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NC_048028.1__YP_009807796.1__HOT82_gp100__00100

Bact-Vir

NC_048028.1__YP_009807796.1__HOT82_gp100__00100

Identity

Accession:
NC_048028 ↗
Kingdom:
phage

Quality

80.4 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Ronaldovirus› Gordonia_phage_Ronaldo

TaxID: 2250397

Cluster

View cluster (2 members)

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 12-68
PDB
Domain cluster: rep: NC_070764.1__YP_010649098.1__PP304_gp054__00054__D7-60
CATH (45)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1a2vA03 2.70.98.20 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › Copper amine oxidase, catalytic domain 0.66 57.0 3.37e-01 100.0% 12.5%
1y5oA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.66 51.0 4.07e-01 86.0% 46.1%
1a7gE00 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.65 56.0 5.03e-01 100.0% 97.6%
5yppA00 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.64 54.0 4.78e-01 100.0% 88.9%
1d6uA03 2.70.98.20 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › Copper amine oxidase, catalytic domain 0.64 50.0 3.01e-01 100.0% 12.2%
8d8lF01 3.30.70.60 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S6/Translation elongation factor EF1B 0.62 51.0 4.13e-01 98.2% 80.5%
1ksiA03 2.70.98.20 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › Copper amine oxidase, catalytic domain 0.62 50.0 3.03e-01 100.0% 12.5%
8cwoF01 3.30.70.60 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S6/Translation elongation factor EF1B 0.62 50.0 4.43e-01 94.7% 100.0%
3ibwA00 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.62 52.0 4.76e-01 98.2% 97.5%
1cqmA00 3.30.70.60 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S6/Translation elongation factor EF1B 0.61 50.0 4.35e-01 100.0% 94.9%
2rrnA01 3.30.70.2040 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.60 52.0 4.65e-01 100.0% 96.4%
7kz9B02 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.60 43.0 3.91e-01 78.9% 56.6%
1vq8B03 3.30.1430.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein L3; Chain: B; domain 2, › 0.60 45.0 3.66e-01 82.5% 45.9%
4njcA00 3.10.20.730 Alpha Beta › Roll › Ubiquitin-like (UB roll) › RNAP, epsilon subunit-like 0.58 46.0 4.60e-01 100.0% 85.0%
1y7pB01 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.58 48.0 4.41e-01 96.5% 97.5%
2jheA01 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.58 48.0 4.36e-01 96.5% 98.8%
7alkA01 2.60.40.3510 Mainly Beta › Sandwich › Immunoglobulin-like › 0.57 47.0 3.47e-01 94.7% 98.1%
1uenA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.57 47.0 3.72e-01 100.0% 44.0%
2jwyA01 2.60.40.1620 Mainly Beta › Sandwich › Immunoglobulin-like › Lipoprotein YajI-like 0.56 42.0 3.25e-01 82.5% 60.7%
6h8oA00 3.40.1310.20 Alpha Beta › 3-Layer(aba) Sandwich › Replication Protein E1; Chain: A, › 0.56 46.0 4.00e-01 96.5% 72.6%
6nqbF00 3.30.70.60 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S6/Translation elongation factor EF1B 0.56 46.0 4.33e-01 100.0% 98.7%
4dzdA02 3.30.70.1210 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Crispr-associated protein; domain 2 0.56 45.0 3.73e-01 100.0% 95.9%
2byeA01 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.56 46.0 3.84e-01 100.0% 52.5%
2cg4A02 3.30.70.920 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Lrp/AsnC effector binding domain/regulation of amino acid metabolism (RAM) domain 0.55 45.0 4.11e-01 98.2% 89.3%
2p5vA02 3.30.70.920 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Lrp/AsnC effector binding domain/regulation of amino acid metabolism (RAM) domain 0.55 44.0 4.05e-01 98.2% 89.3%
1hq6B00 3.50.20.10 Alpha Beta › 3-Layer(bba) Sandwich › Pyruvoyl-Dependent Histidine Decarboxylase; Chain B › Pyruvoyl-Dependent Histidine Decarboxylase, subunit B 0.54 45.0 3.10e-01 100.0% 40.8%
2jsxA01 3.30.70.920 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Lrp/AsnC effector binding domain/regulation of amino acid metabolism (RAM) domain 0.54 42.0 4.06e-01 94.7% 100.0%
2bj3D02 3.30.70.1150 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT-like. Chain A, domain 2 0.53 43.0 3.98e-01 100.0% 96.3%
6u9hF02 3.30.70.1150 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT-like. Chain A, domain 2 0.53 44.0 4.08e-01 96.5% 88.3%
4c47A01 2.60.40.1620 Mainly Beta › Sandwich › Immunoglobulin-like › Lipoprotein YajI-like 0.53 40.0 3.17e-01 80.7% 66.4%
5e1qA03 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.53 39.0 3.41e-01 98.2% 49.0%
2cyyA02 3.30.70.920 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Lrp/AsnC effector binding domain/regulation of amino acid metabolism (RAM) domain 0.53 43.0 3.82e-01 100.0% 78.9%
6w72A01 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.53 42.0 3.43e-01 98.2% 62.6%
5z9sA03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 45.0 3.59e-01 100.0% 53.7%
3rgzA02 3.30.1490.310 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › 0.53 41.0 4.07e-01 100.0% 85.2%
1vwxS01 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.52 44.0 4.14e-01 100.0% 85.9%
2efpA02 3.30.70.920 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Lrp/AsnC effector binding domain/regulation of amino acid metabolism (RAM) domain 0.52 41.0 3.65e-01 100.0% 79.6%
5tf0B03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 44.0 3.59e-01 98.2% 62.2%
3bv8A00 3.30.70.250 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Malonyl-CoA ACP transacylase, ACP-binding 0.52 44.0 3.94e-01 100.0% 68.2%
4pcqA02 3.30.70.920 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Lrp/AsnC effector binding domain/regulation of amino acid metabolism (RAM) domain 0.51 40.0 3.74e-01 98.2% 89.3%
4liqE05 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 41.0 3.49e-01 93.0% 89.0%
2cuiA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 43.0 3.52e-01 100.0% 50.0%
1yrxC01 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.51 42.0 3.59e-01 100.0% 77.9%
2mraA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.51 41.0 3.43e-01 100.0% 48.7%
5eqjB02 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.50 42.0 2.85e-01 98.2% 68.4%
ECOD (48)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3326913 12.3.1.2 ↗ beta sandwiches › Glycosyl hydrolase domain-like › supersandwich › supersandwich › Cu_amine_oxid 0.67 55.0 3.59e-01 100.0% 20.9%
169754 12.3.1.2 ↗ beta sandwiches › Glycosyl hydrolase domain-like › supersandwich › supersandwich › Cu_amine_oxid 0.64 50.0 3.01e-01 100.0% 11.7%
4141632 304.12.1.1 ↗ a+b two layers › Alpha-beta plaits › Ribosomal protein S6 › Ribosomal protein S6 › Ribosomal_S6 0.63 53.0 4.62e-01 100.0% 98.9%
5023619 304.8.1.2 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT 0.63 53.0 4.94e-01 98.2% 100.0%
4935095 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.62 50.0 4.52e-01 94.7% 88.2%
3575992 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.61 50.0 4.53e-01 98.2% 100.0%
3269558 601.4.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › Histidine kinase associated sensor domains › Histidine kinase associated sensor domains 0.61 51.0 3.11e-01 96.5% 20.8%
3492718 382.1.1.0 ↗ few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like 0.60 50.0 4.29e-01 100.0% 91.0%
4349987 304.12.1.1 ↗ a+b two layers › Alpha-beta plaits › Ribosomal protein S6 › Ribosomal protein S6 › Ribosomal_S6 0.60 49.0 4.34e-01 100.0% 97.9%
3517068 3115.1.1.6 ↗ a+b two layers › GP2-like › RplX-like › RplX-like › DUF4494 0.59 49.0 4.76e-01 100.0% 92.3%
3615884 11.1.1.1189 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › XRCC1_N 0.59 50.0 4.73e-01 98.2% 82.6%
4377632 304.48.1.32 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › TiaS-FLD 0.59 48.0 3.74e-01 94.7% 66.7%
3309856 304.12.1.1 ↗ a+b two layers › Alpha-beta plaits › Ribosomal protein S6 › Ribosomal protein S6 › Ribosomal_S6 0.58 47.0 4.07e-01 100.0% 88.6%
3685657 11.1.1.203 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › LacZ_4 0.58 46.0 3.75e-01 100.0% 60.7%
3223690 150.3.1.0 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › 4-helical cytokines › 4-helical cytokine 0.58 47.0 3.63e-01 96.5% 47.6%
5052827 304.4.1.0 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.56 47.0 4.50e-01 98.2% 98.6%
3987406 3115.6.1.1 ↗ a+b two layers › GP2-like › Bacterial RNA polymerase subunit epsilon › Bacterial RNA polymerase subunit epsilon › RpoY 0.56 47.0 4.34e-01 96.5% 85.3%
4642338 807.1.1.1 ↗ a+b two layers › Allophycocyanin linker chain (domain) › Allophycocyanin linker chain (domain) › Allophycocyanin linker chain (domain) › CpcD 0.56 44.0 4.54e-01 100.0% 98.1%
3783573 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.56 44.0 3.75e-01 100.0% 50.5%
4084879 3115.1.1.1 ↗ a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.56 47.0 4.21e-01 100.0% 76.5%
4938850 304.4.1.1 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › AsnC_trans_reg 0.55 46.0 4.04e-01 100.0% 86.3%
3506980 511.1.1.0 ↗ beta sandwiches › Heat shock protein 70kD (HSP70), peptide-binding domain › Heat shock protein 70kD (HSP70), peptide-binding domain › Heat shock protein 70kD (HSP70), peptide-binding domain 0.55 48.0 3.63e-01 100.0% 40.0%
4947071 304.4.1.0 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.55 46.0 4.24e-01 100.0% 96.2%
5007357 3435.1.1.10 ↗ a+b two layers › Recombination-associated protein rdgC › Recombination-associated protein rdgC › Recombination-associated protein rdgC › PF27341 0.54 43.0 3.05e-01 100.0% 81.3%
4972094 304.4.1.1 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › AsnC_trans_reg 0.54 44.0 4.01e-01 100.0% 95.3%
4008166 3115.1.1.10 ↗ a+b two layers › GP2-like › RplX-like › RplX-like › PF27430 0.54 45.0 3.93e-01 100.0% 65.3%
5021947 304.4.1.75 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › GYD 0.54 46.0 3.86e-01 100.0% 81.9%
3275859 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.53 45.0 3.33e-01 100.0% 34.5%
3785573 10.32.1.0 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.53 46.0 3.67e-01 100.0% 47.5%
3293359 10.32.1.33 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › CIA30 0.52 43.0 3.06e-01 100.0% 36.1%
3896560 301.1.1.2 ↗ a+b three layers › Bacillus chorismate mutase-like › L30e-like › L30e-like › eRF1_3 0.52 45.0 3.29e-01 100.0% 40.0%
2794885 807.1.1.1 ↗ a+b two layers › Allophycocyanin linker chain (domain) › Allophycocyanin linker chain (domain) › Allophycocyanin linker chain (domain) › CpcD 0.52 40.0 3.97e-01 100.0% 81.2%
2886666 807.1.1.1 ↗ a+b two layers › Allophycocyanin linker chain (domain) › Allophycocyanin linker chain (domain) › Allophycocyanin linker chain (domain) › CpcD 0.52 44.0 3.40e-01 98.2% 46.0%
3277288 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.52 41.0 3.25e-01 93.0% 71.1%
5024218 206.1.3.23 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › RNA_ligase 0.52 42.0 2.76e-01 100.0% 67.5%
3634674 4121.1.1.0 ↗ a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like 0.52 44.0 2.76e-01 100.0% 55.1%
3089702 807.1.1.1 ↗ a+b two layers › Allophycocyanin linker chain (domain) › Allophycocyanin linker chain (domain) › Allophycocyanin linker chain (domain) › CpcD 0.52 43.0 3.76e-01 98.2% 67.0%
3519901 3369.1.1.0 ↗ beta meanders › lysosome-associated membrane protein LAMP-3 › lysosome-associated membrane protein LAMP-3 › lysosome-associated membrane protein LAMP-3 0.51 43.0 3.22e-01 100.0% 78.2%
3852153 2492.1.1.6 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › A_deamin 0.51 41.0 2.60e-01 98.2% 65.2%
5011383 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 0.51 43.0 4.33e-01 100.0% 98.3%
3506521 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 42.0 3.41e-01 96.5% 91.7%
3835461 207.1.1.223 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › LRR_1, LRRNT_2, LRR_8, Island 0.51 39.0 2.21e-01 100.0% 6.6%
3732370 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.51 43.0 4.26e-01 100.0% 95.0%
3178572 11.1.1.1134 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › PF29154 0.51 39.0 2.83e-01 93.0% 72.7%
3548494 904.1.1.14 ↗ few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain › SNAPC3 0.50 43.0 3.14e-01 100.0% 78.1%
3469970 3785.1.1.0 ↗ a+b three layers › Suppressor of Fused, C-terminal domain › Suppressor of Fused, C-terminal domain › Suppressor of Fused, C-terminal domain 0.50 40.0 3.16e-01 96.5% 93.8%
4027417 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.50 42.0 4.03e-01 100.0% 91.4%
3488063 3333.1.1.0 ↗ a+b two layers › Barrel domain in dedicator of cytokinesis protein 9 › Barrel domain in dedicator of cytokinesis protein 9 › Barrel domain in dedicator of cytokinesis protein 9 0.50 41.0 3.18e-01 100.0% 48.7%