Back to structures

GWB1_scaffold_combined_curated_closed_complete_prodigal-single.1__X__X__00523

Bact-Vir

GWB1_scaffold_combined_curated_closed_complete_prodigal-single.1__X__X__00523

Identity

Kingdom:
phage

Quality

84.4 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 24-85
PDB
Domain cluster: representative
CATH (46)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2yztA00 3.30.160.250 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.71 49.0 4.85e-01 74.2% 68.2%
5x6vG00 3.30.450.190 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.66 55.0 4.25e-01 90.3% 48.5%
3c4bA02 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.64 47.0 4.62e-01 79.0% 86.6%
1jlxA02 2.80.10.50 Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › 0.64 44.0 3.38e-01 71.0% 82.9%
4g7nA02 3.30.1120.130 Alpha Beta › 2-Layer Sandwich › Arylsulfatase, C-terminal domain › 0.64 45.0 3.88e-01 74.2% 55.7%
3e82E02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.64 46.0 3.23e-01 77.4% 90.0%
3r7wB02 3.30.450.190 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › 0.63 50.0 4.10e-01 87.1% 50.0%
1vw5A00 3.30.70.1420 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Structure from the mobile metagenome of cole harbour salt marsh: integron cassette protein hfx_cass1 0.63 55.0 4.13e-01 96.8% 43.0%
3kbgA02 2.40.50.740 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Ribosomal protein S4, central domain 0.62 42.0 4.44e-01 80.6% 83.0%
6i18A04 2.80.10.50 Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › 0.61 42.0 3.52e-01 71.0% 86.0%
1kz7C02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.61 49.0 3.75e-01 85.5% 83.2%
7mdhA02 3.90.110.10 Alpha Beta › Alpha-Beta Complex › L-2-Hydroxyisocaproate Dehydrogenase; Chain A, domain 2 › Lactate dehydrogenase/glycoside hydrolase, family 4, C-terminal 0.61 45.0 3.29e-01 79.0% 41.0%
6g1nD01 3.30.160.250 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.60 44.0 4.02e-01 79.0% 59.0%
3kxyJ00 3.30.1460.10 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › 0.60 53.0 4.19e-01 100.0% 91.5%
3f8kA00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.60 41.0 3.25e-01 72.6% 60.3%
2q0lA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.59 49.0 3.55e-01 95.2% 95.2%
3ottB02 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.58 45.0 2.86e-01 83.9% 24.1%
1zc3B00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.57 46.0 3.75e-01 85.5% 86.2%
3a8pB01 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.56 48.0 3.88e-01 91.9% 89.7%
7pi0S01 1.10.3460.10 Mainly Alpha › Orthogonal Bundle › Chlorophyll a-b binding protein › Chlorophyll a/b binding protein domain 0.56 50.0 3.50e-01 98.4% 83.0%
3q34A00 2.40.128.110 Mainly Beta › Beta Barrel › Lipocalin › Lipid/polyisoprenoid-binding, YceI-like 0.56 41.0 3.04e-01 80.6% 74.7%
7zxkB02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 38.0 3.38e-01 72.6% 82.8%
3exmA01 2.40.380.10 Mainly Beta › Beta Barrel › FomD barrel-like fold › FomD-like 0.55 43.0 3.02e-01 83.9% 87.7%
3bvxA04 2.70.98.30 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › Golgi alpha-mannosidase II; domain 4 0.55 44.0 2.95e-01 91.9% 76.1%
4nswA02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.55 41.0 3.40e-01 80.6% 83.5%
2dn6A00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.55 43.0 3.54e-01 85.5% 82.6%
3hdoA01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.55 41.0 3.17e-01 79.0% 83.1%
4zgfA00 2.40.128.270 Mainly Beta › Beta Barrel › Lipocalin › 0.54 38.0 2.95e-01 74.2% 58.9%
1whzA00 3.30.920.30 Alpha Beta › 2-Layer Sandwich › Metal Transport, Frataxin; Chain A › Hypothetical protein. 0.54 38.0 3.69e-01 74.2% 72.5%
2hlzA00 3.40.1190.20 Alpha Beta › 3-Layer(aba) Sandwich › UDP-N-acetylmuramoyl-L-alanine:D-glutamate ligase › Ribokinase 0.54 44.0 2.82e-01 88.7% 33.8%
2rloA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.54 43.0 3.41e-01 87.1% 92.2%
2codA01 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.54 41.0 3.51e-01 80.6% 92.7%
4z3xA03 1.10.569.10 Mainly Alpha › Orthogonal Bundle › Aldehyde Ferredoxin Oxidoreductase Protein, subunit A; domain 2 › Aldehyde Ferredoxin Oxidoreductase Protein, subunit A, domain 2 0.54 43.0 3.09e-01 88.7% 61.8%
3vywA02 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.53 37.0 2.62e-01 77.4% 34.0%
7d8gA01 2.40.380.10 Mainly Beta › Beta Barrel › FomD barrel-like fold › FomD-like 0.53 42.0 3.09e-01 85.5% 86.8%
4k7zA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.53 41.0 2.87e-01 87.1% 92.0%
2fx5A00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.52 41.0 2.79e-01 90.3% 82.6%
3d0fA01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.52 35.0 3.41e-01 71.0% 90.4%
3au4A04 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.51 39.0 3.49e-01 83.9% 66.7%
4dzoA02 3.30.457.60 Alpha Beta › 2-Layer Sandwich › Copper Amine Oxidase; Chain A, domain 1 › 0.51 38.0 3.61e-01 87.1% 66.2%
4a2lF02 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.51 42.0 2.78e-01 100.0% 30.1%
2iiiA00 3.60.90.10 Alpha Beta › 4-Layer Sandwich › S-adenosylmethionine decarboxylase › S-adenosylmethionine decarboxylase 0.51 39.0 3.21e-01 85.5% 64.2%
3pqhA01 2.20.220.20 Mainly Beta › Single Sheet › Glycosyl hydrolase fold › 0.50 36.0 3.69e-01 75.8% 88.3%
4fflA02 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.50 42.0 2.77e-01 91.9% 66.4%
4ld1A00 2.60.450.20 Mainly Beta › Sandwich › lipopolysaccharide transport protein A fold › 0.50 40.0 3.00e-01 87.1% 36.3%
2pn2A00 3.30.300.20 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › K homology (KH) domain 0.50 46.0 3.48e-01 100.0% 45.3%
ECOD (65)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3618369 330.1.1.24 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › Paxt-1_C 0.68 53.0 4.56e-01 87.1% 74.0%
4950216 4100.1.1.3 a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › HicB_lk_antitox 0.67 47.0 5.19e-01 79.0% 95.8%
3773509 220.1.1.1 beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.66 48.0 4.96e-01 100.0% 78.3%
4941012 2004.1.1.42 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › T2SSE 0.66 42.0 2.42e-01 98.4% 7.5%
3801175 330.1.1.0 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.65 51.0 4.46e-01 88.7% 74.0%
5029920 4100.1.1.3 a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › HicB_lk_antitox 0.65 47.0 4.71e-01 77.4% 73.8%
4440203 2.1.1.9 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › Ribosomal_S4e 0.65 44.0 4.48e-01 80.6% 73.3%
4940177 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.64 45.0 4.39e-01 75.8% 75.7%
5079725 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.63 46.0 4.67e-01 77.4% 90.0%
3956995 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.63 43.0 3.85e-01 72.6% 92.2%
4431929 4100.1.1.4 a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › UPF0150 0.63 45.0 4.49e-01 77.4% 75.4%
3839435 330.9.1.0 a+b two layers › dsRBD-like › C-terminal domain in LINE-1 ORF1p › C-terminal domain in LINE-1 ORF1p 0.62 42.0 4.03e-01 74.2% 58.7%
3414375 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.62 51.0 4.01e-01 90.3% 78.1%
4032952 2004.1.1.159 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Mur_ligase_M 0.61 47.0 3.28e-01 87.1% 34.3%
3621726 220.1.1.1 beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.61 51.0 3.97e-01 88.7% 82.4%
3223257 220.1.1.2 beta barrels › PH domain-like › PH domain-like › PH domain-like › WH1 0.61 50.0 3.99e-01 88.7% 89.2%
3715569 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.61 44.0 3.10e-01 77.4% 48.2%
3239541 327.11.2.3 a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) › KH_6 0.61 46.0 3.74e-01 83.9% 96.8%
3940297 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.61 49.0 2.62e-01 85.5% 12.1%
3311849 2485.1.1.35 a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like › MRP_L53 0.60 52.0 4.33e-01 100.0% 67.0%
3291448 101.1.2.0 alpha arrays › HTH › HTH › winged helix domain 0.60 41.0 3.71e-01 72.6% 88.9%
4543309 220.1.1.1 beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.60 49.0 3.99e-01 88.7% 84.3%
3259514 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.59 42.0 3.45e-01 75.8% 55.8%
4034336 4.8.1.13 beta barrels › SH3 › Chromo domain-like › Chromo domain-like › ComK 0.59 44.0 3.31e-01 77.4% 86.2%
3272708 292.2.1.1 a+b two layers › RIP/Polo-box domain › Polo-box domain › Polo-box domain › POLO_box 0.59 37.0 3.48e-01 75.8% 50.0%
3256843 220.1.1.8 beta barrels › PH domain-like › PH domain-like › PH domain-like › GRAM 0.59 43.0 3.55e-01 75.8% 64.8%
3926146 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.57 43.0 3.05e-01 80.6% 66.3%
3874175 220.1.1.1 beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.57 44.0 3.57e-01 83.9% 83.2%
4032202 4237.1.1.1 beta barrels › FomD-like › FomD-like › FomD-like › DUF402 0.56 44.0 3.20e-01 85.5% 84.0%
5055849 330.7.1.2 a+b two layers › dsRBD-like › PI-Pfui intein middle domain › PI-Pfui intein middle domain › HicA_toxin 0.56 39.0 3.84e-01 74.2% 69.2%
3713988 5.1.4.1 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.56 43.0 2.42e-01 88.7% 17.8%
4950237 213.1.1.1 a+b three layers › Nat/Ivy › Acyl-CoA N-acyltransferases (Nat) › Acyl-CoA N-acyltransferases (Nat) › Acetyltransf_1 0.56 39.0 2.93e-01 74.2% 59.1%
4249154 2003.1.2.0 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain 0.56 49.0 3.28e-01 98.4% 64.7%
3720028 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.56 42.0 3.42e-01 80.6% 88.7%
3787551 223.2.1.17 a+b three layers › Profilin-like › profilin-like › profilin-like › SLM4 0.56 46.0 3.40e-01 91.9% 37.0%
3623755 223.2.1.16 a+b three layers › Profilin-like › profilin-like › profilin-like › LAMTOR5 0.55 43.0 3.58e-01 87.1% 50.4%
3219482 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.55 39.0 3.71e-01 75.8% 76.0%
3245695 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.55 39.0 3.67e-01 75.8% 71.2%
3926548 2484.1.1.145 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DDE_Tnp_1_7 0.55 43.0 2.96e-01 95.2% 32.3%
4874139 186.1.1.27 alpha arrays › lambda integrase-N-like › lambda integrase-N › lambda integrase-N › ResT-TelK_cat 0.55 38.0 3.28e-01 72.6% 92.8%
3690811 220.1.1.67 beta barrels › PH domain-like › PH domain-like › PH domain-like › EVH1_PP4R3 0.55 37.0 3.21e-01 71.0% 92.0%
3344139 386.1.1.0 few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.55 39.0 4.06e-01 82.3% 89.1%
3247329 220.1.1.1 beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.54 47.0 3.90e-01 95.2% 89.1%
3848670 5.1.4.485 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40, LLGL, Beta-prop_NOL10_N 0.54 43.0 2.70e-01 88.7% 18.1%
5061294 324.1.1.1 a+b two layers › OsmC-like › OsmC-like › OsmC-like › OsmC 0.54 48.0 3.68e-01 100.0% 44.4%
3964178 324.1.1.1 a+b two layers › OsmC-like › OsmC-like › OsmC-like › OsmC 0.54 48.0 3.69e-01 100.0% 44.4%
3823268 244.1.1.6 a+b two layers › FAD-linked reductases, C-terminal domain-like › FAD-linked reductases-C › FAD-linked reductases-C › Amino_oxidase 0.54 44.0 2.68e-01 90.3% 13.0%
3940284 109.4.1.0 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.54 40.0 2.25e-01 79.0% 10.4%
5070602 324.1.1.1 a+b two layers › OsmC-like › OsmC-like › OsmC-like › OsmC 0.54 48.0 3.61e-01 100.0% 42.9%
3417244 220.1.1.64 beta barrels › PH domain-like › PH domain-like › PH domain-like › FERM_C1_MyoVII 0.53 43.0 3.71e-01 87.1% 89.5%
3574512 2003.1.3.27 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › Nucleotide-binding domain › Amino_oxidase 0.53 41.0 2.51e-01 87.1% 96.0%
3624962 5.1.4.30 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › LLGL 0.53 41.0 2.35e-01 91.9% 6.7%
3354326 386.1.1.4 few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-BED 0.53 37.0 3.81e-01 83.9% 81.7%
3797728 220.1.1.0 beta barrels › PH domain-like › PH domain-like › PH domain-like 0.53 36.0 3.29e-01 88.7% 52.9%
3381974 2003.1.2.47 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › NDH2_C 0.53 44.0 3.07e-01 95.2% 35.1%
3229685 5.1.4.19 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Coatomer_WDAD 0.52 40.0 2.68e-01 88.7% 47.2%
3486370 5.1.4.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.52 44.0 2.81e-01 100.0% 36.6%
3707595 5.1.4.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.52 41.0 2.39e-01 88.7% 17.1%
3222917 220.1.1.29 beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_3 0.52 48.0 3.32e-01 100.0% 54.7%
3607693 5.1.4.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.52 42.0 2.84e-01 100.0% 60.3%
5077254 2004.1.1.42 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › T2SSE 0.51 43.0 2.64e-01 100.0% 27.2%
3601544 5.1.4.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.51 40.0 2.36e-01 88.7% 13.3%
3178595 206.1.1.0 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase 0.51 41.0 2.53e-01 88.7% 16.0%
4302938 292.2.1.0 a+b two layers › RIP/Polo-box domain › Polo-box domain › Polo-box domain 0.50 36.0 3.31e-01 75.8% 61.2%
5075316 330.7.1.0 a+b two layers › dsRBD-like › PI-Pfui intein middle domain › PI-Pfui intein middle domain 0.50 37.0 3.57e-01 79.0% 74.3%