Back to structures

SR-VP_0-2_scaffold_141_2510002_prodigal-single.1__X__X__00016

Bact-Vir

SR-VP_0-2_scaffold_141_2510002_prodigal-single.1__X__X__00016

Identity

Kingdom:
phage

Quality

85.8 mean pLDDT

Cluster

Singleton — not in a non-trivial cluster

3D Structure

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: representative
CATH (7)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3n3fA01 3.40.1620.70 Alpha Beta › 3-Layer(aba) Sandwich › YefM-like fold › 0.74 50.0 5.60e-01 91.2% 93.0%
3hshE00 3.40.1620.70 Alpha Beta › 3-Layer(aba) Sandwich › YefM-like fold › 0.73 55.0 5.61e-01 100.0% 83.6%
1yu0A01 2.10.10.30 Mainly Beta › Ribbon › Seminal Fluid Protein PDC-109 (Domain B) › 0.72 53.0 5.53e-01 100.0% 88.2%
1g3pA01 2.30.27.10 Mainly Beta › Roll › Phage FD Coat Protein, Membrane penetration domain › Phage FD Coat Protein,Membrane penetration domain 0.61 32.0 2.79e-01 71.9% 29.5%
1wquA00 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.60 45.0 3.68e-01 98.2% 42.1%
3lmmA03 3.30.565.60 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › 0.58 49.0 3.58e-01 100.0% 97.7%
1twfI01 2.20.25.10 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › 0.51 29.0 3.11e-01 71.9% 60.9%
ECOD (19)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3987740 3761.1.1.0 beta duplicates or obligate multimers › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related 0.80 52.0 5.99e-01 94.7% 95.0%
3900165 3761.1.1.2 beta duplicates or obligate multimers › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Collagen_trimer 0.75 53.0 5.90e-01 96.5% 100.0%
5002640 3761.1.1.1 beta duplicates or obligate multimers › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Mtd_N 0.74 56.0 5.94e-01 96.5% 92.0%
3917719 3761.1.1.2 beta duplicates or obligate multimers › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Collagen_trimer 0.74 54.0 5.99e-01 100.0% 100.0%
1281772 3761.1.1.2 beta duplicates or obligate multimers › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Collagen_trimer 0.73 54.0 5.60e-01 100.0% 85.2%
1505155 3761.1.1.2 beta duplicates or obligate multimers › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Collagen_trimer 0.73 55.0 5.58e-01 100.0% 82.1%
1107990 3761.1.1.1 beta duplicates or obligate multimers › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Mtd_N 0.72 53.0 5.57e-01 100.0% 90.0%
3528795 3761.1.1.0 beta duplicates or obligate multimers › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related 0.71 48.0 5.21e-01 98.2% 91.1%
2905173 3761.1.1.1 beta duplicates or obligate multimers › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Major tropism determinant (Mtd) trimerization domain-related › Mtd_N 0.70 52.0 5.34e-01 94.7% 83.3%
2495545 207.2.1.22 beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Pectin lyase-like › Pectin lyase-like › Beta_helix 0.70 47.0 2.78e-01 96.5% 8.8%
4539369 391.1.1.5 few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › Fibronectin type I module › TILa 0.67 42.0 4.26e-01 89.5% 63.6%
3906671 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.58 37.0 4.22e-01 77.2% 92.5%
3477642 214.1.1.1 a+b two layers › SH2 › SH2 › SH2 › SH2 0.56 45.0 3.59e-01 100.0% 43.3%
3594376 7.1.1.0 beta barrels › PDZ domain › PDZ domain › PDZ domain 0.54 38.0 3.30e-01 75.4% 76.8%
4999472 101.1.8.1 alpha arrays › HTH › HTH › DNA breaking-rejoining enzymes › Phage_integrase 0.54 46.0 3.26e-01 100.0% 75.3%
4928421 1.1.9.29 beta barrels › cradle loop barrel › RIFT-related › PUA domain › Dev_Cell_Death 0.53 46.0 3.70e-01 100.0% 75.7%
1289816 5.1.4.20 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Glu_cyclase_2 0.53 44.0 2.92e-01 96.5% 82.3%
3963330 211.1.1.0 a+b two layers › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase › Glyoxalase/Bleomycin resistance protein/Dihydroxybiphenyl dioxygenase 0.52 36.0 2.96e-01 75.4% 75.6%
1694867 64.3.1.1 beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain › CBM_5_12 0.52 40.0 4.15e-01 93.0% 92.5%
D2 high residues 84-206
PDB
CATH (39)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1qexA03 2.60.40.1680 Mainly Beta › Sandwich › Immunoglobulin-like › 4-oxalocrotonate tautomerase-like 0.79 64.0 6.68e-01 99.2% 92.1%
6mw4A01 2.60.120.1290 Mainly Beta › Sandwich › Jelly Rolls › 0.65 49.0 4.84e-01 100.0% 74.6%
4jb9H01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.64 50.0 4.96e-01 97.6% 79.4%
4lr4A01 2.60.120.1420 Mainly Beta › Sandwich › Jelly Rolls › 0.63 42.0 3.78e-01 100.0% 47.7%
3isrA02 2.60.40.2250 Mainly Beta › Sandwich › Immunoglobulin-like › 0.62 37.0 4.07e-01 100.0% 72.0%
3fzxA00 2.40.360.20 Mainly Beta › Beta Barrel › YmcC-like fold › 0.60 45.0 3.76e-01 78.0% 99.5%
1rwhA03 2.60.220.10 Mainly Beta › Sandwich › Chondroitinase Ac; Chain A, domain 3 › Polysaccharide lyase family 8-like, C-terminal 0.60 34.0 3.56e-01 100.0% 58.8%
2vm9A02 2.60.40.2080 Mainly Beta › Sandwich › Immunoglobulin-like › 0.58 40.0 4.38e-01 99.2% 87.8%
3tp4B02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.58 35.0 3.96e-01 97.6% 79.6%
6r3wA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.58 41.0 3.78e-01 74.0% 95.0%
3wmqA00 2.60.40.2080 Mainly Beta › Sandwich › Immunoglobulin-like › 0.57 38.0 4.22e-01 98.4% 88.3%
7alkA01 2.60.40.3510 Mainly Beta › Sandwich › Immunoglobulin-like › 0.57 44.0 4.08e-01 82.9% 65.6%
4npjB01 2.60.40.150 Mainly Beta › Sandwich › Immunoglobulin-like › C2 domain 0.56 40.0 3.87e-01 80.5% 64.3%
4z48A00 2.50.20.10 Mainly Beta › Clam › outer membrane lipoprotein receptor (LolB), chain A › Lipoprotein localisation LolA/LolB/LppX 0.56 42.0 3.38e-01 78.0% 89.2%
1js8B02 2.60.310.10 Mainly Beta › Sandwich › Hemocyanin; Chain: A, domain 2 › Haemocyanin C-terminal domain 0.56 33.0 3.59e-01 79.7% 68.6%
2raqA01 3.30.70.1340 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › MTH889-like domain 0.56 32.0 3.73e-01 92.7% 80.0%
4za1C00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.56 34.0 3.79e-01 92.7% 79.3%
1fp5A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 38.0 4.07e-01 96.7% 85.0%
3holA04 2.40.160.90 Mainly Beta › Beta Barrel › Porin › 0.55 40.0 3.86e-01 76.4% 97.9%
6cl5A01 2.60.40.3940 Mainly Beta › Sandwich › Immunoglobulin-like › 0.55 41.0 4.40e-01 100.0% 94.1%
4i0kA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.54 34.0 3.76e-01 97.6% 80.0%
2o62A01 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.54 40.0 3.94e-01 76.4% 92.4%
3fo5B00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.54 45.0 3.70e-01 91.9% 74.2%
2o62A02 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.54 42.0 4.07e-01 82.9% 100.0%
4r6uA03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 35.0 3.73e-01 97.6% 77.7%
1pgl100 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.53 48.0 4.19e-01 100.0% 85.9%
7a1rA01 2.60.40.150 Mainly Beta › Sandwich › Immunoglobulin-like › C2 domain 0.53 36.0 3.72e-01 82.9% 73.7%
3o4oB03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 37.0 3.93e-01 97.6% 83.5%
8hhvA01 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.52 41.0 4.14e-01 100.0% 84.4%
6f2sH01 2.60.120.20 Mainly Beta › Sandwich › Jelly Rolls › 0.52 47.0 3.89e-01 99.2% 79.5%
3vmnA03 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.52 41.0 3.95e-01 100.0% 73.9%
2wb7A02 2.60.40.2050 Mainly Beta › Sandwich › Immunoglobulin-like › 0.52 36.0 3.38e-01 71.5% 93.5%
6wilA01 2.40.160.50 Mainly Beta › Beta Barrel › Porin › membrane protein fhac: a member of the omp85/tpsb transporter family 0.52 43.0 3.21e-01 93.5% 99.1%
3duwA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.51 33.0 2.76e-01 89.4% 36.5%
1xmbA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.51 34.0 3.66e-01 91.9% 81.2%
3rt0C00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.50 41.0 3.77e-01 91.1% 84.3%
1opoA02 2.60.40.1780 Mainly Beta › Sandwich › Immunoglobulin-like › Carmovirus coat protein 0.50 39.0 4.22e-01 100.0% 99.0%
4xuoA00 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.50 45.0 4.18e-01 100.0% 92.9%
4hj1A01 2.60.98.50 Mainly Beta › Sandwich › Tick-borne Encephalitis virus Glycoprotein; domain 1 › 0.50 42.0 3.84e-01 92.7% 97.0%
ECOD (37)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
441034 3386.1.1.4 beta sandwiches › gp9 C-terminal domain-like › gp9 C-terminal domain-related › gp9 C-terminal domain-related › T4_gp9_10_C 0.79 64.0 6.54e-01 99.2% 87.5%
4971476 2499.1.1.0 a/b three-layered sandwiches › Subtilisin-like › Subtilisin-like › Subtilisin-like 0.67 49.0 3.47e-01 100.0% 25.8%
3252050 12.3.1.0 beta sandwiches › Glycosyl hydrolase domain-like › supersandwich › supersandwich 0.63 44.0 3.68e-01 71.5% 56.2%
3251961 12.3.1.46 beta sandwiches › Glycosyl hydrolase domain-like › supersandwich › supersandwich › ComC_SSD 0.62 43.0 3.46e-01 70.7% 55.7%
5032631 5084.3.1.0 beta barrels › Outer membrane meander beta-barrels › Autotransporter › Autotransporter 0.62 43.0 3.44e-01 71.5% 97.6%
862806 4200.1.1.2 beta barrels › YmcC-like › YmcC-like › YmcC-like › DUF3108_like 0.62 46.0 3.79e-01 77.2% 98.1%
3515540 11.1.1.179 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Ig_3 0.61 40.0 4.02e-01 97.6% 63.1%
5044401 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.61 41.0 4.33e-01 97.6% 77.3%
3253503 4182.1.1.2 beta sandwiches › Agglutinin HPA-like › Agglutinin HPA-like › Agglutinin HPA-like › H_lectin 0.60 41.0 4.54e-01 99.2% 89.5%
3642325 9.1.1.29 beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › BFA1_C 0.60 43.0 4.01e-01 74.0% 90.8%
3946522 9.1.1.36 beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › DUF3833 0.60 48.0 4.42e-01 83.7% 98.1%
4943901 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.59 39.0 4.04e-01 95.9% 72.2%
3379907 11.2.1.1 beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › C2 0.58 40.0 3.99e-01 82.1% 66.9%
3784091 11.2.1.1 beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › C2 0.58 43.0 4.17e-01 82.1% 69.6%
3398675 4182.1.1.0 beta sandwiches › Agglutinin HPA-like › Agglutinin HPA-like › Agglutinin HPA-like 0.58 40.0 4.14e-01 100.0% 74.8%
3926092 11.2.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain 0.58 45.0 4.08e-01 82.1% 64.8%
5055930 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.57 38.0 4.16e-01 98.4% 84.0%
3840448 11.2.1.55 beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › C2_SYDE 0.57 40.0 3.94e-01 83.7% 66.7%
3407771 10.32.1.235 beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › MBF2 0.56 36.0 4.06e-01 99.2% 85.1%
3231279 11.1.1.959 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › ILCR1_N 0.55 42.0 3.76e-01 98.4% 58.2%
3604637 4182.1.1.3 beta sandwiches › Agglutinin HPA-like › Agglutinin HPA-like › Agglutinin HPA-like › Gp53-like_C 0.55 40.0 4.16e-01 100.0% 82.6%
3983528 5084.3.1.2 beta barrels › Outer membrane meander beta-barrels › Autotransporter › Autotransporter › IAT_beta 0.55 46.0 3.64e-01 90.2% 85.5%
4936752 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.54 37.0 4.33e-01 95.9% 97.8%
4963366 11.1.1.1424 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › DUF7490 0.54 37.0 3.86e-01 97.6% 78.2%
3446391 11.2.1.37 beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › DUF6598 0.53 41.0 3.68e-01 83.7% 86.5%
4149293 11.1.1.805 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Ig_PDGFR_d4 0.53 37.0 3.59e-01 97.6% 62.1%
5060619 11.1.1.103 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › CARDB 0.52 37.0 3.91e-01 97.6% 82.7%
3995219 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.52 44.0 4.20e-01 99.2% 78.0%
3891207 11.2.1.1 beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › C2 0.52 37.0 3.77e-01 81.3% 75.2%
5014960 10.1.2.0 beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.52 44.0 3.96e-01 100.0% 66.3%
5033004 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 36.0 3.71e-01 87.8% 74.2%
4964191 71.1.1.0 beta meanders › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB 0.51 40.0 3.39e-01 82.9% 93.8%
3863526 11.1.1.108 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › C2-set_2 0.51 38.0 3.94e-01 97.6% 83.5%
5033003 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 36.0 3.43e-01 97.6% 61.4%
4333285 331.3.1.3 a+b two layers › TBP-like › Bet v1-like › Bet v1-like › START 0.50 42.0 3.44e-01 92.7% 71.7%
3642993 9.13.1.1 beta barrels › Lipocalins/Streptavidin › AOC barrel-like › AOC barrel-like › Dirigent 0.50 38.0 3.51e-01 79.7% 96.9%
5030840 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.50 37.0 3.77e-01 97.6% 77.6%