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NC_055841.1__YP_010107165.1__KNU99_gp023__00023

Bact-Vir

NC_055841.1__YP_010107165.1__KNU99_gp023__00023

Identity

Accession:
NC_055841 ↗
Kingdom:
phage

Quality

69.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pootjesviridae› Heverleevirus› Agrobacterium_phage_OLIVR5

TaxID: 2723773

Cluster

View cluster (3 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 4-64
PDB
Domain cluster: representative
CATH (38)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1yk9A00 3.30.70.1230 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Nucleotide cyclase, GGDEF domain 0.74 64.0 4.60e-01 100.0% 89.1%
1s55A00 2.60.120.40 Mainly Beta › Sandwich › Jelly Rolls › 0.69 52.0 3.83e-01 80.3% 36.5%
3h20A01 3.30.1490.240 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › RepB DNA-primase, N-terminal domain 0.68 49.0 4.87e-01 82.0% 72.7%
2iboA00 3.30.70.930 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.68 53.0 4.73e-01 86.9% 97.8%
2ipiA02 3.40.462.20 Alpha Beta › 3-Layer(aba) Sandwich › Vanillyl-alcohol Oxidase; Chain A, domain 3 › 0.66 50.0 3.39e-01 85.2% 41.5%
2zw2A00 3.30.1280.10 Alpha Beta › 2-Layer Sandwich › Mth169; Chain: A , › Phosphoribosylformylglycinamidine synthase subunit PurS 0.66 48.0 4.39e-01 80.3% 94.1%
1lxnA00 3.30.70.930 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.65 50.0 4.33e-01 85.2% 91.8%
2aehA01 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.65 44.0 3.86e-01 82.0% 45.8%
2yuxA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.65 52.0 4.34e-01 100.0% 50.9%
5ejrA02 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.64 43.0 3.92e-01 80.3% 50.0%
3mgjA00 3.30.70.2690 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › LOR/SDH bifunctional enzyme, conserved domain 0.64 47.0 4.17e-01 82.0% 92.7%
6rpxA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.64 52.0 4.70e-01 100.0% 65.9%
4llgM00 3.10.20.510 Alpha Beta › Roll › Ubiquitin-like (UB roll) › RNA polymerase inhibitor 0.64 46.0 4.84e-01 82.0% 96.0%
2xqyA03 2.60.40.3190 Mainly Beta › Sandwich › Immunoglobulin-like › Herpesvirus glycoprotein H, C-terminal domain 0.64 50.0 3.92e-01 93.4% 39.8%
6s2wA01 3.30.2260.10 Alpha Beta › 2-Layer Sandwich › ERH-like fold › Enhancer of rudimentary 0.63 52.0 4.78e-01 93.4% 81.7%
8os3A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.62 51.0 4.49e-01 100.0% 60.9%
4msvA01 2.60.120.40 Mainly Beta › Sandwich › Jelly Rolls › 0.62 46.0 3.60e-01 80.3% 40.9%
3au4A02 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.62 49.0 4.26e-01 86.9% 72.3%
1g4mA01 2.60.40.840 Mainly Beta › Sandwich › Immunoglobulin-like › 0.61 51.0 3.76e-01 95.1% 63.2%
2yuwA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.61 48.0 4.21e-01 100.0% 56.1%
2mzsA00 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.61 44.0 3.82e-01 78.7% 79.8%
1f6fB02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.60 47.0 4.12e-01 100.0% 56.7%
4kyzA00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.59 49.0 3.68e-01 96.7% 93.4%
3egrA00 3.10.20.520 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phenylacetic acid degradation B 0.59 46.0 4.63e-01 90.2% 87.3%
1t4aA00 3.30.1280.10 Alpha Beta › 2-Layer Sandwich › Mth169; Chain: A , › Phosphoribosylformylglycinamidine synthase subunit PurS 0.59 42.0 3.95e-01 78.7% 100.0%
1sq2N00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.58 49.0 4.15e-01 100.0% 66.1%
3pvlA02 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.58 43.0 3.79e-01 83.6% 52.1%
1qysA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.58 49.0 4.38e-01 100.0% 96.7%
7u7nA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.57 48.0 4.23e-01 100.0% 62.9%
1tdqA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.57 46.0 4.12e-01 100.0% 63.3%
2e4tA01 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.56 38.0 3.17e-01 78.7% 36.4%
4bfkA00 2.60.40.730 Mainly Beta › Sandwich › Immunoglobulin-like › SOR catalytic domain 0.56 46.0 3.76e-01 95.1% 55.6%
1x9nA02 3.30.1490.70 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › 0.56 44.0 4.10e-01 96.7% 66.7%
4lvnP00 3.30.70.2380 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.54 45.0 4.21e-01 98.4% 97.5%
3c0fB00 3.30.1490.340 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › 0.54 40.0 3.64e-01 82.0% 70.6%
5v7qZ00 3.30.1390.20 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein L30; Chain: A, › Ribosomal protein L30/L7 0.53 39.0 3.99e-01 80.3% 98.3%
1f6fB01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 43.0 3.77e-01 100.0% 59.8%
2c60A01 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.52 43.0 4.00e-01 95.1% 96.2%
ECOD (31)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3760983 3335.1.1.3 ↗ beta barrels › Handle domain in transferrin-binding protein B › Handle domain in transferrin-binding protein B › Handle domain in transferrin-binding protein B › KCTD18_C 0.80 61.0 5.09e-01 80.3% 100.0%
3575366 221.1.1.76 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RA_2 0.71 47.0 4.08e-01 82.0% 44.2%
5043527 304.48.1.22 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › GCH_III 0.70 61.0 4.87e-01 100.0% 85.6%
4080161 304.117.1.1 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin-like domain in YebC › Ferredoxin-like domain in YebC › Transcrip_reg 0.69 53.0 4.97e-01 83.6% 97.3%
4182592 304.44.1.1 ↗ a+b two layers › Alpha-beta plaits › Ribosomal protein S10 › Ribosomal protein S10 › Ribosomal_S10 0.67 50.0 3.96e-01 80.3% 80.0%
4964337 3115.5.1.1 ↗ a+b two layers › GP2-like › phenylacetate-CoA oxygenase subunit PaaB › phenylacetate-CoA oxygenase subunit PaaB › PaaB 0.67 52.0 5.36e-01 88.5% 94.5%
3911249 221.1.1.76 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RA_2 0.67 44.0 3.87e-01 82.0% 44.2%
3618720 221.1.1.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.67 47.0 4.10e-01 85.2% 48.4%
3551231 221.1.1.87 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › FERM_N_2 0.66 46.0 3.83e-01 82.0% 41.9%
3582714 221.1.1.6 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RA 0.66 47.0 4.05e-01 85.2% 48.4%
3510118 4076.1.1.0 ↗ a+b two layers › L9 N-domain-like › L9 N-domain-like › L9 N-domain-like 0.65 52.0 5.50e-01 96.7% 96.4%
3252771 821.1.1.0 ↗ a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease 0.65 50.0 4.58e-01 86.9% 89.4%
4151900 301.1.1.2 ↗ a+b three layers › Bacillus chorismate mutase-like › L30e-like › L30e-like › eRF1_3 0.64 50.0 3.87e-01 86.9% 39.6%
4941949 304.100.1.1 ↗ a+b two layers › Alpha-beta plaits › PurS-like › PurS-like › PurS 0.64 46.0 4.28e-01 77.0% 96.2%
3405569 221.1.1.6 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RA 0.63 46.0 3.81e-01 85.2% 42.7%
4947546 304.100.1.0 ↗ a+b two layers › Alpha-beta plaits › PurS-like › PurS-like 0.63 45.0 4.13e-01 78.7% 97.6%
4018427 10.9.1.0 ↗ beta sandwiches › jelly-roll › C-terminal domain of mullusc hemocyanin › C-terminal domain of mullusc hemocyanin 0.62 53.0 4.57e-01 95.1% 76.8%
3582491 11.1.1.2 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › fn3 0.60 52.0 3.95e-01 100.0% 40.7%
5080205 3115.1.1.0 ↗ a+b two layers › GP2-like › RplX-like › RplX-like 0.57 41.0 4.29e-01 82.0% 98.0%
3594101 301.1.1.0 ↗ a+b three layers › Bacillus chorismate mutase-like › L30e-like › L30e-like 0.56 43.0 3.36e-01 91.8% 35.5%
3620456 221.1.1.64 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › Formin_GBD_N 0.56 42.0 3.57e-01 86.9% 47.3%
4168679 329.1.1.1 ↗ a+b two layers › Prokaryotic AspRS, insert domain › Prokaryotic AspRS, insert domain › Prokaryotic AspRS, insert domain › GAD 0.55 42.0 3.42e-01 86.9% 61.5%
5029262 4114.1.1.0 ↗ a+b two layers › PHP14-like › PHP14-like › PHP14-like 0.55 45.0 3.80e-01 100.0% 77.3%
3998356 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.55 37.0 4.08e-01 91.8% 95.6%
4129719 10.32.1.215 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › PF29167 0.54 40.0 2.92e-01 82.0% 35.6%
3874464 304.48.1.1 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › RVT_1 0.54 37.0 2.39e-01 73.8% 70.1%
3742445 210.2.1.1 ↗ a+b four layers › Ntn/PP2C › Protein serine/threonine phosphatase 2C, catalytic domain › Protein serine/threonine phosphatase 2C, catalytic domain › PP2C 0.53 39.0 2.53e-01 83.6% 78.6%
4859136 10.4.1.2 ↗ beta sandwiches › jelly-roll › Spermadhesin, CUB domain › Spermadhesin, CUB domain › C3_CUB2 0.52 36.0 3.59e-01 80.3% 67.2%
3899607 11.1.1.117 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › EpoR_lig-bind 0.51 42.0 3.61e-01 100.0% 54.3%
4987088 2006.1.1.1 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like › Hydrolase 0.51 43.0 2.80e-01 98.4% 80.0%
4008896 11.1.1.1286 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › PF27224 0.51 38.0 3.03e-01 98.4% 38.4%