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gwf1_scaffold_41_prodigal-single.1__X__X__00405

Bact-Vir

gwf1_scaffold_41_prodigal-single.1__X__X__00405

Identity

Kingdom:
phage

Quality

91.0 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 2-191
PDB
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF27229.1 best SSO2105_N 36.9 4.90e-09 100.0% 88.5%
CATH (7)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4fcyA01 1.10.10.60 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Homeodomain-like 0.64 27.0 4.20e-01 93.7% 96.2%
1sj8A02 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.54 26.0 3.20e-01 93.2% 70.5%
1sumB01 1.20.58.220 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphate transport system protein phou homolog 2; domain 2 0.52 25.0 3.25e-01 95.3% 79.4%
2rgnB02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.52 29.0 3.50e-01 90.5% 82.1%
1w9rA00 1.20.58.440 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › choline binding protein A 0.51 24.0 2.95e-01 90.5% 68.1%
4oydB00 1.10.132.20 Mainly Alpha › Orthogonal Bundle › Topoisomerase I; Chain A, domain 4 › Ribosome-recycling factor 0.50 21.0 2.72e-01 72.1% 63.2%
3ckyA02 1.10.1040.10 Mainly Alpha › Orthogonal Bundle › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 › N-(1-d-carboxylethyl)-l-norvaline Dehydrogenase; domain 2 0.50 30.0 3.57e-01 91.1% 85.1%
ECOD (33)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5002559 2.21.1.0 beta barrels › OB-fold › Small protein B (SmpB) › Small protein B (SmpB) 0.82 66.0 7.05e-01 100.0% 95.2%
5003639 2.21.1.0 beta barrels › OB-fold › Small protein B (SmpB) › Small protein B (SmpB) 0.81 63.0 7.00e-01 100.0% 98.1%
4933787 2.21.1.0 beta barrels › OB-fold › Small protein B (SmpB) › Small protein B (SmpB) 0.78 66.0 7.01e-01 100.0% 97.6%
5021605 2.21.1.3 beta barrels › OB-fold › Small protein B (SmpB) › Small protein B (SmpB) › HTH_OrfB_IS605 0.77 64.0 6.84e-01 100.0% 97.6%
5014572 2.21.1.3 beta barrels › OB-fold › Small protein B (SmpB) › Small protein B (SmpB) › HTH_OrfB_IS605 0.77 64.0 6.86e-01 100.0% 98.2%
4945985 2.21.1.0 beta barrels › OB-fold › Small protein B (SmpB) › Small protein B (SmpB) 0.77 61.0 6.63e-01 100.0% 96.9%
5009771 2.21.1.5 beta barrels › OB-fold › Small protein B (SmpB) › Small protein B (SmpB) › PF27234 0.77 64.0 6.82e-01 100.0% 96.5%
4990693 2.21.1.5 beta barrels › OB-fold › Small protein B (SmpB) › Small protein B (SmpB) › PF27234 0.77 66.0 6.95e-01 100.0% 97.1%
3838172 2.21.1.3 beta barrels › OB-fold › Small protein B (SmpB) › Small protein B (SmpB) › HTH_OrfB_IS605 0.77 64.0 6.80e-01 100.0% 96.5%
4940179 2.21.1.3 beta barrels › OB-fold › Small protein B (SmpB) › Small protein B (SmpB) › HTH_OrfB_IS605 0.76 61.0 6.70e-01 100.0% 98.1%
5005257 2.21.1.0 beta barrels › OB-fold › Small protein B (SmpB) › Small protein B (SmpB) 0.76 63.0 6.63e-01 100.0% 95.3%
4961846 2.21.1.0 beta barrels › OB-fold › Small protein B (SmpB) › Small protein B (SmpB) 0.75 64.0 6.70e-01 100.0% 96.0%
5002913 2.21.1.3 beta barrels › OB-fold › Small protein B (SmpB) › Small protein B (SmpB) › HTH_OrfB_IS605 0.75 63.0 6.66e-01 100.0% 96.5%
4680590 2.21.1.4 beta barrels › OB-fold › Small protein B (SmpB) › Small protein B (SmpB) › SSO2105_N 0.74 68.0 6.81e-01 100.0% 93.3%
3839204 2.21.1.3 beta barrels › OB-fold › Small protein B (SmpB) › Small protein B (SmpB) › HTH_OrfB_IS605 0.74 65.0 6.69e-01 100.0% 95.6%
3286638 2.21.1.3 beta barrels › OB-fold › Small protein B (SmpB) › Small protein B (SmpB) › HTH_OrfB_IS605 0.73 64.0 6.73e-01 100.0% 100.0%
5044635 2.21.1.3 beta barrels › OB-fold › Small protein B (SmpB) › Small protein B (SmpB) › HTH_OrfB_IS605 0.72 63.0 6.54e-01 100.0% 98.3%
5012315 2.21.1.0 beta barrels › OB-fold › Small protein B (SmpB) › Small protein B (SmpB) 0.72 62.0 6.33e-01 100.0% 91.9%
5051051 101.1.17.0 alpha arrays › HTH › HTH › FF domain 0.68 56.0 5.94e-01 100.0% 95.3%
3932714 198.1.1.0 alpha arrays › Saposin-like › Saposin-like › Saposin-like 0.68 33.0 4.72e-01 90.5% 96.7%
3955159 2.21.1.3 beta barrels › OB-fold › Small protein B (SmpB) › Small protein B (SmpB) › HTH_OrfB_IS605 0.66 62.0 6.13e-01 100.0% 94.1%
3935505 198.1.1.0 alpha arrays › Saposin-like › Saposin-like › Saposin-like 0.64 30.0 4.33e-01 87.9% 96.5%
3898536 198.1.1.3 alpha arrays › Saposin-like › Saposin-like › Saposin-like › SapB_1 0.61 27.0 3.91e-01 88.9% 91.8%
4972007 150.1.1.0 alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin 0.57 26.0 2.99e-01 98.4% 55.7%
3690443 192.4.1.0 alpha bundles › Long alpha-hairpin › Ribosomal protein L29 (L29p) › Ribosomal protein L29 (L29p) 0.54 21.0 2.86e-01 93.7% 64.8%
5029573 3718.1.1.0 alpha bundles › Flagellar protein fliT › Flagellar protein fliT › Flagellar protein fliT 0.53 20.0 2.68e-01 71.6% 61.0%
4991596 129.1.1.16 alpha arrays › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › NAD_binding_11 0.52 32.0 3.86e-01 91.1% 91.2%
3511563 192.29.1.143 alpha bundles › Long alpha-hairpin › bMERB domain (bivalent Mical/EHBP Rab binding) › bMERB domain (bivalent Mical/EHBP Rab binding) › CCDC28 0.52 24.0 3.24e-01 75.8% 80.0%
4988961 129.1.1.16 alpha arrays › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › NAD_binding_11 0.52 31.0 3.79e-01 91.1% 91.1%
3164340 129.1.1.16 alpha arrays › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › NAD_binding_11 0.52 31.0 3.78e-01 91.1% 90.4%
4952257 3567.1.1.0 a+b duplicates or obligate multimers › MPER trimer › MPER trimer › MPER trimer 0.51 24.0 3.23e-01 90.0% 82.7%
3968228 129.1.1.16 alpha arrays › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › 6-phosphogluconate dehydrogenase C-terminal domain-like › NAD_binding_11 0.50 30.0 3.67e-01 90.5% 90.4%
3777551 604.1.1.0 alpha bundles › Spectrin repeat-like › Spectrin repeat › Spectrin repeat 0.50 24.0 3.00e-01 93.2% 70.4%
D2 high residues 203-447
PDB
Domain cluster: representative
CATH (11)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3hrgA02 3.30.420.260 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Protein of unknown function DUF3822, C-terminal domain 0.74 32.0 4.71e-01 73.9% 87.7%
4ep4A00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.73 48.0 5.92e-01 70.2% 98.2%
2qi2A02 3.30.420.60 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › eRF1 domain 2 0.72 35.0 5.09e-01 71.0% 100.0%
4af1A02 3.30.420.60 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › eRF1 domain 2 0.71 38.0 5.21e-01 70.6% 100.0%
1t6cA02 3.30.420.150 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Exopolyphosphatase. Domain 2 0.55 39.0 4.44e-01 73.9% 97.2%
3mdqA02 3.30.420.150 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Exopolyphosphatase. Domain 2 0.54 41.0 4.57e-01 91.0% 98.9%
4wnyA00 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.54 30.0 4.04e-01 95.1% 100.0%
3gjzA02 3.50.30.60 Alpha Beta › 3-Layer(bba) Sandwich › Glucose Oxidase; domain 1 › LD-carboxypeptidase A C-terminal domain-like 0.52 30.0 3.50e-01 75.5% 78.1%
3wt0A02 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.52 33.0 4.02e-01 82.0% 96.9%
2dumC00 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.52 28.0 3.60e-01 99.2% 88.4%
4rr9A01 3.50.80.10 Alpha Beta › 3-Layer(bba) Sandwich › D-tyrosyl-trna(Tyr) Deacylase; Chain: A; › D-tyrosyl-tRNA(Tyr) deacylase 0.52 29.0 3.86e-01 93.1% 100.0%
ECOD (38)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5004517 2484.1.1.302 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Cas12f1-like_TNB 0.84 58.0 6.34e-01 70.2% 94.8%
4976623 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.84 57.0 6.77e-01 85.7% 96.6%
4979830 2484.1.1.302 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Cas12f1-like_TNB 0.82 56.0 6.69e-01 72.7% 98.2%
4975908 2484.1.1.302 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Cas12f1-like_TNB 0.78 54.0 5.76e-01 70.6% 95.9%
4961847 2484.1.1.302 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Cas12f1-like_TNB 0.77 54.0 5.78e-01 70.2% 89.8%
5075755 2484.1.1.124 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › OrfB_IS605 0.77 50.0 6.19e-01 99.2% 100.0%
5000042 2484.1.1.302 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Cas12f1-like_TNB 0.75 53.0 5.73e-01 70.2% 97.6%
5055179 2484.1.1.302 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Cas12f1-like_TNB 0.75 55.0 5.94e-01 74.3% 97.1%
3180133 2484.1.1.57 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Ydc2-catalyt 0.74 52.0 5.10e-01 70.6% 93.5%
4976214 2484.1.1.124 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › OrfB_IS605 0.73 52.0 5.78e-01 72.2% 99.5%
5011615 2484.1.1.302 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Cas12f1-like_TNB 0.73 60.0 6.51e-01 100.0% 99.0%
4933534 2484.1.1.302 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Cas12f1-like_TNB 0.73 59.0 6.47e-01 98.4% 100.0%
5011606 2484.1.1.124 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › OrfB_IS605 0.72 50.0 5.76e-01 88.6% 93.4%
3511625 2484.1.1.72 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › YqgF 0.72 52.0 5.78e-01 83.7% 90.5%
4939764 2484.1.1.339 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › acVLRF1 0.72 39.0 5.27e-01 71.4% 99.2%
3964879 2484.1.1.60 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RNase_E_G 0.71 32.0 4.87e-01 90.2% 98.1%
5072202 2484.1.1.302 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Cas12f1-like_TNB 0.69 53.0 5.98e-01 94.7% 100.0%
3737089 2484.1.1.57 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Ydc2-catalyt 0.69 48.0 5.10e-01 70.6% 95.9%
5023627 2484.1.1.302 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Cas12f1-like_TNB 0.68 58.0 6.18e-01 97.6% 99.5%
4962880 2484.1.1.302 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Cas12f1-like_TNB 0.68 60.0 6.32e-01 99.2% 99.6%
4943798 2484.1.1.302 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Cas12f1-like_TNB 0.68 56.0 5.98e-01 98.4% 95.5%
4994780 2484.1.1.124 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › OrfB_IS605 0.68 57.0 6.08e-01 100.0% 98.6%
4933539 2484.1.1.302 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Cas12f1-like_TNB 0.67 56.0 6.01e-01 100.0% 98.6%
5009772 2484.1.1.302 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Cas12f1-like_TNB 0.66 57.0 6.06e-01 95.9% 100.0%
3956669 2484.1.1.124 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › OrfB_IS605 0.65 47.0 5.43e-01 79.6% 100.0%
5075582 2484.1.1.124 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › OrfB_IS605 0.64 57.0 5.96e-01 95.5% 99.6%
3985198 2003.1.1.67 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › NAD_binding_10 0.63 26.0 3.44e-01 82.0% 65.7%
4939394 2484.1.1.334 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DUF1786 0.63 26.0 4.06e-01 71.0% 92.4%
4054382 2484.1.1.37 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Pan_kinase 0.62 32.0 4.52e-01 70.6% 99.2%
4093708 2484.1.1.29 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Ppx-GppA 0.57 41.0 4.68e-01 75.5% 97.8%
5041441 2005.1.1.3 a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › Usp 0.56 31.0 3.76e-01 100.0% 81.9%
4986005 2484.1.1.333 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DUF1464 0.56 36.0 4.49e-01 72.7% 100.0%
3165237 2484.1.1.29 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Ppx-GppA 0.55 39.0 4.42e-01 73.5% 93.1%
11205 2484.1.1.29 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Ppx-GppA 0.55 39.0 4.48e-01 74.3% 97.8%
4125023 2006.1.4.4 a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › 5_3_exonuc_N 0.53 34.0 4.05e-01 100.0% 92.4%
3586023 7570.1.1.0 a/b three-layered sandwiches › MurD-like peptide ligases, peptide-binding domain › MurD-like peptide ligases, peptide-binding domain › MurD-like peptide ligases, peptide-binding domain 0.51 26.0 3.55e-01 82.4% 100.0%
3386057 2484.1.1.85 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RuvC_III 0.50 46.0 4.68e-01 96.3% 100.0%
4979501 2011.2.1.4 a/b three-layered sandwiches › Phosphorylase/hydrolase-like › Peptidyl-tRNA hydrolase-like › Peptidyl-tRNA hydrolase-like › HycI 0.50 24.0 3.28e-01 71.8% 84.4%