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GWB1_scaffold_5_curated_closed_complete_prodigal-single.1__X__X__00430

Bact-Vir

GWB1_scaffold_5_curated_closed_complete_prodigal-single.1__X__X__00430

Identity

Kingdom:
phage

Quality

91.4 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 medium residues 1-16_129-172
PDB
Domain cluster: representative
CATH (14)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1e94A00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.90 82.0 5.72e-01 98.3% 97.7%
2imhA01 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.81 74.0 4.95e-01 100.0% 77.0%
3o2iA00 3.30.70.2710 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.58 47.0 4.17e-01 95.0% 72.0%
3vn5A02 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.58 49.0 3.53e-01 98.3% 58.6%
1irxA05 1.10.10.350 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › 0.58 39.0 3.52e-01 73.3% 69.9%
4jhmA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.57 48.0 3.99e-01 100.0% 67.5%
5mgyA00 3.10.520.10 Alpha Beta › Roll › T-fold › ApbE-like domains 0.56 47.0 3.09e-01 100.0% 67.5%
2j82A00 3.60.40.10 Alpha Beta › 4-Layer Sandwich › Phosphatase 2c; domain 1 › PPM-type phosphatase domain 0.55 44.0 3.19e-01 98.3% 47.1%
6aeoB01 3.30.1330.60 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › OmpA-like domain 0.55 42.0 3.30e-01 100.0% 37.8%
5yznA01 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.55 46.0 3.12e-01 100.0% 37.9%
3gziA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.54 45.0 3.10e-01 93.3% 51.7%
3wpwA00 3.30.1330.60 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › OmpA-like domain 0.53 44.0 3.28e-01 100.0% 36.2%
1t95A01 3.30.1250.10 Alpha Beta › 2-Layer Sandwich › Hypothetical 12.0 Kda Protein In Nam8-gar1 Intergenic Region; Chain: A; › Ribosome maturation protein SBDS, N-terminal domain 0.52 35.0 3.32e-01 98.3% 55.0%
3fgxA00 3.30.2220.10 Alpha Beta › 2-Layer Sandwich › rbstp2171 › rbstp2171 0.50 43.0 3.72e-01 98.3% 66.7%
ECOD (20)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4534784 210.1.1.1 a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.90 84.0 5.80e-01 100.0% 95.6%
2140349 210.1.1.1 a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.90 82.0 5.62e-01 98.3% 97.8%
5077963 210.1.5.1 a+b four layers › Ntn/PP2C › Ntn › SPO2555-like › DUF1028 0.83 73.0 4.95e-01 96.7% 80.5%
3972798 210.1.5.1 a+b four layers › Ntn/PP2C › Ntn › SPO2555-like › DUF1028 0.83 75.0 5.01e-01 100.0% 75.9%
4102879 604.12.1.76 alpha bundles › Spectrin repeat-like › MIT domain › MIT domain › IspA 0.78 53.0 4.76e-01 70.0% 87.5%
4955899 101.1.10.0 alpha arrays › HTH › HTH › Cyclin-like 0.70 57.0 4.69e-01 91.7% 60.0%
4351860 101.8.1.2 alpha arrays › HTH › An anticodon-binding domain of class I aminoacyl-tRNA synthetases › An anticodon-binding domain of class I aminoacyl-tRNA synthetases › Anticodon_2 0.66 51.0 3.79e-01 85.0% 64.9%
3628122 210.2.1.1 a+b four layers › Ntn/PP2C › Protein serine/threonine phosphatase 2C, catalytic domain › Protein serine/threonine phosphatase 2C, catalytic domain › PP2C 0.64 56.0 3.79e-01 100.0% 67.2%
5037974 4004.1.1.1 beta sandwiches › NAD kinase beta sandwich domain-like › NAD kinase beta sandwich domain-like › NAD kinase beta sandwich domain-like › YegS_C 0.63 45.0 3.24e-01 76.7% 58.9%
4325891 108.2.1.0 alpha arrays › EF-hand › Insect pheromone/odorant-binding proteins › Insect pheromone/odorant-binding proteins 0.60 46.0 3.83e-01 85.0% 60.6%
3231368 101.1.1.250 alpha arrays › HTH › HTH › Three-helical HTH › Myb_DNA-binding_2 0.59 47.0 4.39e-01 100.0% 70.7%
4464956 4337.1.1.0 a+b two layers › DNA mismatch repair protein MutL dimerization subdomain › DNA mismatch repair protein MutL dimerization subdomain › DNA mismatch repair protein MutL dimerization subdomain 0.57 36.0 3.15e-01 83.3% 38.4%
4307412 181.1.1.27 alpha bundles › Domain of the SRP/SRP receptor G proteins-like › Domain of the SRP/SRP receptor G-proteins › Domain of the SRP/SRP receptor G-proteins › ATP-cone 0.55 42.0 3.90e-01 88.3% 95.3%
3604158 251.1.1.1 a+b two layers › FYSH domain › FYSH domain › FYSH domain › SBDS 0.54 38.0 3.42e-01 100.0% 50.0%
4434184 1023.1.1.1 beta barrels › Cell division protein ZapC N-terminal domain › Cell division protein ZapC N-terminal domain › Cell division protein ZapC N-terminal domain › ZapC_N 0.54 42.0 3.71e-01 86.7% 90.0%
4161707 1023.1.1.1 beta barrels › Cell division protein ZapC N-terminal domain › Cell division protein ZapC N-terminal domain › Cell division protein ZapC N-terminal domain › ZapC_N 0.53 42.0 3.68e-01 86.7% 90.0%
4947072 251.1.1.2 a+b two layers › FYSH domain › FYSH domain › FYSH domain › SBDS_domain_II 0.53 36.0 3.40e-01 98.3% 55.0%
3518498 4337.1.1.2 a+b two layers › DNA mismatch repair protein MutL dimerization subdomain › DNA mismatch repair protein MutL dimerization subdomain › DNA mismatch repair protein MutL dimerization subdomain › Mlh1_C 0.53 33.0 2.58e-01 88.3% 25.3%
3993210 310.1.1.2 a+b two layers › RRF/tRNA synthetase additional domain-like › Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain › Arginyl-tRNA synthetase (ArgRS), N-terminal 'additional' domain › Arg_tRNA_synt_N 0.51 44.0 3.66e-01 100.0% 77.3%
4195270 4337.1.1.0 a+b two layers › DNA mismatch repair protein MutL dimerization subdomain › DNA mismatch repair protein MutL dimerization subdomain › DNA mismatch repair protein MutL dimerization subdomain 0.51 37.0 3.18e-01 78.3% 73.0%
D2 medium residues 17-128
PDB
CATH (27)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1e94A00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.76 67.0 5.74e-01 100.0% 61.5%
6z46V01 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.72 67.0 5.65e-01 100.0% 61.5%
6qm7K00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.72 67.0 5.35e-01 100.0% 61.2%
1yarH00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.71 67.0 5.37e-01 100.0% 55.2%
8adnN01 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.71 65.0 5.38e-01 100.0% 57.6%
6muwK00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.71 66.0 5.38e-01 100.0% 59.5%
6qm7M00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.71 66.0 5.22e-01 100.0% 54.2%
1rypK00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.70 65.0 5.32e-01 100.0% 59.1%
6e5bN00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.70 65.0 5.31e-01 100.0% 56.3%
6qm7J00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.70 64.0 5.21e-01 100.0% 56.9%
1rypD00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.68 64.0 4.88e-01 100.0% 49.4%
3unbF00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.68 63.0 4.81e-01 100.0% 48.0%
6muwB00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.68 63.0 4.90e-01 100.0% 50.7%
1g0uE00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.68 63.0 4.88e-01 100.0% 49.6%
1ryp200 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.68 62.0 4.85e-01 100.0% 51.9%
1rypC00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.68 63.0 4.79e-01 100.0% 48.4%
5fmgA00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.67 62.0 4.91e-01 100.0% 52.1%
6qm7A00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.66 61.0 4.69e-01 100.0% 50.0%
3rnrB00 3.60.40.10 Alpha Beta › 4-Layer Sandwich › Phosphatase 2c; domain 1 › PPM-type phosphatase domain 0.65 51.0 4.12e-01 83.9% 78.7%
2gacB00 3.60.20.30 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › (Glycosyl)asparaginase 0.62 56.0 5.20e-01 99.1% 87.1%
1xffA00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.59 54.0 4.20e-01 100.0% 50.8%
3g9kF01 3.60.20.40 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Gamma-glutamyltranspeptidase, small (S) subunit 0.59 51.0 4.52e-01 96.4% 90.8%
3gvzA00 3.60.60.10 Alpha Beta › 4-Layer Sandwich › Penicillin V Acylase; Chain A › Penicillin V Acylase; Chain A 0.57 52.0 3.95e-01 100.0% 76.6%
2bmbA02 3.20.20.20 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Dihydropteroate synthase-like 0.53 47.0 3.44e-01 100.0% 91.6%
2e8yA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 31.0 3.38e-01 80.4% 71.6%
2wanA03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 32.0 3.33e-01 80.4% 68.6%
3oqbH02 3.30.360.10 Alpha Beta › 2-Layer Sandwich › Dihydrodipicolinate Reductase; domain 2 › Dihydrodipicolinate Reductase; domain 2 0.50 35.0 2.81e-01 72.3% 87.7%
ECOD (29)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
2140348 210.1.1.0 a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits 0.78 73.0 6.06e-01 100.0% 62.6%
4534784 210.1.1.1 a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.77 70.0 5.88e-01 100.0% 60.0%
4023905 210.1.1.1 a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.77 69.0 5.61e-01 100.0% 54.4%
4108185 210.1.1.1 a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.76 69.0 5.83e-01 100.0% 61.7%
3593380 210.1.1.0 a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits 0.76 68.0 5.64e-01 100.0% 56.8%
4973409 210.1.1.0 a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits 0.74 69.0 5.29e-01 100.0% 54.6%
2980438 210.1.1.1 a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.73 67.0 5.39e-01 100.0% 52.9%
3918491 210.1.1.1 a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.72 67.0 5.13e-01 100.0% 50.4%
5078250 210.1.1.1 a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.72 67.0 5.40e-01 100.0% 56.1%
3400905 210.1.1.1 a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.72 66.0 5.27e-01 100.0% 54.0%
5065765 210.1.1.1 a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.71 66.0 5.37e-01 100.0% 57.3%
5000313 210.1.1.1 a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.71 65.0 5.32e-01 100.0% 57.0%
3252053 210.1.1.3 a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome,Pr_beta_C 0.70 65.0 4.91e-01 100.0% 43.9%
3629263 210.1.1.1 a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.70 65.0 5.28e-01 100.0% 59.5%
3513468 210.1.1.1 a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.70 65.0 5.16e-01 100.0% 61.9%
4302934 210.1.1.1 a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.70 64.0 5.30e-01 100.0% 58.5%
2980434 210.1.1.1 a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.70 64.0 5.31e-01 100.0% 59.1%
4011289 210.1.1.0 a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits 0.69 64.0 4.94e-01 100.0% 57.1%
3601347 210.2.1.0 a+b four layers › Ntn/PP2C › Protein serine/threonine phosphatase 2C, catalytic domain › Protein serine/threonine phosphatase 2C, catalytic domain 0.69 64.0 4.74e-01 100.0% 75.1%
2980416 210.1.1.1 a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.69 64.0 5.00e-01 100.0% 49.3%
3619742 210.1.1.2 a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome,Proteasome_A_N 0.68 63.0 4.88e-01 100.0% 49.8%
3487530 210.1.1.2 a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome,Proteasome_A_N 0.68 63.0 4.77e-01 100.0% 45.7%
4882474 210.1.1.1 a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.67 53.0 5.63e-01 83.0% 99.0%
None 0.65 57.0 4.41e-01 94.6% 80.4%
5009366 210.1.3.0 a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases 0.59 53.0 4.04e-01 100.0% 54.7%
134473 210.1.2.4 a+b four layers › Ntn/PP2C › Ntn › Penicillin acylase, catalytic domain › AAT 0.57 52.0 3.95e-01 100.0% 76.6%
1694877 206.1.1.29 a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › DUF4135 0.52 38.0 2.49e-01 78.6% 49.7%
4960747 305.2.1.1 a+b two layers › DCoH-like › Pterin-4a-carbinolamine dehydratase (PCD)/dimerization cofactor of HNF1 (DCoH) › Pterin-4a-carbinolamine dehydratase (PCD)/dimerization cofactor of HNF1 (DCoH) › Pterin_4a 0.52 32.0 3.41e-01 95.5% 71.6%
3406792 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.51 30.0 3.72e-01 81.2% 92.9%