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S2_003_000_R3_scaffold_4_prodigal-single.1__X__X__00029

Bact-Vir

S2_003_000_R3_scaffold_4_prodigal-single.1__X__X__00029

Identity

Kingdom:
phage

Quality

73.6 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 medium residues 4-80
PDB
Domain cluster: representative
CATH (9)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5u55A02 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.57 31.0 2.67e-01 80.5% 34.4%
2i44B00 3.60.40.10 Alpha Beta › 4-Layer Sandwich › Phosphatase 2c; domain 1 › PPM-type phosphatase domain 0.56 49.0 3.26e-01 98.7% 39.9%
4njcA00 3.10.20.730 Alpha Beta › Roll › Ubiquitin-like (UB roll) › RNAP, epsilon subunit-like 0.55 35.0 3.85e-01 90.9% 83.3%
3db0B00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.52 38.0 3.25e-01 80.5% 48.4%
2hq9B00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.51 38.0 3.09e-01 77.9% 43.8%
2q0oA01 3.30.450.80 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Transcription factor LuxR-like, autoinducer-binding domain 0.51 43.0 3.39e-01 96.1% 78.0%
4kyzA00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.51 40.0 3.23e-01 89.6% 88.0%
3h20A01 3.30.1490.240 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › RepB DNA-primase, N-terminal domain 0.50 32.0 3.40e-01 79.2% 74.2%
4ksnA00 6.20.250.80 Special › Other non-globular › Double Stranded RNA Binding Domain › 0.50 37.0 3.99e-01 84.4% 92.3%
ECOD (13)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3217638 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.64 40.0 4.13e-01 90.9% 65.3%
5072765 3740.1.1.4 ↗ alpha arrays › F420-reducing hydrogenase subunit beta › F420-reducing hydrogenase subunit beta › F420-reducing hydrogenase subunit beta › FrhB_FdhB_C 0.63 52.0 3.65e-01 92.2% 92.7%
3929801 221.1.1.6 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RA 0.63 36.0 3.41e-01 80.5% 46.3%
3218957 221.1.1.6 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RA 0.60 36.0 3.14e-01 85.7% 39.1%
5075402 210.1.3.3 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_4 0.60 46.0 3.26e-01 88.3% 77.2%
5007155 304.163.1.0 ↗ a+b two layers › Alpha-beta plaits › ATP-binding protein TM_1403 insertion domain › ATP-binding protein TM_1403 insertion domain 0.57 32.0 3.80e-01 80.5% 91.1%
3520955 2006.1.3.1 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain › DNA_gyraseB_C,Toprim 0.57 47.0 3.31e-01 93.5% 96.2%
3595729 245.1.1.1 ↗ a+b two layers › Ribonuclease PH domain 2-like › Ribonuclease PH domain 2 › Ribonuclease PH domain 2 › RNase_PH_C 0.57 32.0 3.21e-01 81.8% 52.5%
5081419 210.1.3.3 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_4 0.56 42.0 2.98e-01 83.1% 64.8%
4995671 3115.1.1.12 ↗ a+b two layers › GP2-like › RplX-like › RplX-like › PF30567 0.55 35.0 4.16e-01 85.7% 98.0%
3785041 245.1.1.0 ↗ a+b two layers › Ribonuclease PH domain 2-like › Ribonuclease PH domain 2 › Ribonuclease PH domain 2 0.54 31.0 3.16e-01 80.5% 53.8%
3637444 4121.1.1.0 ↗ a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like 0.51 35.0 2.59e-01 74.0% 71.8%
3371234 2484.1.1.2 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Actin 0.50 43.0 3.50e-01 100.0% 85.6%