
PDB
Domain cluster: representative
CATH (16)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2qsdA01 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.61 45.0 4.80e-01 89.7% 92.5%
4f7oA00 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.60 52.0 3.77e-01 100.0% 40.0%
2nmlA00 3.30.2260.10 Alpha Beta › 2-Layer Sandwich › ERH-like fold › Enhancer of rudimentary 0.58 46.0 4.32e-01 89.7% 87.0%
6fnnB01 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.54 46.0 3.87e-01 100.0% 68.8%
5kfzA04 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.53 38.0 3.35e-01 75.6% 55.3%
4zpxA01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.53 42.0 3.09e-01 89.7% 74.7%
2znrA00 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.53 44.0 3.56e-01 100.0% 48.9%
4a18X01 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.53 37.0 3.76e-01 74.4% 73.4%
4owpB00 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.52 44.0 3.59e-01 100.0% 56.0%
2og4A01 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.52 44.0 3.24e-01 100.0% 36.9%
3icuA01 3.50.30.30 Alpha Beta › 3-Layer(bba) Sandwich › Glucose Oxidase; domain 1 › 0.52 44.0 3.58e-01 100.0% 49.7%
5cw3C01 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.51 44.0 3.66e-01 100.0% 67.3%
1lr5B00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.51 36.0 2.96e-01 94.9% 36.5%
4d10F01 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.50 43.0 3.40e-01 100.0% 47.5%
3stoA01 3.30.497.10 Alpha Beta › 2-Layer Sandwich › Antithrombin; Chain I, domain 2 › Antithrombin, subunit I, domain 2 0.50 34.0 2.58e-01 71.8% 73.7%
4fk5A02 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.50 41.0 2.86e-01 96.2% 53.7%
ECOD (47)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3274047 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.73 44.0 4.01e-01 73.1% 47.0%
5000510 3115.1.1.1 ↗ a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.70 47.0 4.83e-01 74.4% 72.0%
4939739 3115.1.1.1 ↗ a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.67 46.0 5.10e-01 74.4% 93.2%
3491148 2007.1.2.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I 0.63 54.0 3.92e-01 100.0% 47.5%
4648475 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.63 44.0 4.81e-01 73.1% 98.3%
3935631 2492.1.1.0 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like 0.61 51.0 4.54e-01 100.0% 65.2%
3932894 2492.1.1.36 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › ODR4-like 0.60 52.0 4.28e-01 100.0% 67.3%
3734418 4121.1.1.0 ↗ a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like 0.59 50.0 3.39e-01 100.0% 50.3%
3488438 63.1.1.0 ↗ beta barrels › Mannose 6-phosphate receptor domain › Mannose 6-phosphate receptor domain › Mannose 6-phosphate receptor domain 0.59 37.0 3.22e-01 78.2% 41.7%
5076472 2010.1.1.3 ↗ a/b three-layered sandwiches › EDD domain › EDD domain › EDD domain › EIIA-man 0.58 50.0 4.50e-01 100.0% 68.7%
3264848 2492.1.1.36 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › ODR4-like 0.58 51.0 4.02e-01 100.0% 66.5%
4997258 2492.1.1.0 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like 0.58 50.0 4.08e-01 100.0% 65.8%
4927404 316.1.1.27 ↗ a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › Polbeta 0.57 36.0 3.15e-01 100.0% 42.6%
3621627 2492.1.1.36 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › ODR4-like 0.57 49.0 3.88e-01 100.0% 65.1%
3928952 2492.1.1.0 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like 0.57 48.0 3.98e-01 100.0% 58.7%
4280109 2492.1.1.9 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › RadC 0.57 49.0 4.26e-01 100.0% 69.6%
4981873 2492.1.1.2 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › JAB 0.56 48.0 3.67e-01 100.0% 44.4%
5057963 2492.1.1.1 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › dCMP_cyt_deam_1 0.56 48.0 4.02e-01 100.0% 59.3%
4994059 2492.1.1.2 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › JAB 0.56 47.0 4.07e-01 100.0% 71.1%
4022207 4121.1.1.0 ↗ a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like 0.56 47.0 3.27e-01 100.0% 43.9%
3483914 2492.1.1.36 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › ODR4-like 0.56 48.0 3.84e-01 100.0% 67.1%
3799804 2492.1.1.8 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › UPF0172 0.55 47.0 3.60e-01 100.0% 48.7%
3595726 2492.1.1.8 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › UPF0172 0.55 47.0 3.50e-01 100.0% 49.1%
3666747 2492.1.1.8 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › UPF0172 0.55 46.0 3.91e-01 100.0% 67.6%
5049152 109.4.1.3609 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › JAB 0.55 47.0 2.98e-01 100.0% 21.2%
4642171 2492.1.1.0 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like 0.55 47.0 3.53e-01 100.0% 44.8%
3728216 4121.1.1.0 ↗ a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like 0.55 47.0 3.00e-01 100.0% 38.3%
4026251 2492.1.1.8 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › UPF0172 0.54 46.0 3.60e-01 100.0% 49.5%
4207776 2492.1.1.2 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › JAB 0.54 46.0 3.84e-01 100.0% 63.3%
5075019 2492.1.1.2 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › JAB 0.54 46.0 3.50e-01 100.0% 42.4%
5068304 2492.1.1.2 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › JAB 0.54 46.0 3.81e-01 100.0% 61.3%
3628891 2492.1.1.0 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like 0.54 45.0 3.97e-01 100.0% 61.6%
4977855 2492.1.1.2 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › JAB 0.54 45.0 3.39e-01 100.0% 47.3%
5050076 2492.1.1.2 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › JAB 0.53 45.0 3.48e-01 100.0% 57.5%
4218879 2484.1.1.25 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RuvC 0.53 45.0 3.63e-01 94.9% 56.8%
4947842 2492.1.1.2 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › JAB 0.53 45.0 3.59e-01 100.0% 58.3%
3378032 2492.1.1.2 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › JAB 0.53 45.0 3.48e-01 100.0% 51.8%
3705903 2492.1.1.2 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › JAB 0.53 45.0 3.64e-01 100.0% 57.0%
3719681 1008.1.1.99 ↗ alpha bundles › BRCC36 C-terminal helical domain › BRCC36 C-terminal helical domain › BRCC36 C-terminal helical domain › JAB 0.52 44.0 3.20e-01 100.0% 40.0%
3590544 2492.1.1.18 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › Prok-JAB 0.52 44.0 3.70e-01 100.0% 65.5%
3784974 2492.1.1.2 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › JAB 0.51 43.0 3.31e-01 100.0% 49.0%
4527641 2492.1.1.2 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › JAB 0.51 43.0 3.35e-01 100.0% 47.7%
3224683 221.1.1.2 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › ubiquitin 0.51 39.0 3.85e-01 100.0% 76.1%
5050918 2492.1.1.2 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › JAB 0.51 42.0 3.28e-01 100.0% 56.6%
4938348 2484.1.1.25 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RuvC 0.51 42.0 3.38e-01 94.9% 56.4%
4965710 2498.1.1.0 ↗ mixed a+b and a/b › Zincin-like › "Metalloproteases (""zincins"") catalytic domain" › "Metalloproteases (""zincins"") catalytic domain" 0.50 37.0 2.54e-01 82.1% 34.3%
4116968 2492.1.1.18 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › Prok-JAB 0.50 42.0 3.57e-01 100.0% 62.0%