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KY940711.1__ARQ95377.1__X__00145

Bact-Vir

KY940711.1__ARQ95377.1__X__00145

Identity

Accession:
KY940711 ↗
Kingdom:
phage

Quality

79.8 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Bradyrhizobium_phage_BDU-MI-1

TaxID: 1983459

Cluster

Singleton — not in a non-trivial cluster

3D Structure

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Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 6-48
PDB
Domain cluster: representative
CATH (51)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5d1oA02 3.30.1490.70 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › 0.73 62.0 5.31e-01 100.0% 64.4%
1ln0A00 3.40.1440.10 Alpha Beta › 3-Layer(aba) Sandwich › GIY-YIG endonuclease › GIY-YIG endonuclease 0.72 60.0 4.81e-01 100.0% 64.1%
6s2wA01 3.30.2260.10 Alpha Beta › 2-Layer Sandwich › ERH-like fold › Enhancer of rudimentary 0.71 59.0 4.83e-01 95.3% 70.7%
2vugA02 3.30.1490.70 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › 0.70 59.0 5.08e-01 100.0% 63.9%
3h20A01 3.30.1490.240 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › RepB DNA-primase, N-terminal domain 0.69 57.0 5.11e-01 100.0% 75.8%
3p1vA01 2.60.40.3250 Mainly Beta › Sandwich › Immunoglobulin-like › Peptidase M64, N-terminal domain 0.68 60.0 4.17e-01 100.0% 42.0%
1p6oA00 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.68 56.0 3.95e-01 100.0% 67.3%
3h7lA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.68 60.0 4.67e-01 100.0% 57.0%
3cc1A02 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.68 56.0 4.51e-01 100.0% 46.6%
3d33A00 2.60.40.3080 Mainly Beta › Sandwich › Immunoglobulin-like › 0.68 58.0 4.56e-01 100.0% 47.9%
2r5oA01 2.70.50.60 Mainly Beta › Distorted Sandwich › Coagulation Factor XIII; Chain A, domain 1 › abc- transporter (atp binding component) like domain 0.67 57.0 3.96e-01 100.0% 37.7%
3ffyA00 3.30.950.10 Alpha Beta › 2-Layer Sandwich › Methyltransferase, Cobalt-precorrin-4 Transmethylase; Domain 2 › Tetrapyrrole methylase, C-terminal domain 0.67 55.0 4.20e-01 100.0% 38.4%
3sd2A01 2.60.40.3080 Mainly Beta › Sandwich › Immunoglobulin-like › 0.67 56.0 4.72e-01 100.0% 57.1%
4dipH00 3.10.50.40 Alpha Beta › Roll › Chitinase A; domain 3 › 0.66 58.0 4.26e-01 100.0% 69.7%
3klqA01 2.60.40.3050 Mainly Beta › Sandwich › Immunoglobulin-like › 0.66 55.0 4.11e-01 100.0% 39.5%
3a21A02 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.66 50.0 4.05e-01 97.7% 41.8%
2ww8A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.66 53.0 4.08e-01 100.0% 38.7%
5eo9B01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.66 55.0 4.17e-01 100.0% 52.7%
3eipA00 3.10.50.20 Alpha Beta › Roll › Chitinase A; domain 3 › Cloacin immunity protein 0.65 56.0 4.56e-01 100.0% 88.1%
1es2A00 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.65 53.0 3.36e-01 100.0% 73.5%
1ktbA02 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.64 51.0 4.14e-01 100.0% 45.1%
3no8A00 2.60.120.820 Mainly Beta › Sandwich › Jelly Rolls › PHR domain 0.63 52.0 3.66e-01 100.0% 33.1%
4jysB00 3.10.50.40 Alpha Beta › Roll › Chitinase A; domain 3 › 0.62 52.0 3.95e-01 100.0% 68.4%
1txoB00 3.60.40.10 Alpha Beta › 4-Layer Sandwich › Phosphatase 2c; domain 1 › PPM-type phosphatase domain 0.62 47.0 3.15e-01 100.0% 29.7%
3ue3A02 3.30.450.330 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.62 44.0 3.16e-01 79.1% 78.9%
3fmaA00 3.30.1490.40 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › GYF domain 0.62 48.0 4.12e-01 100.0% 50.6%
3rtyB01 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.62 55.0 4.03e-01 100.0% 95.4%
5dcaA08 2.60.40.150 Mainly Beta › Sandwich › Immunoglobulin-like › C2 domain 0.60 51.0 3.87e-01 100.0% 50.9%
3eqvA02 3.30.450.330 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.60 42.0 3.12e-01 79.1% 77.4%
1zc3B00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.60 52.0 3.91e-01 100.0% 73.4%
3hrzC01 2.20.210.20 Mainly Beta › Single Sheet › ubp-family deubiquitinating enzyme fold › 0.60 51.0 4.93e-01 100.0% 87.8%
4d7sA02 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.58 46.0 3.47e-01 100.0% 33.1%
1wh2A01 3.30.1490.40 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › GYF domain 0.58 44.0 4.13e-01 100.0% 65.6%
4kq7A02 2.60.120.1390 Mainly Beta › Sandwich › Jelly Rolls › Protein of unknown function DUF2961 0.58 46.0 3.08e-01 100.0% 37.0%
1m6kA00 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.58 47.0 3.04e-01 100.0% 64.4%
2j8aA01 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.57 49.0 3.95e-01 100.0% 98.9%
5x6vF00 3.30.450.190 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.57 52.0 3.68e-01 100.0% 62.7%
3r7wC02 3.30.450.190 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.56 51.0 3.69e-01 100.0% 64.5%
3onhA01 3.10.290.20 Alpha Beta › Roll › Structural Genomics Hypothetical 15.5 Kd Protein In mrcA-pckA Intergenic Region; Chain A › Ubiquitin-like 2 activating enzyme e1b. Chain: B, domain 3 0.55 47.0 3.56e-01 100.0% 40.5%
1yi9A02 2.60.120.230 Mainly Beta › Sandwich › Jelly Rolls › 0.55 45.0 3.31e-01 100.0% 35.8%
3isrA01 3.10.620.30 Alpha Beta › Roll › C8orf32 fold › 0.54 41.0 2.86e-01 95.3% 51.9%
1es7B00 2.10.60.10 Mainly Beta › Ribbon › CD59 › CD59 0.54 42.0 3.66e-01 100.0% 56.6%
5trbA00 3.30.40.10 Alpha Beta › 2-Layer Sandwich › Herpes Virus-1 › Zinc/RING finger domain, C3HC4 (zinc finger) 0.53 42.0 3.79e-01 100.0% 63.8%
1w5dA01 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.53 47.0 2.93e-01 100.0% 82.4%
4r7eA00 3.30.40.10 Alpha Beta › 2-Layer Sandwich › Herpes Virus-1 › Zinc/RING finger domain, C3HC4 (zinc finger) 0.52 43.0 3.81e-01 100.0% 65.2%
6eiwA01 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.51 40.0 2.78e-01 100.0% 81.2%
3gv4A00 3.30.40.10 Alpha Beta › 2-Layer Sandwich › Herpes Virus-1 › Zinc/RING finger domain, C3HC4 (zinc finger) 0.51 39.0 3.18e-01 97.7% 40.4%
3r7wB02 3.30.450.190 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.51 44.0 3.22e-01 100.0% 62.7%
2dmhA00 2.60.40.150 Mainly Beta › Sandwich › Immunoglobulin-like › C2 domain 0.51 39.0 2.98e-01 100.0% 92.1%
3h9wA00 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.51 44.0 3.30e-01 100.0% 92.7%
1nj4A01 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.51 42.0 2.70e-01 100.0% 65.6%
ECOD (50)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4531584 4012.1.1.0 ↗ a+b two layers › SSHS domain › SSHS domain in type II DNA topoisomerase › SSHS domain in type II DNA topoisomerase 0.87 72.0 7.39e-01 100.0% 97.5%
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 0.84 69.0 7.14e-01 100.0% 97.5%
3096550 4012.1.1.1 ↗ a+b two layers › SSHS domain › SSHS domain in type II DNA topoisomerase › SSHS domain in type II DNA topoisomerase › TOPRIM_C 0.76 65.0 6.33e-01 100.0% 87.5%
5067739 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.75 63.0 4.97e-01 100.0% 47.1%
3511410 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.74 57.0 4.55e-01 100.0% 42.2%
4938899 11.1.1.1424 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › DUF7490 0.73 65.0 4.59e-01 100.0% 54.6%
4996421 11.1.1.184 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Wzt_C 0.73 65.0 4.49e-01 100.0% 39.3%
3845539 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.72 56.0 4.46e-01 100.0% 41.1%
4979091 11.1.4.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like 0.72 61.0 4.89e-01 100.0% 48.2%
3909337 11.1.1.2 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › fn3 0.72 64.0 4.62e-01 100.0% 53.3%
5002181 11.1.1.1424 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › DUF7490 0.72 63.0 4.37e-01 100.0% 35.7%
5060440 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.71 64.0 4.68e-01 100.0% 44.5%
3889864 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.71 57.0 5.31e-01 100.0% 70.9%
5033320 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.71 62.0 4.61e-01 100.0% 50.0%
4964937 821.1.1.15 ↗ a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › DUF7508 0.70 56.0 4.87e-01 100.0% 57.1%
4962153 7056.1.1.0 ↗ few secondary structure elements › Zinc binding domain of metalloprotease Spartan › Zinc binding domain of metalloprotease Spartan › Zinc binding domain of metalloprotease Spartan 0.70 61.0 6.02e-01 95.3% 95.6%
5034209 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.69 62.0 5.52e-01 100.0% 78.3%
3600713 10.12.1.1 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › cNMP_binding 0.69 60.0 4.17e-01 100.0% 35.9%
4928070 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.69 60.0 4.52e-01 100.0% 43.3%
4929090 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.69 60.0 4.22e-01 100.0% 33.3%
4461109 11.1.1.48 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › CelD_N 0.69 60.0 4.73e-01 100.0% 58.9%
3935804 2006.1.6.0 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › vWA-like 0.68 58.0 3.37e-01 100.0% 12.1%
4945987 284.1.1.32 ↗ a+b two layers › FKBP-like › FKBP-like › FKBP-like › FKBP26_IF 0.68 59.0 4.47e-01 100.0% 84.8%
3533739 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.67 58.0 4.32e-01 97.7% 100.0%
3392258 11.1.1.536 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › DUF1091 0.67 56.0 3.90e-01 100.0% 54.2%
3675525 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.67 55.0 4.80e-01 100.0% 60.3%
4933882 284.1.1.1 ↗ a+b two layers › FKBP-like › FKBP-like › FKBP-like › FKBP_C 0.66 55.0 4.29e-01 100.0% 84.8%
4000826 10.4.1.1 ↗ beta sandwiches › jelly-roll › Spermadhesin, CUB domain › Spermadhesin, CUB domain › CUB 0.65 55.0 3.93e-01 100.0% 32.3%
4028011 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.65 54.0 5.35e-01 97.7% 97.8%
4953482 284.1.1.1 ↗ a+b two layers › FKBP-like › FKBP-like › FKBP-like › FKBP_C 0.65 55.0 4.03e-01 100.0% 71.2%
None — 0.65 56.0 4.24e-01 100.0% 73.6%
4948028 284.1.1.32 ↗ a+b two layers › FKBP-like › FKBP-like › FKBP-like › FKBP26_IF 0.64 54.0 4.14e-01 100.0% 84.8%
3891185 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.64 50.0 4.53e-01 100.0% 61.7%
3593642 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.63 50.0 4.07e-01 100.0% 44.2%
3364276 904.1.1.0 ↗ few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain 0.63 50.0 4.82e-01 100.0% 78.0%
3458276 822.1.1.1 ↗ a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF 0.62 48.0 4.36e-01 100.0% 61.5%
4971063 10.1.2.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.61 51.0 3.94e-01 100.0% 48.6%
3738990 11.1.1.41 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Arrestin_C 0.61 51.0 3.02e-01 100.0% 24.2%
4956437 301.1.1.2 ↗ a+b three layers › Bacillus chorismate mutase-like › L30e-like › L30e-like › eRF1_3 0.61 50.0 3.64e-01 100.0% 31.9%
3739999 11.1.1.646 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › TRP_N 0.60 52.0 3.61e-01 100.0% 46.7%
3977310 223.1.1.0 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains 0.60 52.0 3.77e-01 100.0% 64.2%
3253455 4095.1.1.2 ↗ alpha bundles › ATP-dependent DNA ligase DNA-binding domain › ATP-dependent DNA ligase DNA-binding domain › ATP-dependent DNA ligase DNA-binding domain › DNA_ligase_A_M+DNA_ligase_A_N 0.59 45.0 2.70e-01 100.0% 40.2%
4979655 301.9.1.1 ↗ a+b three layers › Bacillus chorismate mutase-like › HypA Ni-binding domain › HypA Ni-binding domain › HypA 0.57 45.0 3.45e-01 100.0% 63.2%
4945347 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.56 50.0 3.52e-01 100.0% 62.3%
4382604 223.1.1.0 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains 0.56 52.0 3.74e-01 100.0% 54.3%
3798219 904.1.1.0 ↗ few secondary structure elements › B-box zinc-binding domain-like › B-box zinc-binding domain › B-box zinc-binding domain 0.55 46.0 4.22e-01 100.0% 71.7%
3624443 5001.1.1.1 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1 0.54 47.0 2.75e-01 100.0% 28.8%
3263784 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.53 45.0 3.02e-01 100.0% 47.3%
5046495 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.53 47.0 3.56e-01 100.0% 55.0%
3741339 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.50 44.0 3.42e-01 100.0% 78.5%