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NC_055866.1__YP_010110018.1__KNV24_gp06__00006

Bact-Vir

NC_055866.1__YP_010110018.1__KNV24_gp06__00006

Identity

Accession:
NC_055866 ↗
Kingdom:
phage

Quality

84.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Rountreeviridae› Copernicusvirus› Enterococcus_phage_AE4_17

TaxID: 2759198

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 2-50
PDB
Domain cluster: representative
CATH (24)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1qysA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.78 55.0 4.46e-01 75.5% 40.2%
2jvfA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.73 53.0 4.24e-01 75.5% 39.4%
4llgM00 3.10.20.510 Alpha Beta › Roll › Ubiquitin-like (UB roll) › RNA polymerase inhibitor 0.67 52.0 5.21e-01 100.0% 88.0%
2pw9C03 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.64 51.0 3.76e-01 100.0% 31.9%
7ejoB01 3.30.2260.10 Alpha Beta › 2-Layer Sandwich › ERH-like fold › Enhancer of rudimentary 0.62 55.0 4.62e-01 100.0% 69.9%
6s2wA01 3.30.2260.10 Alpha Beta › 2-Layer Sandwich › ERH-like fold › Enhancer of rudimentary 0.62 53.0 4.55e-01 100.0% 65.9%
1g8mA02 3.40.140.20 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › AICAR transformylase, duplication domain 0.61 52.0 3.63e-01 100.0% 37.5%
3iwgA02 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.61 51.0 3.72e-01 93.9% 92.8%
3r7wB02 3.30.450.190 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.61 45.0 3.46e-01 81.6% 86.4%
2z5bB01 3.30.230.90 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › 0.60 43.0 3.30e-01 77.6% 66.4%
8shiI01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.59 50.0 4.01e-01 100.0% 57.7%
6grqA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.59 43.0 3.72e-01 100.0% 47.7%
6i6rB03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.57 42.0 3.50e-01 100.0% 42.4%
1zczA02 3.40.140.20 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › AICAR transformylase, duplication domain 0.57 42.0 3.35e-01 100.0% 35.9%
1g8mA03 3.40.140.20 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › AICAR transformylase, duplication domain 0.55 43.0 3.08e-01 85.7% 100.0%
1hxmA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 46.0 3.55e-01 100.0% 49.6%
4esnA00 2.60.320.10 Mainly Beta › Sandwich › mini-chromosome maintenance (MCM) complex, domain 2 › N-utilization substance G protein NusG, insert domain 0.55 47.0 4.08e-01 100.0% 97.4%
2a74A05 2.60.40.1930 Mainly Beta › Sandwich › Immunoglobulin-like › Macroglobulin (MG2) domain 0.55 42.0 3.44e-01 100.0% 42.9%
3df7A02 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.54 47.0 3.46e-01 98.0% 77.4%
2wadA02 3.90.1310.10 Alpha Beta › Alpha-Beta Complex › Penicillin-binding protein 2a (Domain 2) › Penicillin-binding protein 2a (Domain 2) 0.54 39.0 2.99e-01 100.0% 29.1%
3n28A01 3.40.50.1000 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HAD superfamily/HAD-like 0.53 45.0 3.25e-01 98.0% 63.0%
2vvfA01 2.60.120.730 Mainly Beta › Sandwich › Jelly Rolls › 0.52 39.0 2.89e-01 83.7% 65.2%
7pjjA02 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.51 41.0 3.18e-01 98.0% 57.4%
6vtmB00 3.10.20.120 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.51 43.0 3.53e-01 100.0% 90.6%
ECOD (25)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2486933 7032.1.1.1 ↗ a+b two layers › Paratox › Paratox › Paratox › Paratox 0.73 45.0 4.01e-01 100.0% 45.6%
3446121 109.4.1.3478 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_1, PPR_2, DYW_deaminase, Eplus_motif, E_motif, TPR_24 0.71 50.0 2.78e-01 75.5% 7.8%
4573861 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.64 42.0 3.98e-01 100.0% 56.7%
3562267 221.1.1.51 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › USP7_C2 0.63 43.0 3.58e-01 100.0% 41.2%
3540538 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.63 43.0 3.58e-01 100.0% 41.2%
3645411 223.1.1.79 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains › GAF_NLP 0.62 52.0 3.46e-01 98.0% 77.3%
3273196 223.2.1.1 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like › Profilin 0.62 47.0 3.32e-01 81.6% 81.3%
5005708 3755.3.1.127 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › NFACT_N 0.61 46.0 3.12e-01 81.6% 27.2%
4186857 4012.1.1.0 ↗ a+b two layers › SSHS domain › SSHS domain in type II DNA topoisomerase › SSHS domain in type II DNA topoisomerase 0.61 43.0 4.48e-01 100.0% 92.5%
4547274 3714.1.1.0 ↗ a+b two layers › Lon-like protease MtaLonC helical domain › Lon-like protease MtaLonC helical domain › Lon-like protease MtaLonC helical domain 0.60 53.0 4.26e-01 100.0% 95.0%
3860487 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.59 42.0 3.27e-01 100.0% 35.2%
5012895 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.59 47.0 4.60e-01 100.0% 85.5%
4926979 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.58 47.0 3.63e-01 91.8% 63.5%
3493644 10.32.1.203 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › Seipin 0.56 48.0 3.38e-01 100.0% 66.1%
3699329 70.3.1.1 ↗ beta barrels › beta-clip › SET domain-like › SET domain-like › SET 0.56 44.0 2.76e-01 100.0% 13.0%
4097920 223.6.1.1 ↗ a+b three layers › Profilin-like › GlcG-like › GlcG-like › HbpS-like 0.56 47.0 3.34e-01 100.0% 98.8%
3924084 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.55 44.0 3.70e-01 100.0% 98.0%
4072109 2492.1.1.5 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › AICARFT_IMPCHas 0.54 43.0 3.17e-01 95.9% 43.9%
3600531 4012.3.1.0 ↗ a+b two layers › SSHS domain › SSHS domain in CRISPR-associated endonuclease Cas9 › SSHS domain in CRISPR-associated endonuclease Cas9 0.54 45.0 4.48e-01 100.0% 94.3%
4091593 264.2.1.0 ↗ beta barrels › LigT-like › Prokaryotic type I DNA topoisomerase beta-barrel domain › Prokaryotic type I DNA topoisomerase beta-barrel domain 0.54 46.0 3.39e-01 100.0% 97.1%
3256588 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.52 35.0 2.61e-01 100.0% 23.3%
4023548 10.12.1.12 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › TauD 0.52 40.0 2.58e-01 83.7% 23.9%
3251081 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.52 42.0 3.16e-01 100.0% 58.6%
1002449 3662.1.1.1 ↗ a+b two layers › Proteasome assembling chaperone 3 (PAC3)-related › Proteasome assembling chaperone 3 (PAC3)-related › Proteasome assembling chaperone 3 (PAC3)-related › PAC3 0.51 38.0 2.98e-01 87.8% 40.2%
3315694 284.1.1.1 ↗ a+b two layers › FKBP-like › FKBP-like › FKBP-like › FKBP_C 0.51 39.0 3.03e-01 100.0% 73.6%