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LacPavin_0818_WC40_scaffold_193576_prodigal-single.1__X__X__00111

Bact-Vir

LacPavin_0818_WC40_scaffold_193576_prodigal-single.1__X__X__00111

Identity

Kingdom:
phage

Quality

82.1 mean pLDDT

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 17-110
PDB
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF22945.3 best LEM-3_GIY-YIG 30.4 5.20e-07 98.9% 63.6%
D2 high residues 226-281
PDB
Domain cluster: representative
CATH (46)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1u3eM02 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.76 65.0 6.10e-01 96.4% 83.8%
2vfrA02 3.30.465.10 Alpha Beta › 2-Layer Sandwich › Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3 › 0.68 48.0 3.68e-01 91.1% 32.3%
4a4yA01 2.60.200.50 Mainly Beta › Sandwich › Tumour Suppressor Smad4 › 0.67 56.0 4.75e-01 96.4% 99.0%
2pstX00 3.90.820.10 Alpha Beta › Alpha-Beta Complex › Rubredoxin-like › Structural Genomics, Unknown Function 30-nov-00 1gh9 Mol_id 0.66 41.0 4.07e-01 98.2% 59.0%
3q34A00 2.40.128.110 Mainly Beta › Beta Barrel › Lipocalin › Lipid/polyisoprenoid-binding, YceI-like 0.65 51.0 3.71e-01 91.1% 98.9%
3p42A03 3.10.560.10 Alpha Beta › Roll › Outer membrane lipoprotein wza fold like › Outer membrane lipoprotein wza domain like 0.63 40.0 3.67e-01 85.7% 48.6%
3loiA01 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.63 48.0 3.37e-01 92.9% 28.1%
5ja1B00 3.90.820.10 Alpha Beta › Alpha-Beta Complex › Rubredoxin-like › Structural Genomics, Unknown Function 30-nov-00 1gh9 Mol_id 0.62 42.0 4.04e-01 100.0% 60.6%
3vx8A01 3.40.140.100 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Ubiquitin-like modifier-activating enzyme ATG7 C-terminal domain 0.61 42.0 3.19e-01 98.2% 29.1%
4iajA00 3.30.1490.390 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › Protein of unknown function DUF4649 0.61 48.0 4.33e-01 98.2% 63.2%
1khbA03 3.90.228.20 Alpha Beta › Alpha-Beta Complex › Phosphoenolpyruvate Carboxykinase; domain 3 › 0.60 49.0 3.12e-01 96.4% 18.8%
1vwxS02 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.60 50.0 4.55e-01 92.9% 75.0%
3waiA02 2.60.40.3390 Mainly Beta › Sandwich › Immunoglobulin-like › 0.60 50.0 4.23e-01 94.6% 55.9%
1i7dA03 2.70.20.10 Mainly Beta › Distorted Sandwich › Topoisomerase I; domain 3 › Topoisomerase I, domain 3 0.60 49.0 3.69e-01 92.9% 92.2%
2e8yA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.59 44.0 3.69e-01 92.9% 47.4%
4h8wC02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.59 42.0 3.79e-01 92.9% 54.7%
1ywlA00 3.40.1440.10 Alpha Beta › 3-Layer(aba) Sandwich › GIY-YIG endonuclease › GIY-YIG endonuclease 0.59 50.0 4.18e-01 94.6% 57.3%
1vwxS01 3.10.20.10 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.59 48.0 4.52e-01 92.9% 84.5%
1r5tA00 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.59 51.0 3.84e-01 100.0% 44.7%
1wgoA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.58 43.0 3.57e-01 91.1% 45.5%
2f4nB02 2.40.30.90 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Bacterial fluorinating enzyme like 0.57 47.0 3.95e-01 91.1% 71.3%
5escA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.56 47.0 3.69e-01 92.9% 46.2%
3liuA01 2.60.40.3160 Mainly Beta › Sandwich › Immunoglobulin-like › 0.56 43.0 3.40e-01 91.1% 39.8%
2npnA02 3.30.950.10 Alpha Beta › 2-Layer Sandwich › Methyltransferase, Cobalt-precorrin-4 Transmethylase; Domain 2 › Tetrapyrrole methylase, C-terminal domain 0.56 45.0 3.73e-01 92.9% 48.6%
3l5iA03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 41.0 3.54e-01 92.9% 50.0%
2jz6A01 2.30.170.40 Mainly Beta › Roll › Ribosomal Protein L24e; Chain: T; › Ribosomal protein L28/L24 0.56 38.0 3.96e-01 98.2% 80.0%
3bh1A03 3.40.140.40 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Domain of unknown function (DUF1846), C-terminal subdomain 0.56 47.0 3.55e-01 98.2% 76.7%
2htdB00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.55 45.0 3.53e-01 92.9% 44.4%
2fhqA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.55 45.0 3.45e-01 92.9% 40.7%
2fg9A01 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.55 45.0 3.30e-01 92.9% 33.3%
5gv0A00 2.40.160.110 Mainly Beta › Beta Barrel › Porin › 0.55 43.0 3.36e-01 100.0% 84.6%
3rkgA01 2.40.128.330 Mainly Beta › Beta Barrel › Lipocalin › 0.55 45.0 3.90e-01 96.4% 88.3%
1rfeA01 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.55 45.0 3.41e-01 92.9% 39.0%
1dgsA02 3.30.1490.70 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › 0.54 44.0 3.79e-01 92.9% 60.0%
3nd1A02 3.30.950.10 Alpha Beta › 2-Layer Sandwich › Methyltransferase, Cobalt-precorrin-4 Transmethylase; Domain 2 › Tetrapyrrole methylase, C-terminal domain 0.54 43.0 3.54e-01 91.1% 47.3%
3weeB01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.54 45.0 3.27e-01 98.2% 31.6%
6julA02 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.53 43.0 3.69e-01 92.9% 58.3%
1qr4A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 39.0 3.45e-01 92.9% 51.7%
7y8sB03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 39.0 3.45e-01 92.9% 53.6%
1et9A01 3.10.20.120 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.53 39.0 3.26e-01 83.9% 96.4%
2z3gB00 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.52 44.0 3.48e-01 98.2% 45.7%
4ewfA00 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.52 46.0 2.98e-01 100.0% 84.3%
7ylrA01 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.52 42.0 3.52e-01 94.6% 67.6%
1mkiA01 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.51 43.0 3.14e-01 100.0% 76.7%
5l6gA02 3.40.462.20 Alpha Beta › 3-Layer(aba) Sandwich › Vanillyl-alcohol Oxidase; Chain A, domain 3 › 0.51 41.0 2.83e-01 98.2% 77.7%
1xe7A00 2.60.120.10 Mainly Beta › Sandwich › Jelly Rolls › Jelly Rolls 0.50 44.0 3.09e-01 100.0% 72.6%
ECOD (54)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2876 101.1.14.2 alpha arrays › HTH › HTH › DNA-binding domain of intron-encoded endonucleases › I-HmuI_NUMOD-like 0.76 65.0 6.07e-01 96.4% 82.6%
1175478 4076.2.1.1 a+b two layers › L9 N-domain-like › MbtH-like › MbtH-like › MbtH 0.67 43.0 4.00e-01 94.6% 51.4%
3670391 4121.1.1.2 a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like › MRS2-like 0.65 52.0 3.29e-01 91.1% 27.4%
5016825 10.12.1.31 beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › Cupin_5 0.65 48.0 3.32e-01 92.9% 25.9%
3978661 11.1.4.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like 0.63 46.0 3.98e-01 94.6% 48.9%
4084879 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.63 53.0 4.61e-01 92.9% 71.8%
3365225 821.1.1.1 a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG 0.63 47.0 3.70e-01 94.6% 38.3%
3226369 2004.1.2.1 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › PEP carboxykinase catalytic C-terminal domain › PEPCK_GTP 0.62 48.0 3.01e-01 96.4% 15.8%
3274993 10.12.1.52 beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › Cupin_8 0.62 46.0 2.74e-01 92.9% 11.4%
4990637 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.62 52.0 4.59e-01 92.9% 69.9%
1096061 3375.1.1.1 beta barrels › Single-stranded DNA-binding protein DdrB › Single-stranded DNA-binding protein DdrB › Single-stranded DNA-binding protein DdrB › DdrB 0.62 42.0 3.22e-01 83.9% 31.2%
3388281 3019.1.1.0 beta sandwiches › gp11/flagellar cap protein FliD insertion domain › gp11/flagellar cap protein FliD insertion domain › gp11/flagellar cap protein FliD insertion domain 0.62 49.0 3.64e-01 94.6% 45.3%
5074648 3115.1.1.0 a+b two layers › GP2-like › RplX-like › RplX-like 0.61 51.0 4.69e-01 92.9% 76.0%
3362224 3115.1.1.1 a+b two layers › GP2-like › RplX-like › RplX-like › Ribosomal_L18A 0.61 50.0 4.60e-01 92.9% 68.9%
5082109 11.1.4.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like 0.61 41.0 3.50e-01 91.1% 42.1%
3957598 2004.1.2.1 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › PEP carboxykinase catalytic C-terminal domain › PEPCK_GTP 0.60 50.0 3.28e-01 96.4% 22.2%
5003644 264.2.1.1 beta barrels › LigT-like › Prokaryotic type I DNA topoisomerase beta-barrel domain › Prokaryotic type I DNA topoisomerase beta-barrel domain › Topoisom_bac 0.60 50.0 3.86e-01 92.9% 92.0%
3287117 10.39.1.1 beta sandwiches › jelly-roll › Soluble domain of MmpS4 › Soluble domain of MmpS4 › Mycobact_memb 0.59 42.0 3.69e-01 91.1% 49.4%
5083269 2492.1.1.0 a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like 0.59 51.0 3.74e-01 100.0% 76.2%
3637444 4121.1.1.0 a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like 0.59 49.0 3.16e-01 92.9% 20.0%
5002807 11.14.1.1 beta sandwiches › Immunoglobulin-like beta-sandwich › Ig-like domains in STT3 › Ig-like domains in STT3 › AglB_L1 0.59 50.0 4.22e-01 94.6% 57.4%
4951562 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.59 43.0 3.57e-01 92.9% 44.0%
4158495 821.1.1.1 a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG 0.58 48.0 4.06e-01 89.3% 55.6%
5073924 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.58 40.0 3.57e-01 92.9% 49.4%
4000175 10.32.1.0 beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like 0.58 43.0 3.80e-01 92.9% 54.1%
3942510 821.1.1.1 a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG 0.57 48.0 4.04e-01 92.9% 54.7%
1933293 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.57 47.0 3.93e-01 92.9% 53.5%
4623707 821.1.1.1 a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG 0.57 48.0 4.04e-01 92.9% 54.7%
4963267 1.1.5.0 beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 0.57 47.0 3.49e-01 92.9% 37.2%
4979507 301.1.1.2 a+b three layers › Bacillus chorismate mutase-like › L30e-like › L30e-like › eRF1_3 0.56 50.0 3.63e-01 98.2% 49.7%
5059262 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.56 47.0 3.79e-01 94.6% 50.0%
2028252 3986.2.1.1 a+b two layers › GTP-binding protein lepA C-terminal domain-like › Antitoxin Dmd › Antitoxin Dmd › Dmd 0.56 44.0 4.25e-01 94.6% 76.6%
5014007 3115.2.1.0 a+b two layers › GP2-like › GP2 › GP2 0.55 46.0 4.68e-01 94.6% 96.4%
3987425 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.55 46.0 3.62e-01 92.9% 45.2%
4180400 2492.1.1.25 a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › DUF1846_C 0.54 46.0 3.42e-01 98.2% 72.3%
3798429 10.7.1.0 beta sandwiches › jelly-roll › Hypothetical protein TM1070 › Hypothetical protein TM1070 0.54 39.0 3.37e-01 94.6% 47.4%
3947230 11.1.5.99 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Common fold of diphtheria toxin/transcription factors/cytochrome f › PF27328 0.53 45.0 3.26e-01 96.4% 43.6%
1479 11.1.1.2 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › fn3 0.53 39.0 3.45e-01 92.9% 51.7%
5051722 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.53 42.0 3.52e-01 92.9% 50.0%
4135543 221.1.1.17 a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › Stap_Strp_tox_C 0.53 37.0 3.08e-01 78.6% 95.8%
3972526 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.53 43.0 4.10e-01 94.6% 95.7%
3968836 11.1.1.1153 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › DUF2169 0.53 43.0 3.39e-01 92.9% 46.4%
5007536 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.53 43.0 3.51e-01 92.9% 48.2%
3512272 1.1.7.0 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.53 40.0 3.76e-01 94.6% 65.3%
3286829 4019.1.1.1 alpha complex topology › alpha-helical domain in beta-lactamase/transpeptidase-like proteins › alpha-helical domain in beta-lactamase/transpeptidase-like proteins › alpha-helical domain in beta-lactamase/transpeptidase-like proteins › Beta-lactamase 0.52 42.0 2.78e-01 94.6% 78.5%
4929603 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.52 42.0 3.56e-01 92.9% 53.7%
3990561 11.1.1.955 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Fn3_Dep-1_4th 0.52 42.0 3.49e-01 92.9% 55.2%
3955667 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 0.52 42.0 3.50e-01 92.9% 51.4%
5027808 10.12.1.24 beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › FdtA 0.52 46.0 3.28e-01 100.0% 69.7%
3880283 11.1.1.2 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › fn3 0.51 39.0 3.39e-01 92.9% 52.2%
3440667 1.1.2.8 beta barrels › cradle loop barrel › RIFT-related › double psi › UFD1 0.51 42.0 4.04e-01 92.9% 84.6%
4941845 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.51 43.0 4.49e-01 94.6% 100.0%
4970155 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 40.0 3.24e-01 92.9% 42.5%
5045701 221.1.3.0 a+b two layers › beta-Grasp › Ubiquitin-related › Sulfite oxidase, middle catalytic domain 0.50 41.0 3.19e-01 94.6% 51.1%