←Back to structures

KY006853.1__APZ81821.1__vBEliSR6L_56__00056

Bact-Vir

KY006853.1__APZ81821.1__vBEliSR6L_56__00056

Identity

Accession:
KY006853 ↗
Kingdom:
phage

Quality

90.1 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Erythrobacter_phage_vB_EliS_R6L

TaxID: 1913119

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 2-61
PDB
Domain cluster: representative
CATH (32)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1gccA00 3.30.730.10 Alpha Beta › 2-Layer Sandwich › GCC-box Binding Domain › AP2/ERF domain 0.73 55.0 5.46e-01 80.0% 77.8%
1gqyB02 3.40.1190.10 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Mur-like, catalytic domain 0.71 54.0 3.69e-01 83.3% 23.5%
3r8eA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.69 48.0 3.67e-01 73.3% 38.6%
4htlA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.69 50.0 4.25e-01 78.3% 50.0%
4gyiA02 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.68 52.0 4.42e-01 81.7% 83.7%
2gupA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.68 47.0 4.04e-01 73.3% 49.5%
1fgsA01 3.40.1190.10 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Mur-like, catalytic domain 0.67 53.0 3.47e-01 90.0% 19.4%
1xc3A01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.65 44.0 3.80e-01 73.3% 45.6%
6j9eJ00 3.30.160.560 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.62 48.0 4.72e-01 96.7% 78.8%
3ty2A00 3.40.1210.10 Alpha Beta › 3-Layer(aba) Sandwich › Stationary-phase Survival Protein Sure Homolog; Chain: A, › Survival protein SurE-like phosphatase/nucleotidase 0.61 47.0 3.12e-01 83.3% 56.0%
6njeA00 3.40.850.10 Alpha Beta › 3-Layer(aba) Sandwich › Kinesin › Kinesin motor domain 0.61 51.0 3.29e-01 95.0% 62.0%
4kghA00 3.15.10.10 Alpha Beta › Super Roll › Bactericidal permeability-increasing protein; domain 1 › Bactericidal permeability-increasing protein; domain 1 0.61 42.0 2.96e-01 71.7% 58.0%
6cngA03 3.30.1180.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Protein Tm841; Chain: A;domain 3 › 0.58 50.0 3.95e-01 98.3% 96.1%
3jr7A03 3.30.1180.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Protein Tm841; Chain: A;domain 3 › 0.58 51.0 4.05e-01 100.0% 97.6%
3c96A01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.58 47.0 3.42e-01 90.0% 80.4%
2fl4A02 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.55 42.0 3.48e-01 83.3% 46.2%
3lxuX01 3.40.50.200 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Peptidase S8/S53 domain 0.55 44.0 2.87e-01 95.0% 48.3%
1z47A03 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.55 36.0 3.91e-01 76.7% 85.7%
7jl1B01 2.60.120.920 Mainly Beta › Sandwich › Jelly Rolls › SPRY domain 0.55 35.0 2.74e-01 73.3% 26.5%
2kinA00 3.40.850.10 Alpha Beta › 3-Layer(aba) Sandwich › Kinesin › Kinesin motor domain 0.55 45.0 3.13e-01 100.0% 40.3%
4bqqB02 3.90.1750.20 Alpha Beta › Alpha-Beta Complex › Hect, E3 ligase catalytic domain fold › Putative Large Serine Recombinase; Chain B, Domain 2 0.54 42.0 2.95e-01 85.0% 65.3%
6efyA03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.54 42.0 3.67e-01 100.0% 55.1%
1xhcA03 3.30.390.30 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › FAD/NAD-linked reductase, C-terminal dimerisation domain 0.53 36.0 3.94e-01 71.7% 100.0%
2pi2D00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.53 41.0 3.29e-01 85.0% 95.1%
1ospO02 3.90.930.1 Alpha Beta › Alpha-Beta Complex › Outer Surface Protein A; domain 3 › 0.53 43.0 3.41e-01 100.0% 82.2%
2n6eA00 3.40.1530.20 Alpha Beta › 3-Layer(aba) Sandwich › hypothetical protein tt1805 › Protein of unknown function (DUF1491) 0.52 40.0 3.38e-01 98.3% 47.3%
1kxgA00 2.60.120.40 Mainly Beta › Sandwich › Jelly Rolls › 0.52 40.0 3.12e-01 86.7% 85.4%
2ql8A00 3.30.300.20 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › K homology (KH) domain 0.52 44.0 3.47e-01 100.0% 77.9%
1eucB01 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.51 43.0 3.30e-01 100.0% 61.3%
1dv2A02 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.51 38.0 2.49e-01 81.7% 39.2%
2ljuA01 3.30.160.190 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › atu1810 like domain 0.51 36.0 3.41e-01 76.7% 90.7%
4mfzA02 3.40.630.120 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › 0.50 37.0 2.92e-01 83.3% 36.1%
ECOD (47)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3945142 252.2.1.7 ↗ a+b two layers › DNA-binding domain › GCC-box binding domain-like › GCC-box binding domain-like › PF30395 0.79 62.0 6.71e-01 85.0% 100.0%
3935434 2484.5.1.2 ↗ mixed a+b and a/b › Ribonuclease H-like › RNaseH-like domain in reverse transcriptase › RNaseH-like domain in reverse transcriptase › RT_RNaseH 0.73 54.0 4.22e-01 80.0% 44.6%
5073342 2484.1.1.4 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RNase_H 0.71 60.0 4.85e-01 98.3% 49.1%
3977273 2484.1.1.8 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › ROK 0.70 52.0 3.98e-01 80.0% 37.1%
3927790 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.69 46.0 5.17e-01 75.0% 91.1%
3667014 2003.1.1.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains 0.69 52.0 3.04e-01 81.7% 22.3%
5063297 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.69 44.0 4.19e-01 73.3% 55.7%
5053329 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.68 56.0 4.49e-01 91.7% 55.8%
5051613 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.67 54.0 4.40e-01 90.0% 47.5%
5076775 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.66 55.0 4.36e-01 95.0% 44.6%
140602 2484.1.1.8 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › ROK 0.66 45.0 3.70e-01 73.3% 39.5%
5063667 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.66 45.0 3.84e-01 73.3% 49.5%
5049111 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.65 54.0 4.32e-01 95.0% 45.6%
5071678 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.65 51.0 4.05e-01 88.3% 42.3%
5050853 2004.1.1.16 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Arf 0.64 53.0 3.49e-01 95.0% 20.7%
4116094 2484.1.1.37 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Pan_kinase 0.64 47.0 3.83e-01 78.3% 41.7%
5060242 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.63 47.0 4.15e-01 98.3% 52.0%
4319373 2484.1.1.8 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › ROK 0.63 53.0 4.42e-01 98.3% 53.6%
5045235 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.62 49.0 3.96e-01 96.7% 42.3%
4998374 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.62 51.0 4.13e-01 95.0% 45.6%
3272286 220.1.1.174 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › Cybc1_Eros 0.61 45.0 3.85e-01 88.3% 45.5%
143295 2484.1.1.8 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › ROK 0.61 44.0 3.67e-01 80.0% 46.2%
4946231 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.61 46.0 3.70e-01 95.0% 39.2%
4977897 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.61 50.0 3.97e-01 95.0% 42.2%
4975569 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.61 49.0 4.00e-01 95.0% 44.8%
3404845 220.1.1.22 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › FERM_C 0.61 49.0 4.23e-01 90.0% 55.8%
3511091 220.1.1.145 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_RASGAP 0.61 44.0 4.48e-01 76.7% 83.3%
5052027 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.60 49.0 3.97e-01 95.0% 44.8%
5045233 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.60 46.0 3.71e-01 85.0% 80.8%
3255946 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.58 41.0 3.75e-01 85.0% 56.2%
3476001 331.4.1.1 ↗ a+b two layers › TBP-like › Kinase associated domain 1, KA1 › Kinase associated domain 1, KA1 › KA1 0.58 41.0 3.57e-01 75.0% 60.2%
4461189 301.13.1.1 ↗ a+b three layers › Bacillus chorismate mutase-like › DAK1/DegV C-terminal domain › DAK1/DegV C-terminal domain › DegV 0.58 49.0 3.99e-01 100.0% 96.0%
3482975 223.2.1.7 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like › SRP-alpha_N 0.58 46.0 3.77e-01 95.0% 45.6%
4997750 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.57 45.0 3.54e-01 88.3% 40.0%
5058982 2003.1.5.19 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › TRM 0.57 43.0 2.67e-01 81.7% 81.1%
5040510 304.48.1.3 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B 0.56 47.0 3.09e-01 91.7% 67.8%
5019480 304.48.1.3 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › DNA_pol_B 0.55 44.0 2.51e-01 93.3% 14.8%
5044666 101.1.8.2 ↗ alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Topoisom_I 0.53 45.0 3.30e-01 93.3% 69.4%
3843531 214.1.1.1 ↗ a+b two layers › SH2 › SH2 › SH2 › SH2 0.53 46.0 3.93e-01 100.0% 65.0%
3711833 7015.1.1.0 ↗ alpha bundles › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain › Palmitoyltransferase DHHC transmembrane domain 0.53 44.0 3.33e-01 100.0% 52.1%
5050686 295.1.1.0 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain 0.53 41.0 3.75e-01 88.3% 76.5%
4041632 2.1.1.15 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › tRNA_anti-codon 0.53 42.0 3.28e-01 91.7% 89.7%
5011765 324.1.1.1 ↗ a+b two layers › OsmC-like › OsmC-like › OsmC-like › OsmC 0.52 46.0 3.56e-01 98.3% 84.4%
3904483 214.1.1.1 ↗ a+b two layers › SH2 › SH2 › SH2 › SH2 0.52 45.0 3.70e-01 100.0% 60.0%
4928019 300.1.1.18 ↗ a+b three layers › Phospholipase D/nuclease › Phospholipase D/nuclease › Phospholipase D/nuclease › FilR1_middle 0.51 38.0 2.94e-01 81.7% 86.9%
3518510 214.1.1.1 ↗ a+b two layers › SH2 › SH2 › SH2 › SH2 0.51 44.0 3.75e-01 100.0% 71.4%
3553532 214.1.1.1 ↗ a+b two layers › SH2 › SH2 › SH2 › SH2 0.51 44.0 3.63e-01 100.0% 56.5%