Back to structures

NC_070778.1__YP_010650646.1__PP425_gp106__00106

Bact-Vir

NC_070778.1__YP_010650646.1__PP425_gp106__00106

Identity

Accession:
NC_070778 ↗
Kingdom:
phage

Quality

92.5 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 14-110
PDB
CATH (56)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4a53A01 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.74 45.0 5.38e-01 79.4% 93.5%
2eqjA00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.74 42.0 4.98e-01 79.4% 81.8%
2xk0A00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.74 43.0 5.01e-01 99.0% 81.2%
5kcoA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.73 41.0 5.06e-01 77.3% 89.8%
3fyfA00 2.40.128.410 Mainly Beta › Beta Barrel › Lipocalin › 0.73 59.0 5.11e-01 86.6% 84.6%
3p8bB02 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.72 43.0 5.24e-01 81.4% 93.5%
2f5kA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.72 38.0 5.04e-01 71.1% 100.0%
1y96D00 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.71 46.0 4.93e-01 80.4% 77.1%
1m1gB03 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.70 41.0 4.97e-01 79.4% 90.5%
1u1sA00 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.69 44.0 5.08e-01 99.0% 93.9%
2ckkA02 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.69 40.0 5.09e-01 82.5% 100.0%
2efiA00 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.68 43.0 4.31e-01 86.6% 62.0%
7snsB01 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.68 49.0 4.07e-01 75.3% 72.8%
1y96A00 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.68 44.0 4.64e-01 81.4% 74.4%
2qi2A01 2.30.30.870 Mainly Beta › Roll › SH3 type barrels. › Pelota, domain A 0.66 48.0 4.70e-01 97.9% 70.2%
6my0A02 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.66 43.0 5.13e-01 96.9% 100.0%
2greF02 2.40.30.40 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Peptidase M42, domain 2 0.65 39.0 4.30e-01 79.4% 74.4%
4esqA00 3.40.1000.70 Alpha Beta › 3-Layer(aba) Sandwich › Protein Transport Mog1p; Chain A › PknH-like extracellular domain 0.63 43.0 3.36e-01 70.1% 37.6%
2gc9B00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.62 55.0 4.64e-01 97.9% 93.2%
3obyA01 2.30.30.870 Mainly Beta › Roll › SH3 type barrels. › Pelota, domain A 0.61 44.0 4.24e-01 99.0% 66.1%
1jmoA02 2.30.39.10 Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1 0.61 42.0 3.58e-01 70.1% 98.0%
4zciA02 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.61 42.0 4.17e-01 88.7% 68.3%
2vf9A00 3.30.380.10 Alpha Beta › 2-Layer Sandwich › MS2 Viral Coat Protein › MS2 Viral Coat Protein 0.61 43.0 3.93e-01 74.2% 68.7%
2zylA02 3.90.380.10 Alpha Beta › Alpha-Beta Complex › Naphthalene 1,2-dioxygenase Alpha Subunit; Chain A, domain 1 › Naphthalene 1,2-dioxygenase Alpha Subunit; Chain A, domain 1 0.60 52.0 3.98e-01 93.8% 79.7%
3ia8A00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.60 47.0 3.99e-01 84.5% 78.4%
4mb7A01 3.20.190.10 Alpha Beta › Alpha-Beta Barrel › N-terminal domain of MutM-like DNA repair proteins › MutM-like, N-terminal 0.60 50.0 4.58e-01 90.7% 72.2%
4hbrA00 3.10.450.360 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.59 42.0 3.73e-01 74.2% 63.6%
6rtqA00 2.40.128.30 Mainly Beta › Beta Barrel › Lipocalin › Avidin-like 0.59 54.0 4.82e-01 100.0% 91.0%
1ew3A00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.59 46.0 4.00e-01 86.6% 81.1%
1a87A01 3.30.1120.60 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › Colicin 0.57 51.0 5.10e-01 97.9% 99.0%
2a0aA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.57 42.0 3.84e-01 78.4% 94.7%
4azpA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.57 45.0 4.06e-01 90.7% 61.9%
7szeB02 3.90.380.10 Alpha Beta › Alpha-Beta Complex › Naphthalene 1,2-dioxygenase Alpha Subunit; Chain A, domain 1 › Naphthalene 1,2-dioxygenase Alpha Subunit; Chain A, domain 1 0.56 46.0 3.83e-01 92.8% 88.0%
6c1zA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.56 46.0 4.08e-01 90.7% 62.3%
5iz3A01 3.30.540.10 Alpha Beta › 2-Layer Sandwich › Fructose-1,6-Bisphosphatase; Chain A, domain 1 › Fructose-1,6-Bisphosphatase, subunit A, domain 1 0.55 38.0 3.13e-01 70.1% 43.7%
2fb7A00 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.55 41.0 4.48e-01 92.8% 95.0%
1yqfB00 3.10.280.10 Alpha Beta › Roll › Mitochondrial Matrix Protein; Chain A › Mitochondrial glycoprotein 0.55 47.0 3.87e-01 94.8% 78.0%
3jcuO01 2.40.160.30 Mainly Beta › Beta Barrel › Porin › Photosystem II, cytochrome c-550 precursor 0.55 48.0 3.99e-01 99.0% 95.5%
5x7qA01 2.60.40.1760 Mainly Beta › Sandwich › Immunoglobulin-like › glycosyl hydrolase (family 31) 0.55 39.0 3.00e-01 75.3% 48.7%
1914A00 3.30.720.10 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › Signal recognition particle alu RNA binding heterodimer, srp9/1 0.55 40.0 3.28e-01 76.3% 90.6%
1iwmA00 2.50.20.10 Mainly Beta › Clam › outer membrane lipoprotein receptor (LolB), chain A › Lipoprotein localisation LolA/LolB/LppX 0.54 47.0 3.90e-01 97.9% 68.4%
1hpgA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.54 43.0 4.33e-01 94.8% 83.8%
6i8xA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.54 42.0 3.74e-01 86.6% 83.9%
1yemB00 2.40.320.10 Mainly Beta › Beta Barrel › Hypothetical Protein Pfu-838710-001 › Hypothetical Protein Pfu-838710-001 0.54 42.0 3.58e-01 85.6% 85.5%
3ml4C01 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.54 45.0 4.41e-01 93.8% 96.3%
3oblA00 2.40.128.450 Mainly Beta › Beta Barrel › Lipocalin › 0.54 47.0 4.31e-01 100.0% 92.4%
2w7qB00 2.50.20.10 Mainly Beta › Clam › outer membrane lipoprotein receptor (LolB), chain A › Lipoprotein localisation LolA/LolB/LppX 0.54 49.0 3.96e-01 100.0% 68.9%
4i8oA02 3.30.160.690 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Bacterial toxin RNase RnlA/LsoA, N repeated domain 0.54 38.0 4.00e-01 85.6% 80.0%
4l9cA00 3.40.1000.30 Alpha Beta › 3-Layer(aba) Sandwich › Protein Transport Mog1p; Chain A › 0.54 48.0 4.17e-01 99.0% 78.7%
4c5eC02 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.53 44.0 4.47e-01 89.7% 91.7%
1vprA03 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.53 48.0 4.04e-01 97.9% 65.6%
4a4kA02 2.30.30.1160 Mainly Beta › Roll › SH3 type barrels. › 0.52 48.0 4.26e-01 99.0% 98.5%
1lj5A02 2.30.39.10 Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1 0.52 39.0 3.39e-01 80.4% 96.1%
1ospO01 2.40.128.160 Mainly Beta › Beta Barrel › Lipocalin › C1 set domains (antibody constant domain-like) 0.51 38.0 3.76e-01 81.4% 85.7%
4n4bA00 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.50 44.0 3.13e-01 100.0% 88.7%
4g2sA00 2.60.200.20 Mainly Beta › Sandwich › Tumour Suppressor Smad4 › 0.50 45.0 4.37e-01 97.9% 99.1%
ECOD (58)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4963006 4.1.1.490 beta barrels › SH3 › SH3 › SH3 › PF26269 0.80 60.0 6.42e-01 79.4% 95.3%
3507639 4.1.1.219 beta barrels › SH3 › SH3 › SH3 › LSM12_LSM 0.76 48.0 5.52e-01 81.4% 88.6%
4422252 4.1.1.455 beta barrels › SH3 › SH3 › SH3 › DSRB 0.75 46.0 5.71e-01 76.3% 100.0%
3511375 4.1.1.349 beta barrels › SH3 › SH3 › SH3 › ROF 0.75 54.0 5.73e-01 90.7% 84.7%
3947700 4.8.1.25 beta barrels › SH3 › Chromo domain-like › Chromo domain-like › DSRB 0.74 47.0 5.74e-01 83.5% 100.0%
3232582 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.73 48.0 4.89e-01 81.4% 68.4%
3625817 4.1.1.219 beta barrels › SH3 › SH3 › SH3 › LSM12_LSM 0.73 47.0 5.10e-01 81.4% 78.8%
2727964 4.1.1.105 beta barrels › SH3 › SH3 › SH3 › DUF5604 0.73 42.0 5.14e-01 79.4% 93.2%
3572186 12.3.1.13 beta sandwiches › Glycosyl hydrolase domain-like › supersandwich › supersandwich › Glyco_hydro_38C 0.72 52.0 3.66e-01 75.3% 84.1%
4161673 4.1.1.105 beta barrels › SH3 › SH3 › SH3 › DUF5604 0.72 42.0 4.48e-01 84.5% 65.9%
3855038 4.1.1.105 beta barrels › SH3 › SH3 › SH3 › DUF5604 0.72 41.0 3.46e-01 79.4% 34.4%
3917372 4.1.1.101 beta barrels › SH3 › SH3 › SH3 › Tudor_2 0.72 43.0 4.80e-01 86.6% 77.3%
5066224 4.11.1.1 beta barrels › SH3 › LexA/Signal peptidase › LexA/Signal peptidase › Peptidase_S24 0.71 46.0 4.76e-01 83.5% 70.0%
4937389 4.11.1.0 beta barrels › SH3 › LexA/Signal peptidase › LexA/Signal peptidase 0.71 46.0 4.41e-01 83.5% 57.3%
3328647 4.1.1.219 beta barrels › SH3 › SH3 › SH3 › LSM12_LSM 0.71 46.0 4.92e-01 80.4% 75.3%
3236833 12.3.1.13 beta sandwiches › Glycosyl hydrolase domain-like › supersandwich › supersandwich › Glyco_hydro_38C 0.71 52.0 3.65e-01 75.3% 87.5%
4505316 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.71 44.0 5.29e-01 82.5% 100.0%
5032809 4.11.1.0 beta barrels › SH3 › LexA/Signal peptidase › LexA/Signal peptidase 0.71 45.0 4.08e-01 83.5% 47.7%
3704305 4.1.1.344 beta barrels › SH3 › SH3 › SH3 › PF31193 0.71 46.0 5.30e-01 82.5% 91.4%
3819397 4.1.1.219 beta barrels › SH3 › SH3 › SH3 › LSM12_LSM 0.70 46.0 5.07e-01 80.4% 81.2%
4643894 9.1.1.8 beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › PA_decarbox 0.69 56.0 4.70e-01 85.6% 89.4%
3588213 12.3.1.45 beta sandwiches › Glycosyl hydrolase domain-like › supersandwich › supersandwich › DUF2264_C 0.69 50.0 3.61e-01 75.3% 82.6%
3926118 4.1.1.223 beta barrels › SH3 › SH3 › SH3 › KIF2A-like_1st 0.69 42.0 5.15e-01 86.6% 98.3%
4268386 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.68 44.0 5.02e-01 83.5% 90.0%
3389662 4.1.1.219 beta barrels › SH3 › SH3 › SH3 › LSM12_LSM 0.68 46.0 5.08e-01 81.4% 85.0%
3395150 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.68 42.0 5.15e-01 80.4% 100.0%
3730011 4.1.1.17 beta barrels › SH3 › SH3 › SH3 › Ribosomal_L19 0.66 53.0 4.66e-01 84.5% 70.7%
3296838 4099.1.1.14 a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like › Knl1_RWD_C 0.66 45.0 4.58e-01 70.1% 86.3%
3737837 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.65 43.0 5.12e-01 80.4% 100.0%
3786518 4.8.1.18 beta barrels › SH3 › Chromo domain-like › Chromo domain-like › Myosin_N 0.65 42.0 5.01e-01 77.3% 98.5%
1724304 9.1.1.30 beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › MoaF_like 0.65 52.0 5.14e-01 86.6% 98.1%
3786412 4.1.1.344 beta barrels › SH3 › SH3 › SH3 › PF31193 0.64 48.0 5.22e-01 82.5% 93.8%
3279448 9.1.1.17 beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › MoaF 0.64 55.0 4.87e-01 90.7% 77.4%
4537528 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.64 45.0 5.12e-01 82.5% 100.0%
2127246 4.8.1.4 beta barrels › SH3 › Chromo domain-like › Chromo domain-like › MBT 0.64 41.0 4.71e-01 84.5% 91.3%
3825252 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.63 47.0 4.86e-01 81.4% 83.3%
3636503 4.1.1.33 beta barrels › SH3 › SH3 › SH3 › Myosin_N 0.62 43.0 4.98e-01 82.5% 98.6%
848 9.1.1.8 beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › PA_decarbox 0.62 56.0 4.58e-01 100.0% 91.6%
3784575 5.1.4.1 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.62 43.0 2.86e-01 72.2% 73.0%
3246316 9.1.1.12 beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › THAP4_heme-bd 0.61 48.0 3.82e-01 84.5% 82.4%
3197566 4.1.1.89 beta barrels › SH3 › SH3 › SH3 › SM-ATX 0.60 46.0 4.56e-01 80.4% 88.0%
3829563 897.1.1.0 a+b two layers › Acidic mitochondrial matrix protein p32-like › Acidic mitochondrial matrix protein p32 › Acidic mitochondrial matrix protein p32 0.59 52.0 4.29e-01 93.8% 73.9%
3397845 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.58 42.0 4.10e-01 100.0% 69.5%
3684460 4.1.1.219 beta barrels › SH3 › SH3 › SH3 › LSM12_LSM 0.58 45.0 4.55e-01 81.4% 94.7%
3950458 1.1.17.0 beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 0.58 46.0 3.73e-01 93.8% 46.1%
826 9.1.1.1 beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › Lipocalin 0.57 42.0 3.84e-01 78.4% 94.7%
3815659 223.2.1.1 a+b three layers › Profilin-like › profilin-like › profilin-like › Profilin 0.57 38.0 3.29e-01 70.1% 43.9%
3967853 243.19.1.0 a+b two layers › Cystatin-like › Phi ETA orf 56-like protein C-terminal domains › Phi ETA orf 56-like protein C-terminal domains 0.57 41.0 3.84e-01 74.2% 73.0%
4961667 5084.1.1.45 beta barrels › Outer membrane meander beta-barrels › OMPA-like › OMPA-like › PF26421 0.56 49.0 4.67e-01 97.9% 93.9%
4311063 71.1.1.3 beta meanders › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › LolB 0.56 49.0 4.02e-01 96.9% 75.6%
4681650 71.1.1.3 beta meanders › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › LolB 0.56 49.0 4.05e-01 97.9% 68.0%
3217505 9.1.1.55 beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › DUF7045 0.55 49.0 4.66e-01 96.9% 99.1%
3377696 1.1.17.0 beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 0.54 40.0 3.21e-01 92.8% 38.5%
4395961 212.1.1.14 a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › CbiD 0.52 43.0 3.63e-01 91.8% 62.9%
4638995 71.1.1.15 beta meanders › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › Lipoprotein localization factors LolAB › UCP033729 0.52 47.0 3.74e-01 100.0% 59.8%
4670395 212.1.1.14 a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › CbiD 0.52 43.0 3.55e-01 91.8% 62.2%
3509388 10.1.1.0 beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases 0.51 44.0 2.88e-01 94.8% 22.0%
3583444 9.1.1.12 beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › THAP4_heme-bd 0.51 44.0 4.21e-01 96.9% 100.0%
D2 high residues 115-172
PDB