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LacPavin_0818_WC45_scaffold_30120_prodigal-single.1__X__X__00268

Bact-Vir

LacPavin_0818_WC45_scaffold_30120_prodigal-single.1__X__X__00268

Identity

Kingdom:
phage

Quality

72.5 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 4-55
PDB
Domain cluster: representative
CATH (55)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4ch7A02 3.30.70.3460 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.77 69.0 4.64e-01 100.0% 42.5%
2qsdA01 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.74 65.0 6.00e-01 100.0% 79.1%
1vwxS02 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.74 64.0 5.69e-01 100.0% 72.4%
2cuwA00 3.30.1280.10 Alpha Beta › 2-Layer Sandwich › Mth169; Chain: A , › Phosphoribosylformylglycinamidine synthase subunit PurS 0.73 61.0 5.38e-01 100.0% 100.0%
2jxtA01 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.73 62.0 5.54e-01 100.0% 71.1%
6usmB01 3.40.1310.20 Alpha Beta › 3-Layer(aba) Sandwich › Replication Protein E1; Chain: A, › 0.67 53.0 3.95e-01 92.3% 86.4%
5lvxC02 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.67 58.0 4.58e-01 98.1% 100.0%
2j3wC00 3.30.450.70 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.66 46.0 3.45e-01 80.8% 28.1%
4u7cB04 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.65 54.0 4.41e-01 100.0% 57.8%
1uc6A00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.64 50.0 4.03e-01 100.0% 42.2%
2v3sA00 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.64 54.0 4.56e-01 100.0% 97.9%
3egrA00 3.10.20.520 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phenylacetic acid degradation B 0.64 53.0 5.07e-01 100.0% 85.7%
1unnC00 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.64 52.0 4.26e-01 100.0% 50.5%
6lxgA01 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.64 48.0 4.42e-01 86.5% 100.0%
2c4xA02 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.64 55.0 3.96e-01 100.0% 58.3%
3e0jB00 3.90.1030.20 Alpha Beta › Alpha-Beta Complex › 50s Ribosomal Protein L17; Chain: A, › DNA polymerase delta, p66 (Cdc27) subunit, wHTH domain 0.63 48.0 3.55e-01 100.0% 30.8%
5d79A03 3.40.462.20 Alpha Beta › 3-Layer(aba) Sandwich › Vanillyl-alcohol Oxidase; Chain A, domain 3 › 0.63 52.0 3.69e-01 100.0% 43.9%
3lb6C01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.63 47.0 4.06e-01 100.0% 50.0%
2iabA01 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.62 54.0 3.96e-01 100.0% 39.2%
3r5lA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.62 53.0 4.18e-01 100.0% 51.7%
4qpwA00 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.62 52.0 3.90e-01 100.0% 51.4%
4m8rA01 2.60.40.3920 Mainly Beta › Sandwich › Immunoglobulin-like › 0.61 51.0 4.21e-01 100.0% 54.4%
2qjvA01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.60 43.0 3.19e-01 98.1% 27.3%
4kyzA00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.60 50.0 3.62e-01 100.0% 89.8%
1qysA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.60 50.0 4.27e-01 100.0% 56.5%
2mraA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.60 49.0 3.94e-01 100.0% 49.6%
3nngA00 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.60 50.0 3.68e-01 100.0% 35.3%
1eu3A01 3.10.20.120 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.59 47.0 3.82e-01 98.1% 83.6%
4nn5C02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.59 45.0 3.74e-01 100.0% 45.5%
2dn7A00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.58 48.0 3.87e-01 100.0% 45.8%
2ok5A02 2.40.10.120 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.58 49.0 3.29e-01 98.1% 66.2%
3h20A01 3.30.1490.240 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › RepB DNA-primase, N-terminal domain 0.58 48.0 4.49e-01 100.0% 75.8%
6x3aA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.58 50.0 4.03e-01 100.0% 59.6%
2jvfA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.58 47.0 4.07e-01 100.0% 55.3%
3s1tA02 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.58 46.0 4.16e-01 98.1% 98.8%
2z5bA00 3.30.230.100 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › 0.57 40.0 3.17e-01 76.9% 59.1%
2irmA00 3.60.40.10 Alpha Beta › 4-Layer Sandwich › Phosphatase 2c; domain 1 › PPM-type phosphatase domain 0.57 46.0 2.93e-01 100.0% 29.5%
1xreA02 3.55.40.20 Alpha Beta › 3-Layer(bab) Sandwich › minor pseudopilin epsh fold › Iron/manganese superoxide dismutase, C-terminal domain 0.57 47.0 3.75e-01 100.0% 44.6%
1x5fA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.57 45.0 3.62e-01 100.0% 41.7%
4ksnA00 6.20.250.80 Special › Other non-globular › Double Stranded RNA Binding Domain › 0.57 48.0 4.54e-01 100.0% 93.8%
7bi2A01 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.56 46.0 3.76e-01 96.2% 67.3%
5l10B00 3.30.450.80 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Transcription factor LuxR-like, autoinducer-binding domain 0.56 39.0 2.89e-01 78.8% 25.9%
2czrA02 3.90.79.30 Alpha Beta › Alpha-Beta Complex › Nucleoside Triphosphate Pyrophosphohydrolase › TBP-interacting protein, C-terminal domain 0.55 37.0 2.90e-01 100.0% 30.0%
4wiwA02 3.10.50.10 Alpha Beta › Roll › Chitinase A; domain 3 › 0.55 44.0 4.09e-01 94.2% 100.0%
2wxfA02 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.55 45.0 3.61e-01 100.0% 65.5%
2o6cA00 2.60.40.2480 Mainly Beta › Sandwich › Immunoglobulin-like › Periplasmic metal-binding protein Tp34-type 0.54 46.0 3.36e-01 100.0% 33.5%
2jvuA00 2.60.40.2290 Mainly Beta › Sandwich › Immunoglobulin-like › 0.54 43.0 3.67e-01 100.0% 52.0%
2npnA02 3.30.950.10 Alpha Beta › 2-Layer Sandwich › Methyltransferase, Cobalt-precorrin-4 Transmethylase; Domain 2 › Tetrapyrrole methylase, C-terminal domain 0.53 43.0 3.55e-01 100.0% 46.8%
3sonA00 3.90.79.10 Alpha Beta › Alpha-Beta Complex › Nucleoside Triphosphate Pyrophosphohydrolase › Nucleoside Triphosphate Pyrophosphohydrolase 0.53 41.0 3.13e-01 88.5% 87.0%
6xmpA01 2.70.150.10 Mainly Beta › Distorted Sandwich › Calcium-transporting ATPase, cytoplasmic transduction domain A › Calcium-transporting ATPase, cytoplasmic transduction domain A 0.53 46.0 3.42e-01 100.0% 43.6%
7px0A01 3.30.365.10 Alpha Beta › 2-Layer Sandwich › Aldehyde Oxidoreductase; domain 4 › Aldehyde oxidase/xanthine dehydrogenase, molybdopterin binding domain 0.52 40.0 3.32e-01 98.1% 42.5%
4bkwA03 3.30.500.40 Alpha Beta › 2-Layer Sandwich › Murine Class I Major Histocompatibility Complex, H2-DB; Chain A, domain 1 › 0.51 36.0 2.89e-01 80.8% 32.5%
2avxA00 3.30.450.80 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Transcription factor LuxR-like, autoinducer-binding domain 0.51 36.0 2.69e-01 80.8% 26.3%
6jptA00 3.30.230.90 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S5; domain 2 › 0.51 36.0 2.97e-01 82.7% 40.5%
1wgpA01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.50 43.0 3.35e-01 100.0% 46.3%
ECOD (58)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3965010 3115.4.1.1 a+b two layers › GP2-like › Uncharacterized conserved protein Il1583 › Uncharacterized conserved protein Il1583 › DUF1543 0.77 67.0 5.64e-01 100.0% 57.8%
3345090 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.76 66.0 5.27e-01 100.0% 50.9%
3216210 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.76 63.0 6.41e-01 100.0% 100.0%
4013514 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.76 66.0 5.30e-01 100.0% 52.4%
4969863 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.76 65.0 5.85e-01 100.0% 73.3%
4996552 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.75 65.0 5.60e-01 100.0% 64.7%
5067865 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.75 65.0 5.96e-01 100.0% 78.6%
2106285 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.75 64.0 5.14e-01 100.0% 50.9%
2527501 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.75 65.0 5.20e-01 100.0% 52.9%
4160542 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.75 64.0 6.27e-01 100.0% 94.8%
5074648 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.74 64.0 5.74e-01 100.0% 73.3%
4939739 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.74 64.0 6.19e-01 100.0% 93.2%
3409700 4114.1.1.2 a+b two layers › PHP14-like › PHP14-like › PHP14-like › Ocnus 0.74 64.0 5.00e-01 100.0% 46.1%
223776 3115.4.1.1 a+b two layers › GP2-like › Uncharacterized conserved protein Il1583 › Uncharacterized conserved protein Il1583 › DUF1543 0.74 64.0 5.84e-01 100.0% 73.2%
4951473 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.74 63.0 6.02e-01 100.0% 87.3%
5030993 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.73 62.0 5.51e-01 100.0% 68.8%
5081134 3986.2.1.0 a+b two layers › GTP-binding protein lepA C-terminal domain-like › Antitoxin Dmd › Antitoxin Dmd 0.73 61.0 5.84e-01 96.2% 81.7%
4967222 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.73 62.0 6.01e-01 100.0% 91.7%
4937773 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.73 62.0 6.09e-01 100.0% 94.8%
2831852 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.72 62.0 5.07e-01 100.0% 54.5%
5013194 3115.4.1.0 a+b two layers › GP2-like › Uncharacterized conserved protein Il1583 › Uncharacterized conserved protein Il1583 0.72 60.0 5.93e-01 98.1% 98.2%
3597641 304.163.1.0 a+b two layers › Alpha-beta plaits › ATP-binding protein TM_1403 insertion domain › ATP-binding protein TM_1403 insertion domain 0.71 58.0 5.25e-01 94.2% 98.7%
5012895 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.71 58.0 5.76e-01 100.0% 98.2%
3598887 304.8.1.0 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.71 58.0 5.22e-01 94.2% 98.7%
3591488 304.163.1.1 a+b two layers › Alpha-beta plaits › ATP-binding protein TM_1403 insertion domain › ATP-binding protein TM_1403 insertion domain › R1_ABCA1 0.71 59.0 5.29e-01 96.2% 97.3%
3892842 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.70 60.0 5.64e-01 100.0% 87.7%
5014684 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.70 58.0 5.66e-01 100.0% 87.9%
3528332 304.163.1.1 a+b two layers › Alpha-beta plaits › ATP-binding protein TM_1403 insertion domain › ATP-binding protein TM_1403 insertion domain › R1_ABCA1 0.69 56.0 5.06e-01 94.2% 97.3%
4962335 3115.5.1.1 a+b two layers › GP2-like › phenylacetate-CoA oxygenase subunit PaaB › phenylacetate-CoA oxygenase subunit PaaB › PaaB 0.69 57.0 5.42e-01 100.0% 83.1%
3484366 284.1.2.1 a+b two layers › FKBP-like › FKBP-like › Conserved carboxy-terminal domain of oxidative-stress-responsive kinase 1-like kinases › OSR1_C 0.68 57.0 4.76e-01 100.0% 97.0%
4928621 301.1.1.2 a+b three layers › Bacillus chorismate mutase-like › L30e-like › L30e-like › eRF1_3 0.68 56.0 4.20e-01 100.0% 35.7%
3390426 304.163.1.1 a+b two layers › Alpha-beta plaits › ATP-binding protein TM_1403 insertion domain › ATP-binding protein TM_1403 insertion domain › R1_ABCA1 0.68 56.0 4.62e-01 96.2% 77.0%
3285401 3986.2.1.0 a+b two layers › GTP-binding protein lepA C-terminal domain-like › Antitoxin Dmd › Antitoxin Dmd 0.66 53.0 4.82e-01 100.0% 65.3%
3397248 304.8.1.49 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › R1_ABCA1 0.66 54.0 4.58e-01 96.2% 98.9%
3412297 2002.1.1.260 a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › R1_ABCA1 0.66 53.0 4.16e-01 94.2% 81.5%
3939813 221.1.1.0 a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like 0.64 55.0 4.55e-01 100.0% 98.0%
3277566 304.8.1.0 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.64 54.0 4.89e-01 98.1% 97.3%
3217314 221.1.1.92 a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › SL4P 0.64 54.0 4.80e-01 100.0% 91.3%
3265857 299.1.1.0 a+b complex topology › YbaK/ProRS associated domain › YbaK/ProRS associated domain › YbaK/ProRS associated domain 0.64 55.0 4.37e-01 100.0% 48.2%
4654177 1119.1.1.1 a+b complex topology › 6-carboxyhexanoate-CoA ligase › 6-carboxyhexanoate-CoA ligase › 6-carboxyhexanoate-CoA ligase › BioW 0.63 52.0 3.47e-01 100.0% 21.2%
3514371 2492.1.1.0 a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like 0.62 52.0 3.51e-01 98.1% 26.0%
4968352 302.4.1.0 a+b two layers › Reverse ferredoxin › a+b domain in Acetophenone carboxylase (Apc) alpha subunit › a+b domain in Acetophenone carboxylase (Apc) alpha subunit 0.61 50.0 4.35e-01 100.0% 58.8%
5035989 304.8.1.0 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.60 51.0 4.38e-01 100.0% 87.8%
4973338 862.1.1.1 a+b complex topology › Prim-pol domain › Prim-pol domain › Prim-pol domain › DNA_primase_S 0.60 51.0 3.25e-01 100.0% 18.6%
3928208 304.163.1.0 a+b two layers › Alpha-beta plaits › ATP-binding protein TM_1403 insertion domain › ATP-binding protein TM_1403 insertion domain 0.60 48.0 4.41e-01 98.1% 98.7%
3790328 2003.1.5.13 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Spermine_synth 0.60 47.0 3.00e-01 92.3% 16.7%
4996672 1.1.2.0 beta barrels › cradle loop barrel › RIFT-related › double psi 0.59 49.0 3.86e-01 100.0% 61.6%
5041306 304.114.1.0 a+b two layers › Alpha-beta plaits › Family B DNA polymerase insertion domain › Family B DNA polymerase insertion domain 0.58 46.0 4.17e-01 96.2% 100.0%
3831384 221.1.1.165 a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › DUF7054 0.58 47.0 3.87e-01 100.0% 68.2%
3187671 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.58 49.0 4.73e-01 100.0% 88.3%
4927303 525.1.1.1 a+b two layers › Urease, gamma-subunit › Urease, gamma-subunit › Urease, gamma-subunit › Urease_gamma 0.57 47.0 3.74e-01 98.1% 86.7%
4863191 3662.1.1.3 a+b two layers › Proteasome assembling chaperone 3 (PAC3)-related › Proteasome assembling chaperone 3 (PAC3)-related › Proteasome assembling chaperone 3 (PAC3)-related › PAC4 0.57 40.0 3.27e-01 78.8% 39.8%
4472409 223.1.1.7 a+b three layers › Profilin-like › sensor domains › sensor domains › Autoind_bind 0.55 39.0 2.89e-01 80.8% 26.5%
5073475 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.55 44.0 2.85e-01 100.0% 28.4%
3850966 3346.1.1.1 a+b two layers › N-terminal domain in ubiquitin-fold modifier 1 specific protease UfSP2 › N-terminal domain in ubiquitin-fold modifier 1 specific protease UfSP2 › N-terminal domain in ubiquitin-fold modifier 1 specific protease UfSP2 › UfSP2_N 0.55 43.0 2.87e-01 94.2% 21.2%
5035010 304.114.1.0 a+b two layers › Alpha-beta plaits › Family B DNA polymerase insertion domain › Family B DNA polymerase insertion domain 0.53 40.0 3.72e-01 94.2% 97.5%
4146398 223.1.1.7 a+b three layers › Profilin-like › sensor domains › sensor domains › Autoind_bind 0.53 38.0 2.78e-01 80.8% 80.0%
3577596 304.112.1.0 a+b two layers › Alpha-beta plaits › Argonaute, N-terminal domain › Argonaute, N-terminal domain 0.52 43.0 3.29e-01 100.0% 71.0%