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NC_055841.1__YP_010107183.1__KNU99_gp041__00041

Bact-Vir

NC_055841.1__YP_010107183.1__KNU99_gp041__00041

Identity

Accession:
NC_055841 ↗
Kingdom:
phage

Quality

83.3 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pootjesviridae› Heverleevirus› Agrobacterium_phage_OLIVR5

TaxID: 2723773

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 medium residues 1-79
PDB
Domain cluster: representative
CATH (5)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1wgnA00 1.10.8.10 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › Ubiquitin-associated (UBA) domain 0.65 41.0 4.52e-01 72.2% 81.0%
1sxjE02 1.10.8.60 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.57 43.0 4.63e-01 88.6% 100.0%
2hszA02 1.10.150.240 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › Putative phosphatase; domain 2 0.57 36.0 3.74e-01 70.9% 68.0%
1um8A02 1.10.8.60 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.52 44.0 4.20e-01 98.7% 90.7%
4ezbA02 1.10.1040.10 Mainly Alpha › Orthogonal Bundle › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 0.51 36.0 3.26e-01 77.2% 100.0%
ECOD (3)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3581694 611.1.1.1 ↗ alpha bundles › N-cbl like › Transferrin receptor ectodomain, C-terminal domain › Transferrin receptor ectodomain, C-terminal domain › TFR_dimer 0.56 39.0 3.04e-01 73.4% 78.9%
3773622 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 0.52 44.0 3.52e-01 100.0% 83.9%
3920577 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 0.50 43.0 2.96e-01 100.0% 44.6%
D2 medium residues 80-140
PDB
Domain cluster: representative
CATH (55)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1xv2C01 3.30.1330.80 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › Hypothetical protein, similar to alpha- acetolactate decarboxylase; domain 2 0.69 56.0 4.67e-01 91.8% 65.8%
4bt2A01 3.30.1330.80 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › Hypothetical protein, similar to alpha- acetolactate decarboxylase; domain 2 0.66 56.0 4.60e-01 96.7% 66.7%
3cpxA02 2.40.30.40 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Peptidase M42, domain 2 0.66 48.0 4.84e-01 80.3% 100.0%
1a45A01 2.60.20.10 Mainly Beta › Sandwich › Gamma-B Crystallin; domain 1 › Crystallins 0.65 54.0 4.94e-01 95.1% 77.1%
3lwcA00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.64 51.0 4.33e-01 98.4% 52.4%
5fq0A00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.63 53.0 4.34e-01 98.4% 50.9%
1v70A00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.63 53.0 4.44e-01 100.0% 54.3%
3fjsC00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.63 51.0 4.24e-01 98.4% 51.4%
1a7hA00 2.60.20.10 Mainly Beta › Sandwich › Gamma-B Crystallin; domain 1 › Crystallins 0.62 52.0 4.68e-01 95.1% 76.7%
1aj6A00 3.30.565.10 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain 0.62 54.0 3.84e-01 100.0% 53.6%
1sefA02 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.61 52.0 4.20e-01 98.4% 48.7%
6v55A01 2.60.120.290 Mainly Beta › Sandwich › Jelly Rolls › Spermadhesin, CUB domain 0.61 54.0 4.44e-01 100.0% 64.3%
2ozjA00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.61 50.0 4.18e-01 98.4% 51.4%
1h0hA04 2.40.40.20 Mainly Beta › Beta Barrel › Barwin-like endoglucanases › 0.60 45.0 3.33e-01 83.6% 74.4%
2pytA00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.60 47.0 3.79e-01 98.4% 42.2%
1vj2A00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.60 49.0 4.03e-01 100.0% 49.1%
2jroA01 3.30.1910.10 Alpha Beta › 2-Layer Sandwich › so0334 like fold › so0334 like domain 0.60 43.0 4.27e-01 77.0% 86.2%
2ki8A01 2.40.40.20 Mainly Beta › Beta Barrel › Barwin-like endoglucanases › 0.59 47.0 3.86e-01 91.8% 88.8%
1y9qA02 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.59 52.0 4.54e-01 100.0% 86.0%
6melB02 3.30.1490.20 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › ATP-grasp fold, A domain 0.59 46.0 4.29e-01 91.8% 100.0%
3nngA00 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.59 51.0 3.87e-01 100.0% 55.6%
3aclA01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.59 48.0 3.97e-01 100.0% 48.3%
2qggA01 2.40.30.60 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › RimM 0.59 49.0 4.40e-01 100.0% 94.6%
4a0tA03 2.60.320.30 Mainly Beta › Sandwich › mini-chromosome maintenance (MCM) complex, domain 2 › 0.59 47.0 4.34e-01 98.4% 95.6%
3ihpA03 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.58 49.0 3.15e-01 100.0% 32.2%
2mngA00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.58 50.0 3.95e-01 98.4% 46.6%
2kdyA01 2.60.40.1980 Mainly Beta › Sandwich › Immunoglobulin-like › 0.58 43.0 3.32e-01 82.0% 49.0%
4r3dA03 2.60.120.1680 Mainly Beta › Sandwich › Jelly Rolls › 0.57 47.0 3.80e-01 100.0% 48.9%
6m9sD01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.57 49.0 4.22e-01 98.4% 76.2%
5xnrA01 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.57 47.0 3.84e-01 98.4% 100.0%
3oovA00 3.30.450.40 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › GAF domain 0.57 43.0 3.24e-01 85.2% 74.4%
3vi3B02 2.60.40.1510 Mainly Beta › Sandwich › Immunoglobulin-like › ntegrin, alpha v. Chain A, domain 3 0.57 49.0 3.79e-01 100.0% 44.4%
4myjA04 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.56 49.0 3.88e-01 100.0% 65.1%
1wb1A03 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.56 40.0 3.35e-01 78.7% 72.6%
3fd4A00 3.10.100.10 Alpha Beta › Roll › Mannose-Binding Protein A; Chain A › Mannose-Binding Protein A, subunit A 0.56 46.0 3.71e-01 100.0% 77.9%
4ccdA03 2.60.120.560 Mainly Beta › Sandwich › Jelly Rolls › Exo-inulinase; domain 1 0.56 46.0 3.36e-01 100.0% 98.5%
2d93A00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.56 49.0 3.82e-01 100.0% 46.3%
3fx3B01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.55 47.0 3.71e-01 98.4% 66.2%
1w0nA00 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.55 45.0 3.76e-01 96.7% 100.0%
3i3tA00 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.55 48.0 3.09e-01 98.4% 48.5%
1f97A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 45.0 3.92e-01 96.7% 85.3%
4azzA00 2.60.120.560 Mainly Beta › Sandwich › Jelly Rolls › Exo-inulinase; domain 1 0.54 45.0 3.45e-01 100.0% 78.2%
3clpC00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.54 45.0 3.64e-01 100.0% 63.2%
4a7kA02 2.60.120.990 Mainly Beta › Sandwich › Jelly Rolls › 0.54 46.0 3.02e-01 100.0% 26.9%
3ocpB00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.54 45.0 3.66e-01 100.0% 67.2%
2pf5D00 3.10.100.10 Alpha Beta › Roll › Mannose-Binding Protein A; Chain A › Mannose-Binding Protein A, subunit A 0.53 44.0 3.90e-01 100.0% 100.0%
1ne6A01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.53 46.0 3.69e-01 98.4% 50.0%
2byvE03 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.53 46.0 3.35e-01 100.0% 35.2%
3mdpA00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.52 44.0 3.51e-01 96.7% 45.8%
5hr9A01 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.52 37.0 3.26e-01 80.3% 73.8%
4ev0D01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.52 42.0 3.47e-01 100.0% 65.7%
2aaaA02 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.52 40.0 3.54e-01 91.8% 64.7%
4avaA01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.52 42.0 3.39e-01 100.0% 61.1%
4rz7A02 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.51 41.0 3.50e-01 100.0% 73.6%
4fk5A02 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.51 42.0 2.79e-01 100.0% 32.6%
ECOD (48)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4649270 10.12.1.0 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix 0.68 46.0 4.40e-01 83.6% 61.4%
3955052 10.12.1.0 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix 0.66 53.0 4.39e-01 98.4% 49.1%
3958568 10.12.1.39 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › Cupin_2 0.65 52.0 4.28e-01 98.4% 47.4%
3215715 10.12.1.5 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › PMI_typeI_C 0.65 56.0 4.59e-01 98.4% 52.7%
3287407 10.12.1.0 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix 0.64 53.0 4.64e-01 98.4% 60.0%
1873994 10.12.1.32 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › EutQ 0.64 51.0 4.31e-01 98.4% 51.9%
3643064 5.1.2.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 5-bladed 0.64 44.0 3.09e-01 72.1% 39.5%
4200338 1.1.2.0 ↗ beta barrels › cradle loop barrel › RIFT-related › double psi 0.63 49.0 4.19e-01 86.9% 94.3%
5020252 219.1.1.0 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases 0.61 49.0 4.12e-01 95.1% 65.0%
4805066 10.4.1.1 ↗ beta sandwiches › jelly-roll › Spermadhesin, CUB domain › Spermadhesin, CUB domain › CUB 0.61 54.0 4.49e-01 100.0% 66.7%
5008249 304.131.1.0 ↗ a+b two layers › Alpha-beta plaits › Phosphonoacetate hydrolase insertion domain › Phosphonoacetate hydrolase insertion domain 0.61 54.0 4.18e-01 100.0% 60.0%
3187986 1.1.8.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Aminomethyltransferase beta-barrel domain 0.61 46.0 3.88e-01 82.0% 71.4%
4962210 10.12.1.39 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › Cupin_2 0.61 52.0 4.31e-01 100.0% 53.6%
5051145 10.12.1.39 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › Cupin_2 0.60 48.0 4.03e-01 96.7% 50.0%
4540843 4.1.1.434 ↗ beta barrels › SH3 › SH3 › SH3 › DUF2642 0.60 47.0 4.63e-01 86.9% 93.8%
3514819 10.12.1.0 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix 0.59 51.0 3.30e-01 100.0% 26.3%
4992255 11.1.4.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like 0.59 43.0 4.22e-01 80.3% 72.3%
3945834 1.1.7.79 ↗ beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › Beta-barrel_RND 0.59 50.0 4.36e-01 100.0% 100.0%
3719671 11.2.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain 0.59 46.0 3.71e-01 86.9% 61.6%
2144351 109.4.1.1136 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › HAT_PRP39_N 0.59 48.0 3.67e-01 100.0% 37.7%
2414505 10.12.1.26 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › Pirin_C 0.59 48.0 3.67e-01 100.0% 37.3%
3617798 10.32.1.229 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › PF27640 0.58 49.0 4.01e-01 100.0% 71.2%
5004468 225.1.1.19 ↗ a+b two layers › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase-like › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase › SACS 0.58 49.0 3.53e-01 100.0% 47.5%
3514708 10.4.1.1 ↗ beta sandwiches › jelly-roll › Spermadhesin, CUB domain › Spermadhesin, CUB domain › CUB 0.58 50.0 4.03e-01 100.0% 60.0%
3779679 10.12.1.1 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › cNMP_binding 0.57 49.0 3.16e-01 100.0% 26.7%
3492162 10.12.1.0 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix 0.57 49.0 3.78e-01 100.0% 56.0%
3239669 10.4.1.19 ↗ beta sandwiches › jelly-roll › Spermadhesin, CUB domain › Spermadhesin, CUB domain › Glycoprotein 0.57 49.0 4.15e-01 100.0% 66.7%
4859377 10.12.1.1 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › cNMP_binding 0.57 50.0 4.26e-01 98.4% 63.3%
2063085 10.12.1.1 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › cNMP_binding 0.57 49.0 3.79e-01 100.0% 56.9%
3243005 10.32.1.227 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › Glycoprotein 0.57 48.0 3.82e-01 100.0% 51.9%
4032585 884.1.1.1 ↗ a+b two layers › Hypothetical protein YjiA, C-terminal domain › Hypothetical protein YjiA, C-terminal domain › Hypothetical protein YjiA, C-terminal domain › CobW_C 0.57 47.0 4.33e-01 100.0% 85.9%
4029285 219.1.1.3 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › UCH 0.56 48.0 2.99e-01 100.0% 51.1%
3919483 10.12.1.0 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix 0.56 50.0 3.15e-01 100.0% 19.4%
3532264 10.12.1.1 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › cNMP_binding 0.56 49.0 3.67e-01 100.0% 40.0%
3226649 10.12.1.0 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix 0.55 48.0 3.36e-01 98.4% 31.0%
4424693 10.12.1.0 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix 0.55 46.0 2.89e-01 98.4% 16.3%
3494269 10.12.1.0 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix 0.55 47.0 2.95e-01 98.4% 18.0%
3223957 10.32.1.21 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › PAW 0.55 46.0 3.43e-01 100.0% 43.4%
3258358 10.12.1.1 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › cNMP_binding 0.55 48.0 3.81e-01 98.4% 48.0%
3244415 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.54 44.0 3.56e-01 90.2% 89.2%
3212270 10.12.1.0 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix 0.54 45.0 3.78e-01 100.0% 67.5%
3916871 10.12.1.0 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix 0.54 46.0 3.56e-01 98.4% 42.8%
3499719 4261.1.1.2 ↗ a+b two layers › TrkA C-terminal domain-like › TrkA C-terminal domain-like › TrkA C-terminal domain-like › BK_channel_a 0.54 45.0 3.69e-01 98.4% 53.6%
3483514 4261.1.1.0 ↗ a+b two layers › TrkA C-terminal domain-like › TrkA C-terminal domain-like › TrkA C-terminal domain-like 0.53 44.0 3.64e-01 100.0% 52.8%
3554758 10.12.1.1 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › cNMP_binding 0.53 43.0 3.11e-01 100.0% 39.5%
3232262 209.1.1.1 ↗ a+b complex topology › C-type lectin-like › C-type lectin-like › C-type lectin-like › Lectin_C 0.53 42.0 3.69e-01 100.0% 86.4%
1310622 10.12.1.1 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › cNMP_binding 0.52 42.0 3.46e-01 100.0% 62.5%
5054783 221.1.1.16 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › TGS 0.52 41.0 4.10e-01 93.4% 93.8%