Back to structures

LacPavin_0818_WC45_scaffold_65992_prodigal-single.1__X__X__00174

Bact-Vir

LacPavin_0818_WC45_scaffold_65992_prodigal-single.1__X__X__00174

Identity

Kingdom:
phage

Quality

65.3 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 5-53
PDB
Domain cluster: representative
CATH (51)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1y96A00 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.73 61.0 5.23e-01 100.0% 61.6%
3ic8A01 3.40.30.110 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › 0.73 62.0 4.26e-01 100.0% 29.4%
2e12A00 2.30.30.720 Mainly Beta › Roll › SH3 type barrels. › Protein of unknown function (DUF3247) 0.72 61.0 5.05e-01 100.0% 67.7%
3p8bB02 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.71 60.0 5.63e-01 100.0% 83.9%
1gutA00 2.40.50.100 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain 0.71 52.0 4.79e-01 81.6% 64.2%
3kf6A00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.69 52.0 3.79e-01 81.6% 36.0%
4epcA01 2.30.30.170 Mainly Beta › Roll › SH3 type barrels. › 0.69 58.0 5.03e-01 100.0% 86.4%
5ycqA00 2.30.30.390 Mainly Beta › Roll › SH3 type barrels. › Hemimethylated DNA-binding domain 0.69 59.0 5.15e-01 100.0% 66.2%
1b9mA03 2.40.50.100 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain 0.69 56.0 4.98e-01 91.8% 78.9%
3c96A01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.68 57.0 3.96e-01 95.9% 47.6%
1z47A03 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.68 51.0 5.15e-01 81.6% 83.7%
1tg0A00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.68 55.0 5.12e-01 98.0% 92.4%
1v1cA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.67 55.0 5.08e-01 100.0% 95.6%
1ex4B02 2.30.30.10 Mainly Beta › Roll › SH3 type barrels. › Integrase, C-terminal domain superfamily, retroviral 0.67 57.0 5.40e-01 98.0% 81.4%
1dr9A02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.66 45.0 3.65e-01 71.4% 92.6%
2kwbA00 2.170.150.10 Mainly Beta › Beta Complex › Metal Binding Protein, Guanine Nucleotide Exchange Factor; Chain A › Metal Binding Protein, Guanine Nucleotide Exchange Factor; Chain A 0.66 57.0 3.89e-01 100.0% 98.9%
2kdsA01 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.66 54.0 4.67e-01 100.0% 60.5%
6gbuD00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.65 53.0 4.98e-01 100.0% 98.4%
2qggA02 2.30.30.240 Mainly Beta › Roll › SH3 type barrels. › PRC-barrel domain 0.65 55.0 4.73e-01 100.0% 74.7%
2f5kA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.65 52.0 5.19e-01 95.9% 98.0%
1iz6A01 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.64 52.0 4.72e-01 91.8% 75.4%
3pg7A02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.64 53.0 4.19e-01 98.0% 64.5%
3m4aA03 3.90.15.10 Alpha Beta › Alpha-Beta Complex › Topoisomerase I; Chain A, domain 3 › Topoisomerase I; Chain A, domain 3 0.64 51.0 4.00e-01 93.9% 76.3%
5jk0B01 1.10.443.10 Mainly Alpha › Orthogonal Bundle › hpI Integrase; Chain A › Intergrase catalytic core 0.64 53.0 3.67e-01 95.9% 42.2%
6bogA02 2.30.30.930 Mainly Beta › Roll › SH3 type barrels. › 0.63 52.0 4.97e-01 100.0% 85.0%
2aujD03 2.40.50.100 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain 0.63 48.0 4.52e-01 87.8% 77.4%
2h7fX02 3.90.15.10 Alpha Beta › Alpha-Beta Complex › Topoisomerase I; Chain A, domain 3 › Topoisomerase I; Chain A, domain 3 0.62 49.0 3.28e-01 95.9% 33.6%
2vknA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.62 51.0 4.74e-01 100.0% 89.4%
5x1yA02 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.61 50.0 3.89e-01 98.0% 97.5%
1gqyB02 3.40.1190.10 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Mur-like, catalytic domain 0.61 46.0 3.11e-01 87.8% 75.6%
4glaC00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.61 45.0 3.83e-01 83.7% 57.3%
2p4pA00 3.30.465.10 Alpha Beta › 2-Layer Sandwich › Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3 › 0.60 45.0 3.79e-01 81.6% 98.8%
1vpkA03 3.10.150.10 Alpha Beta › Roll › DNA Polymerase III; Chain A, domain 2 › DNA Polymerase III, subunit A, domain 2 0.60 48.0 3.69e-01 91.8% 86.6%
1vwxM01 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.59 47.0 4.14e-01 100.0% 58.8%
5u25A02 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.59 50.0 3.87e-01 100.0% 98.4%
2p12A01 2.40.380.10 Mainly Beta › Beta Barrel › FomD barrel-like fold › FomD-like 0.59 46.0 3.36e-01 91.8% 49.7%
2pi2D00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.59 43.0 3.41e-01 85.7% 56.1%
2oaiA00 3.30.465.10 Alpha Beta › 2-Layer Sandwich › Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3 › 0.58 40.0 3.43e-01 73.5% 88.7%
2dlpA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.58 47.0 4.12e-01 100.0% 69.4%
5g5tA02 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.57 46.0 3.10e-01 91.8% 76.0%
3qikA01 2.30.42.10 Mainly Beta › Roll › Pdz3 Domain › PDZ domain 0.56 43.0 3.73e-01 89.8% 83.3%
5inwA02 2.30.39.10 Mainly Beta › Roll › Alpha-1-antitrypsin; domain 1 › Alpha-1-antitrypsin, domain 1 0.56 44.0 3.48e-01 89.8% 77.8%
1u04A04 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.55 42.0 2.80e-01 87.8% 42.4%
2qa1A02 3.30.70.2450 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.54 46.0 3.99e-01 100.0% 96.2%
3g1pA00 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.54 38.0 2.49e-01 77.6% 85.9%
2ra8A01 2.20.140.10 Mainly Beta › Single Sheet › q64v53_bacfr protein fold › WGR domain 0.54 48.0 4.17e-01 100.0% 77.0%
4aeeA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 45.0 3.63e-01 98.0% 90.7%
3kbgA01 3.10.290.10 Alpha Beta › Roll › Structural Genomics Hypothetical 15.5 Kd Protein In mrcA-pckA Intergenic Region; Chain A › RNA-binding S4 domain 0.52 33.0 2.85e-01 95.9% 38.3%
4gs7C02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 36.0 3.03e-01 77.6% 89.8%
1goiB03 2.10.10.20 Mainly Beta › Ribbon › Seminal Fluid Protein PDC-109 (Domain B) › Carbohydrate-binding module superfamily 5/12 0.51 30.0 3.05e-01 75.5% 54.9%
2nqwA00 3.30.465.10 Alpha Beta › 2-Layer Sandwich › Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3 › 0.51 36.0 3.04e-01 75.5% 93.1%
ECOD (61)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5064457 4.7.1.0 beta barrels › SH3 › RNase P subunit p29 › RNase P subunit p29 0.85 70.0 6.16e-01 100.0% 62.9%
4147366 4.17.1.1 beta barrels › SH3 › GatD N-terminal domain-like › GatD N-terminal domain-like › GatD_N 0.81 66.0 6.70e-01 100.0% 93.8%
4128902 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.81 68.0 6.83e-01 100.0% 92.0%
4147290 4.1.1.364 beta barrels › SH3 › SH3 › SH3 › GatD_N 0.78 63.0 5.77e-01 100.0% 67.7%
4041376 4.1.1.97 beta barrels › SH3 › SH3 › SH3 › DUF150_C 0.78 68.0 5.81e-01 100.0% 68.8%
4026408 4.1.1.219 beta barrels › SH3 › SH3 › SH3 › LSM12_LSM 0.75 66.0 5.23e-01 100.0% 53.0%
3704305 4.1.1.344 beta barrels › SH3 › SH3 › SH3 › PF31193 0.74 64.0 5.74e-01 100.0% 75.7%
5044389 4.26.1.0 beta barrels › SH3 › Chromatin protein Cren7 › Chromatin protein Cren7 0.74 54.0 5.41e-01 77.6% 82.0%
5044391 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.72 54.0 5.41e-01 81.6% 100.0%
5080202 2.4.1.2 beta barrels › OB-fold › MOP-like › MOP-like › TOBE_2 0.72 57.0 4.25e-01 87.8% 43.2%
3973076 109.1.1.0 alpha superhelices › Repetitive alpha hairpins › Glutathione S-transferase (GST)-C › Glutathione S-transferase (GST)-C 0.72 60.0 3.91e-01 98.0% 22.2%
3924377 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.71 59.0 5.73e-01 95.9% 90.9%
3736175 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.71 59.0 5.06e-01 98.0% 60.0%
3578208 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.71 59.0 5.75e-01 95.9% 96.4%
1778160 109.1.1.6 alpha superhelices › Repetitive alpha hairpins › Glutathione S-transferase (GST)-C › Glutathione S-transferase (GST)-C › GST_C_2 0.71 60.0 3.88e-01 100.0% 22.1%
4085772 2.4.1.1 beta barrels › OB-fold › MOP-like › MOP-like › TOBE 0.71 54.0 4.71e-01 83.7% 77.3%
4121981 4.1.1.325 beta barrels › SH3 › SH3 › SH3 › KOW, KOW2_Spt5 0.71 60.0 4.57e-01 100.0% 40.8%
4606688 2.4.1.1 beta barrels › OB-fold › MOP-like › MOP-like › TOBE 0.70 56.0 4.91e-01 89.8% 78.7%
4995901 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.70 56.0 5.45e-01 100.0% 80.0%
3198731 4.1.1.249 beta barrels › SH3 › SH3 › SH3 › KOW2_Spt5 0.70 59.0 4.45e-01 100.0% 37.7%
4242302 4.1.1.249 beta barrels › SH3 › SH3 › SH3 › KOW2_Spt5 0.70 58.0 5.24e-01 95.9% 70.0%
4949985 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.70 55.0 4.78e-01 89.8% 81.2%
3932484 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.70 57.0 5.31e-01 95.9% 89.1%
4932493 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.69 59.0 5.45e-01 100.0% 78.5%
3296865 4.1.1.237 beta barrels › SH3 › SH3 › SH3 › KOW4_SPT5 0.69 59.0 4.69e-01 100.0% 48.6%
5043126 243.3.1.0 a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.69 54.0 4.99e-01 87.8% 86.2%
4993118 4.1.1.162 beta barrels › SH3 › SH3 › SH3 › DUF502 0.69 58.0 4.94e-01 100.0% 74.1%
3217772 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.69 57.0 4.92e-01 100.0% 84.7%
3631298 4.1.1.1 beta barrels › SH3 › SH3 › SH3 › SH3_1 0.69 57.0 5.10e-01 100.0% 82.7%
4403216 4.1.1.237 beta barrels › SH3 › SH3 › SH3 › KOW4_SPT5 0.68 58.0 5.23e-01 100.0% 70.0%
4883261 4.1.1.76 beta barrels › SH3 › SH3 › SH3 › NdhO 0.68 57.0 4.75e-01 100.0% 78.9%
5044392 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.68 51.0 4.99e-01 83.7% 94.5%
3264808 4.1.1.237 beta barrels › SH3 › SH3 › SH3 › KOW4_SPT5 0.68 57.0 5.21e-01 100.0% 72.9%
3302829 4.1.1.237 beta barrels › SH3 › SH3 › SH3 › KOW4_SPT5 0.68 56.0 5.24e-01 98.0% 76.9%
4998870 4.1.1.483 beta barrels › SH3 › SH3 › SH3 › RRXRR 0.68 59.0 4.94e-01 100.0% 69.4%
4571610 4.1.1.245 beta barrels › SH3 › SH3 › SH3 › SspH 0.68 55.0 5.20e-01 95.9% 76.3%
3964664 2.4.1.0 beta barrels › OB-fold › MOP-like › MOP-like 0.67 54.0 4.92e-01 91.8% 72.1%
3566631 4.1.1.1 beta barrels › SH3 › SH3 › SH3 › SH3_1 0.67 55.0 4.85e-01 100.0% 78.8%
4218488 4.1.1.54 beta barrels › SH3 › SH3 › SH3 › SH3_2 0.67 55.0 4.84e-01 100.0% 78.8%
3942573 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.67 56.0 5.37e-01 100.0% 93.1%
4255818 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.67 55.0 4.53e-01 100.0% 52.0%
4003604 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.67 57.0 4.53e-01 100.0% 80.0%
3482359 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.66 55.0 4.41e-01 100.0% 77.3%
3482646 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.66 54.0 3.73e-01 100.0% 31.0%
5034351 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.66 56.0 5.47e-01 98.0% 90.9%
3457106 4.1.1.42 beta barrels › SH3 › SH3 › SH3 › Agenet 0.66 54.0 5.09e-01 100.0% 87.7%
4999777 2005.1.1.10 a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › ETF 0.66 57.0 3.63e-01 100.0% 54.7%
3576940 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.66 54.0 3.63e-01 100.0% 23.1%
3277860 4.1.1.368 beta barrels › SH3 › SH3 › SH3 › DUF3097_N 0.66 54.0 5.01e-01 100.0% 72.3%
4998726 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.65 52.0 4.55e-01 100.0% 57.5%
4001239 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.65 51.0 4.26e-01 91.8% 82.1%
4497740 325.1.7.3 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif › Apocytochr_F_C 0.65 50.0 4.81e-01 89.8% 81.7%
3737837 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.65 54.0 4.95e-01 93.9% 78.5%
4031151 4056.1.1.0 beta barrels › Barrel domain in upper collar protein › Barrel domain in upper collar protein › Barrel domain in upper collar protein 0.64 54.0 4.78e-01 100.0% 100.0%
3230533 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.63 46.0 4.70e-01 95.9% 88.9%
5032454 4.11.1.0 beta barrels › SH3 › LexA/Signal peptidase › LexA/Signal peptidase 0.62 49.0 3.87e-01 100.0% 44.6%
5011920 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.62 50.0 4.46e-01 100.0% 95.0%
3590514 4056.1.1.0 beta barrels › Barrel domain in upper collar protein › Barrel domain in upper collar protein › Barrel domain in upper collar protein 0.61 49.0 4.81e-01 98.0% 96.4%
5018347 1.1.17.0 beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 0.60 46.0 3.30e-01 85.7% 44.5%
5032809 4.11.1.0 beta barrels › SH3 › LexA/Signal peptidase › LexA/Signal peptidase 0.60 49.0 3.76e-01 100.0% 41.5%
5021635 219.1.1.51 a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Peptidase_C39_2 0.60 51.0 3.68e-01 100.0% 33.8%
D2 high residues 58-108
PDB