Back to structures

LacPavin_0818_WC55_scaffold_56344_prodigal-single.1__X__X__00036

Bact-Vir

LacPavin_0818_WC55_scaffold_56344_prodigal-single.1__X__X__00036

Identity

Kingdom:
phage

Quality

87.2 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 2-74
PDB
Domain cluster: representative
CATH (44)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3aa0B02 3.90.1150.210 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › F-actin capping protein, beta subunit 0.73 57.0 4.41e-01 83.6% 63.2%
8es5A01 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.72 52.0 4.17e-01 75.3% 44.2%
5w0kA01 3.90.380.20 Alpha Beta › Alpha-Beta Complex › Naphthalene 1,2-dioxygenase Alpha Subunit; Chain A, domain 1 › Herpesvirus glycoprotein H, domain D-II 0.71 54.0 3.44e-01 79.5% 38.2%
2m47A00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.71 51.0 3.93e-01 76.7% 39.9%
5aq1A02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.70 51.0 3.41e-01 76.7% 68.8%
3fy6A01 3.30.2210.10 Alpha Beta › 2-Layer Sandwich › Integron cassette protein fold › Integron cassette protein superfamily 0.70 47.0 4.13e-01 71.2% 47.7%
6r3wA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.70 54.0 4.07e-01 80.8% 42.9%
2nn5A00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.69 50.0 3.79e-01 76.7% 34.5%
3pg7A02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.69 49.0 4.21e-01 74.0% 60.9%
3bxoA02 2.20.130.10 Mainly Beta › Single Sheet › S-adenosyl-L-methionine-dependent methyltransferases › CAC2371-like domains 0.68 47.0 5.23e-01 72.6% 94.9%
1hdhA02 3.30.1120.10 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › 0.66 42.0 4.19e-01 76.7% 61.0%
3gvzA00 3.60.60.10 Alpha Beta › 4-Layer Sandwich › Penicillin V Acylase; Chain A › Penicillin V Acylase; Chain A 0.66 54.0 3.65e-01 87.7% 97.3%
3dcxA00 2.30.29.50 Mainly Beta › Roll › PH-domain like › Bacterial Pleckstrin homology domain 0.66 55.0 4.64e-01 89.0% 70.1%
3n8bA00 3.10.450.700 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.65 53.0 5.26e-01 87.7% 92.0%
3b77A01 2.30.29.50 Mainly Beta › Roll › PH-domain like › Bacterial Pleckstrin homology domain 0.63 52.0 4.69e-01 89.0% 69.0%
1a7tA00 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.63 43.0 3.06e-01 71.2% 41.4%
3lidA03 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.63 42.0 3.82e-01 71.2% 52.1%
2ovsA00 2.40.128.380 Mainly Beta › Beta Barrel › Lipocalin › T3SS negative regulator GrlR 0.62 44.0 3.76e-01 76.7% 45.8%
6t5kC00 3.60.15.10 Alpha Beta › 4-Layer Sandwich › Metallo-beta-lactamase; Chain A › Ribonuclease Z/Hydroxyacylglutathione hydrolase-like 0.62 46.0 3.32e-01 80.8% 44.2%
6ap4B02 3.10.150.10 Alpha Beta › Roll › DNA Polymerase III; Chain A, domain 2 › DNA Polymerase III, subunit A, domain 2 0.61 46.0 3.68e-01 79.5% 97.9%
1mhmA00 3.60.90.10 Alpha Beta › 4-Layer Sandwich › S-adenosylmethionine decarboxylase › S-adenosylmethionine decarboxylase 0.61 43.0 2.91e-01 74.0% 23.7%
5bpdA02 3.30.870.10 Alpha Beta › 2-Layer Sandwich › Endonuclease; Chain A › Endonuclease Chain A 0.60 41.0 3.34e-01 71.2% 74.8%
3qwmA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.59 43.0 3.53e-01 75.3% 66.9%
2lmeA00 3.30.1300.30 Alpha Beta › 2-Layer Sandwich › Pantoate--beta-alanine Ligase; Chain: A,domain 2 › GSPII I/J protein-like 0.59 42.0 3.72e-01 75.3% 55.2%
2dfkC02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.58 41.0 3.31e-01 72.6% 61.7%
2gkpA00 3.40.1590.10 Alpha Beta › 3-Layer(aba) Sandwich › NMB0488-like fold › NMB0488-like 0.58 43.0 3.31e-01 79.5% 90.8%
3cqnB00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.58 49.0 3.76e-01 91.8% 82.0%
2kd2A01 2.40.128.180 Mainly Beta › Beta Barrel › Lipocalin › 0.57 39.0 3.78e-01 82.2% 61.9%
2hzrA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.57 42.0 3.28e-01 79.5% 78.3%
4l1nA00 2.40.128.660 Mainly Beta › Beta Barrel › Lipocalin › Uncharacterised protein PF15525, DUF4652 0.56 41.0 3.20e-01 76.7% 85.7%
4ba0A01 2.60.40.1760 Mainly Beta › Sandwich › Immunoglobulin-like › glycosyl hydrolase (family 31) 0.56 42.0 3.04e-01 79.5% 42.2%
2ffgA00 3.30.720.20 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › Protein of unknown function DUF1797 0.56 44.0 4.34e-01 86.3% 78.8%
1vavA00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.56 43.0 3.03e-01 82.2% 36.0%
3w0fA01 3.20.190.10 Alpha Beta › Alpha-Beta Barrel › N-terminal domain of MutM-like DNA repair proteins › MutM-like, N-terminal 0.55 44.0 3.79e-01 87.7% 91.6%
1ntyA02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.55 41.0 3.45e-01 79.5% 55.6%
1dpgA02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.55 47.0 3.15e-01 98.6% 68.9%
3azwA01 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.54 45.0 3.21e-01 93.2% 75.2%
5mc9A02 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.54 38.0 2.92e-01 75.3% 45.1%
3t0pA02 3.10.150.10 Alpha Beta › Roll › DNA Polymerase III; Chain A, domain 2 › DNA Polymerase III, subunit A, domain 2 0.53 37.0 2.72e-01 72.6% 91.2%
2q2rA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.53 44.0 3.44e-01 94.5% 83.2%
1oo0A00 3.30.1560.10 Alpha Beta › 2-Layer Sandwich › Mago nashi protein › Mago nashi 0.53 39.0 3.22e-01 79.5% 79.2%
1vqzA02 3.30.390.50 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › CO dehydrogenase flavoprotein, C-terminal domain 0.52 37.0 3.48e-01 74.0% 70.5%
4ikbA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.51 35.0 2.95e-01 71.2% 46.5%
2yeqA02 3.60.21.70 Alpha Beta › 4-Layer Sandwich › Purple Acid Phosphatase; chain A, domain 2 › Alkaline phosphatase D (PhoD) 0.50 43.0 2.77e-01 100.0% 90.8%
ECOD (70)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4579173 331.3.1.2 a+b two layers › TBP-like › Bet v1-like › Bet v1-like › Ring_hydroxyl_A 0.77 57.0 4.02e-01 76.7% 30.6%
3690474 331.3.1.0 a+b two layers › TBP-like › Bet v1-like › Bet v1-like 0.77 56.0 3.94e-01 76.7% 26.1%
3690532 331.3.1.2 a+b two layers › TBP-like › Bet v1-like › Bet v1-like › Ring_hydroxyl_A 0.77 56.0 3.97e-01 76.7% 27.6%
5035423 295.1.1.0 a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain 0.76 66.0 6.25e-01 93.2% 82.4%
3509199 633.23.1.4 alpha bundles › Bromodomain-like › Claudin › Claudin › Claudin_2 0.74 55.0 3.94e-01 76.7% 39.5%
3808882 4051.1.1.1 a+b two layers › a+b domain in Capz › a+b domain in Capz › a+b domain in Capz › F_actin_cap_B 0.73 58.0 4.28e-01 83.6% 58.3%
3285612 331.3.1.2 a+b two layers › TBP-like › Bet v1-like › Bet v1-like › Ring_hydroxyl_A 0.73 53.0 3.65e-01 76.7% 27.3%
4970362 300.1.1.0 a+b three layers › Phospholipase D/nuclease › Phospholipase D/nuclease › Phospholipase D/nuclease 0.72 50.0 4.04e-01 71.2% 79.7%
3923143 633.23.1.17 alpha bundles › Bromodomain-like › Claudin › Claudin › DuoxA 0.71 55.0 3.81e-01 83.6% 42.1%
4947833 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.70 51.0 4.27e-01 78.1% 100.0%
4640183 12.3.1.40 beta sandwiches › Glycosyl hydrolase domain-like › supersandwich › supersandwich › TREH_N 0.69 48.0 3.37e-01 72.6% 70.9%
None 0.68 47.0 3.99e-01 71.2% 98.3%
3247727 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.68 49.0 3.90e-01 75.3% 45.7%
4996059 300.1.1.0 a+b three layers › Phospholipase D/nuclease › Phospholipase D/nuclease › Phospholipase D/nuclease 0.67 47.0 3.66e-01 72.6% 73.3%
3180028 2003.1.1.0 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains 0.67 53.0 3.33e-01 84.9% 43.9%
3246415 10.1.1.0 beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases 0.66 48.0 4.03e-01 76.7% 94.4%
4666231 9.1.1.14 beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins › CpeS 0.66 50.0 3.69e-01 79.5% 34.9%
3938142 331.2.1.0 a+b two layers › TBP-like › Phosphoglucomutase, C-terminal domain › Phosphoglucomutase, C-terminal domain 0.66 44.0 3.15e-01 76.7% 23.2%
3697524 9.2.1.7 beta barrels › Lipocalins/Streptavidin › Avidin/Streptavidin › Avidin/Streptavidin › PF30970 0.66 48.0 4.46e-01 76.7% 70.0%
3884108 219.1.1.6 a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Acetyltransf_2 0.65 49.0 3.38e-01 83.6% 79.6%
4955671 7089.1.1.0 a+b two layers › Methane monooxygenase hydroxylase, MmoD › Methane monooxygenase hydroxylase, MmoD › Methane monooxygenase hydroxylase, MmoD 0.64 46.0 4.46e-01 75.3% 86.3%
4221575 4099.1.1.52 a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like › FTA2 0.64 47.0 4.11e-01 76.7% 55.2%
3213868 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.63 49.0 4.00e-01 83.6% 49.6%
139111 223.1.1.47 a+b three layers › Profilin-like › sensor domains › sensor domains › HK_sensor_dom_bact 0.63 43.0 3.85e-01 78.1% 50.5%
3841571 331.18.1.0 a+b two layers › TBP-like › C-terminal TBP-like domain of Roc › C-terminal TBP-like domain of Roc 0.63 45.0 3.32e-01 75.3% 53.3%
4586503 277.1.1.1 a+b two layers › PX domain › PX domain › PX domain › PX 0.62 43.0 3.53e-01 71.2% 48.9%
3228242 4210.1.1.1 a+b two layers › WGR domain › WGR domain › WGR domain › WGR 0.62 44.0 3.92e-01 72.6% 72.0%
3699727 5.1.4.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.62 50.0 3.20e-01 87.7% 44.6%
3964752 868.1.1.1 a+b complex topology › mRNA triphosphatase CET1-related › mRNA triphosphatase CET1-related › mRNA triphosphatase CET1-related › CYTH 0.61 43.0 3.31e-01 72.6% 34.8%
3240374 5.1.4.8 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › CNH 0.61 54.0 3.54e-01 100.0% 52.3%
5063036 7515.1.1.6 a/b three-layered sandwiches › Alkaline phosphatase-like › Alkaline phosphatase-like › Alkaline phosphatase-like › Phosphodiest 0.61 43.0 2.65e-01 75.3% 12.4%
3565109 331.18.1.4 a+b two layers › TBP-like › C-terminal TBP-like domain of Roc › C-terminal TBP-like domain of Roc › COR-B 0.61 43.0 3.24e-01 75.3% 53.5%
3609936 5.1.4.1 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.60 53.0 3.02e-01 98.6% 34.0%
3692667 5.1.4.223 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Beta-prop_RIC1_2nd 0.60 51.0 3.24e-01 97.3% 91.5%
3738698 213.1.1.6 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › ODC_AZ 0.59 43.0 3.68e-01 76.7% 46.7%
3194506 220.1.1.201 beta barrels › PH domain-like › PH domain-like › PH domain-like › DUF7493 0.59 48.0 4.09e-01 84.9% 71.8%
3685544 5.1.5.77 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed › WD40, Beta-prop_WDR75_1st 0.59 51.0 3.38e-01 100.0% 70.3%
3738388 5.1.4.179 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Beta-prop_Vps41 0.59 50.0 3.33e-01 100.0% 77.9%
3466257 5.1.3.142 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › Beta-prop_AT5G49610-like 0.58 49.0 3.25e-01 98.6% 71.6%
5021185 10.1.1.0 beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases 0.58 45.0 3.41e-01 83.6% 54.9%
3200646 220.1.1.201 beta barrels › PH domain-like › PH domain-like › PH domain-like › DUF7493 0.58 46.0 4.06e-01 84.9% 62.9%
3741046 5.1.4.348 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Beta-prop_WDR75_1st 0.58 51.0 3.23e-01 98.6% 55.2%
3586726 5.1.4.421 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Beta-prop_IFT140_1st, Beta-prop_IFT140_2nd 0.58 44.0 2.98e-01 84.9% 51.5%
3588583 4099.1.1.0 a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like 0.57 48.0 3.92e-01 94.5% 81.4%
3180376 109.3.1.11 alpha superhelices › Repetitive alpha hairpins › Ankyrin repeat › Ankyrin repeat › Ank_5 0.57 48.0 2.98e-01 94.5% 39.5%
3589803 2484.1.1.144 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DEDD_Tnp_IS110 0.57 40.0 3.64e-01 74.0% 86.0%
3604640 3740.1.1.1 alpha arrays › F420-reducing hydrogenase subunit beta › F420-reducing hydrogenase subunit beta › F420-reducing hydrogenase subunit beta › FrhB_FdhB_N,FrhB_FdhB_C 0.56 42.0 3.00e-01 83.6% 50.2%
3789793 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.56 49.0 2.81e-01 100.0% 28.0%
None 0.56 47.0 3.23e-01 94.5% 56.2%
5054848 5.1.10.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 12-bladed 0.55 42.0 3.81e-01 82.2% 85.0%
5001584 12.6.1.4 beta sandwiches › Glycosyl hydrolase domain-like › Glycoside hydrolase family 127 middle domain-related › Glycoside hydrolase family 127 middle domain-related › Glyco_hydro127M 0.55 39.0 3.67e-01 72.6% 69.4%
3793856 5.1.4.421 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Beta-prop_IFT140_1st, Beta-prop_IFT140_2nd 0.55 47.0 2.72e-01 98.6% 25.6%
4284036 4099.1.1.26 a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like › Kre28 0.55 45.0 3.98e-01 89.0% 63.8%
5042040 868.1.1.1 a+b complex topology › mRNA triphosphatase CET1-related › mRNA triphosphatase CET1-related › mRNA triphosphatase CET1-related › CYTH 0.54 40.0 3.12e-01 79.5% 39.4%
3790115 5.1.4.341 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Beta-prop_IFT140_2nd 0.54 46.0 2.95e-01 93.2% 45.0%
3850090 4099.1.1.19 a+b two layers › Kinetochore globular domain-like › Kinetochore globular domain-like › Kinetochore globular domain-like › Med14_RM8 0.54 43.0 3.56e-01 89.0% 50.0%
3277940 3844.2.1.1 a+b two layers › hydrogenase expression protein-like › MybT EspG5 chaperone › MybT EspG5 chaperone › ESX-1_EspG 0.54 45.0 3.08e-01 89.0% 86.7%
3786489 5.1.4.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.54 46.0 3.02e-01 98.6% 72.7%
3760199 331.2.1.6 a+b two layers › TBP-like › Phosphoglucomutase, C-terminal domain › Phosphoglucomutase, C-terminal domain › Med14_RM8 0.54 43.0 3.91e-01 89.0% 69.0%
3711234 5.1.4.175 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Beta-prop_IFT122_2nd 0.54 47.0 3.23e-01 98.6% 56.2%
5054730 868.1.1.1 a+b complex topology › mRNA triphosphatase CET1-related › mRNA triphosphatase CET1-related › mRNA triphosphatase CET1-related › CYTH 0.53 38.0 2.91e-01 75.3% 36.5%
3682604 5.1.4.1 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.53 46.0 2.63e-01 98.6% 32.5%
3404770 5.1.4.175 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Beta-prop_IFT122_2nd 0.53 47.0 3.19e-01 98.6% 55.2%
3597697 5.1.1.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 4-bladed 0.53 42.0 3.06e-01 84.9% 91.0%
4087213 330.4.1.1 a+b two layers › dsRBD-like › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobil_deamC 0.52 39.0 3.95e-01 82.2% 78.7%
3629171 220.1.1.66 beta barrels › PH domain-like › PH domain-like › PH domain-like › SOS1_NGEF_PH 0.52 39.0 3.12e-01 80.8% 50.3%
3895602 5.1.4.102 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40_3 0.51 41.0 2.81e-01 90.4% 96.3%
3924939 4210.1.1.1 a+b two layers › WGR domain › WGR domain › WGR domain › WGR 0.51 40.0 3.42e-01 83.6% 72.2%
3741319 5.1.4.223 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Beta-prop_RIC1_2nd 0.51 42.0 2.96e-01 95.9% 58.1%
3241422 3755.3.1.627 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › CNH 0.51 42.0 2.62e-01 97.3% 36.8%