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SR-VP_2-4_scaffold_141_2548329_prodigal-single.1__X__X__00151

Bact-Vir

SR-VP_2-4_scaffold_141_2548329_prodigal-single.1__X__X__00151

Identity

Kingdom:
phage

Quality

75.5 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 22-104
PDB
CATH (29)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2v31A01 2.40.30.180 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Ubiquitin-activating enzyme E1, FCCH domain 0.78 67.0 6.33e-01 100.0% 79.4%
1v0fB03 2.40.30.20 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.73 65.0 6.46e-01 100.0% 94.1%
2wssA01 2.40.30.20 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.69 50.0 4.86e-01 100.0% 68.8%
3gqbA01 2.40.30.20 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.68 50.0 5.31e-01 100.0% 93.0%
2m5sA00 2.40.30.240 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.65 59.0 5.17e-01 100.0% 93.5%
6tdyD01 2.40.10.170 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.65 52.0 5.41e-01 98.8% 97.3%
4an6B00 2.80.10.50 Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › 0.65 51.0 4.05e-01 85.5% 99.4%
2mc2A00 2.80.10.50 Mainly Beta › Trefoil › Trefoil (Acidic Fibroblast Growth Factor, subunit A) › 0.65 48.0 3.57e-01 78.3% 100.0%
4b3fX02 2.40.30.270 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.64 57.0 5.42e-01 97.6% 82.7%
4wqmA02 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.63 57.0 5.39e-01 100.0% 89.8%
2zzeA03 2.40.30.130 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.62 49.0 4.65e-01 95.2% 72.4%
5tr9A01 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.62 55.0 5.28e-01 98.8% 93.8%
2bn4B03 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.62 55.0 4.45e-01 98.8% 82.9%
1ep3B01 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.60 52.0 4.98e-01 98.8% 92.9%
2eixA01 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.59 51.0 4.79e-01 98.8% 87.7%
3dclA02 2.40.10.170 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.59 51.0 5.03e-01 100.0% 93.4%
1ib8A02 2.30.30.180 Mainly Beta › Roll › SH3 type barrels. › Ribosome maturation factor RimP, C-terminal domain 0.58 44.0 4.77e-01 83.1% 100.0%
3bnwB00 2.40.30.30 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Riboflavin kinase-like 0.58 50.0 4.13e-01 100.0% 79.6%
4cshA00 3.90.1720.10 Alpha Beta › Alpha-Beta Complex › endopeptidase fold (from Nostoc punctiforme) › endopeptidase domain like (from Nostoc punctiforme) 0.54 42.0 3.36e-01 84.3% 42.1%
4q63A00 2.40.10.430 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.54 41.0 4.00e-01 85.5% 75.3%
3amkA03 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.54 44.0 4.18e-01 100.0% 77.0%
1z47A03 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.54 31.0 3.71e-01 95.2% 93.9%
2vrsA03 2.60.90.40 Mainly Beta › Sandwich › Adenovirus Type 5 Fiber Protein (Receptor Binding Domain) › 0.54 46.0 4.03e-01 98.8% 91.7%
1x5zA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 41.0 3.85e-01 100.0% 67.6%
2e5gA01 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.51 36.0 3.84e-01 88.0% 87.5%
2lkoA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.51 37.0 3.18e-01 77.1% 65.2%
3cp2A02 2.40.30.260 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.51 39.0 3.78e-01 85.5% 89.9%
3kyhC01 3.30.470.30 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › DNA ligase/mRNA capping enzyme 0.51 36.0 2.65e-01 74.7% 76.2%
2v4dE01 2.40.420.20 Mainly Beta › Beta Barrel › conserved putative lor/sdh protein from methanococcus maripaludis s2 fold › 0.50 38.0 3.79e-01 94.0% 81.0%
ECOD (67)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4028468 1.1.7.35 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › E1_FCCH 0.84 72.0 6.62e-01 100.0% 72.4%
3332862 1.1.7.35 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › E1_FCCH 0.83 72.0 6.82e-01 97.6% 80.0%
199114 1.1.7.35 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › E1_FCCH 0.78 67.0 6.00e-01 100.0% 68.8%
3252937 1.1.7.35 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › E1_FCCH 0.78 72.0 6.64e-01 100.0% 91.4%
4995824 1.1.7.0 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.77 63.0 6.70e-01 98.8% 98.6%
3704854 1.1.7.0 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.74 67.0 6.11e-01 100.0% 87.3%
4943228 1.1.7.146 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_Xtn 0.69 50.0 5.47e-01 97.6% 96.9%
4162532 1.1.7.17 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.68 52.0 5.44e-01 100.0% 90.7%
4111597 1.1.7.17 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.68 49.0 5.35e-01 98.8% 96.9%
4407497 1.1.7.17 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.68 50.0 5.46e-01 98.8% 100.0%
4505406 1.1.7.0 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.68 60.0 5.70e-01 98.8% 92.0%
3967745 1.1.7.17 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.67 53.0 5.53e-01 100.0% 93.3%
4512995 1.1.7.17 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.67 49.0 5.19e-01 98.8% 91.4%
4010630 2004.1.1.10 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ATP-synt_ab 0.67 53.0 3.32e-01 100.0% 16.3%
5082517 1.1.7.24 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › FAD_binding_8 0.67 60.0 5.62e-01 100.0% 91.0%
4319764 1.1.7.17 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.66 52.0 4.74e-01 100.0% 63.6%
4083044 1.1.7.17 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.66 50.0 5.20e-01 100.0% 92.0%
4854958 1.1.7.17 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.66 48.0 4.62e-01 100.0% 67.7%
3759036 11.21.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Ig-like domain in tailspike protein › Ig-like domain in tailspike protein 0.65 60.0 5.74e-01 100.0% 92.6%
4060488 1.1.7.17 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.65 51.0 5.26e-01 100.0% 88.7%
3387360 1.1.7.0 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.65 50.0 5.03e-01 100.0% 83.5%
4245518 1.1.7.17 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.65 51.0 5.35e-01 100.0% 96.0%
4518787 1.1.7.17 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.65 51.0 5.32e-01 96.4% 94.7%
3975044 1.1.7.17 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.64 49.0 5.15e-01 98.8% 92.0%
5038850 4.7.1.1 beta barrels › SH3 › RNase P subunit p29 › RNase P subunit p29 › RNase_P-MRP_p29 0.64 43.0 4.26e-01 81.9% 64.4%
3292420 1.1.7.17 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.64 48.0 4.76e-01 100.0% 75.6%
4316004 1.1.7.0 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.64 47.0 4.73e-01 100.0% 78.8%
4355652 1.1.7.4 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › FAD_binding_1 0.64 57.0 4.69e-01 100.0% 73.3%
4402716 1.1.7.17 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.63 49.0 4.88e-01 100.0% 83.5%
3611782 1.1.7.0 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.63 57.0 4.81e-01 98.8% 72.6%
4939996 1.1.7.46 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › SMUBP-2_HCS1_1B 0.63 57.0 5.30e-01 100.0% 84.8%
4230122 1.1.7.17 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.63 49.0 4.64e-01 98.8% 71.0%
3908752 1.1.7.24 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › FAD_binding_8 0.63 56.0 4.92e-01 100.0% 98.4%
2556060 1.1.7.17 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.63 49.0 5.06e-01 100.0% 93.6%
4636885 1.1.7.17 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.63 49.0 5.13e-01 100.0% 97.3%
3187684 1.1.7.4 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › FAD_binding_1 0.63 56.0 4.68e-01 100.0% 73.1%
3369214 1.1.7.46 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › SMUBP-2_HCS1_1B 0.63 56.0 5.12e-01 98.8% 79.1%
3169783 1.1.7.4 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › FAD_binding_1 0.63 55.0 4.25e-01 98.8% 71.1%
3417889 1.1.7.24 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › FAD_binding_8 0.63 55.0 5.08e-01 100.0% 95.5%
4085589 1.1.7.17 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › ATP-synt_ab_N 0.62 51.0 5.23e-01 100.0% 96.2%
3183224 1.1.7.24 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › FAD_binding_8 0.62 55.0 5.21e-01 100.0% 92.0%
2161972 1.1.7.0 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.62 50.0 5.01e-01 98.8% 89.2%
3686772 1.1.7.24 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › FAD_binding_8 0.62 55.0 4.97e-01 100.0% 99.1%
3667194 1.1.7.24 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › FAD_binding_8 0.62 55.0 4.75e-01 100.0% 100.0%
3932819 1.1.7.7 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › FAD_binding_6 0.62 55.0 4.97e-01 100.0% 91.3%
3328574 1.1.7.24 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › FAD_binding_8 0.62 54.0 4.74e-01 98.8% 100.0%
3236163 1.1.7.24 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › FAD_binding_8 0.61 54.0 5.05e-01 100.0% 93.3%
5033242 4.7.1.1 beta barrels › SH3 › RNase P subunit p29 › RNase P subunit p29 › RNase_P-MRP_p29 0.61 42.0 4.23e-01 80.7% 70.6%
3812071 1.1.7.24 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › FAD_binding_8 0.61 53.0 4.83e-01 100.0% 88.7%
3266329 1.1.7.24 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › FAD_binding_8 0.61 54.0 4.56e-01 100.0% 96.4%
4931402 1.1.7.0 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.61 55.0 5.00e-01 100.0% 79.1%
4012402 1.1.7.7 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › FAD_binding_6 0.61 54.0 4.82e-01 100.0% 90.8%
3807393 1.1.7.24 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › FAD_binding_8 0.61 53.0 4.92e-01 100.0% 86.4%
3263089 1.1.7.24 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › FAD_binding_8 0.61 54.0 4.85e-01 100.0% 94.8%
1281033 1.1.7.33 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › DUF4438 0.61 53.0 4.33e-01 100.0% 87.5%
3893654 1.1.7.69 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › MOV-10_beta-barrel 0.61 54.0 4.87e-01 100.0% 73.9%
4091759 1.1.7.0 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.60 53.0 4.99e-01 100.0% 94.3%
3255732 1.1.7.0 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.60 53.0 5.09e-01 100.0% 95.8%
3234172 1.1.7.45 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › eEFSec_4th 0.59 52.0 5.11e-01 100.0% 94.4%
3415428 1.1.7.69 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C › MOV-10_beta-barrel 0.57 50.0 4.68e-01 100.0% 82.9%
3597473 11.2.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain 0.57 48.0 4.17e-01 94.0% 72.3%
3172397 11.1.1.207 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › AMPK1_CBM 0.53 40.0 3.86e-01 95.2% 71.6%
3494683 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.53 38.0 4.12e-01 80.7% 91.4%
3235933 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.53 45.0 4.20e-01 100.0% 86.4%
3770542 11.2.1.25 beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › PL48 0.52 41.0 3.47e-01 95.2% 50.7%
2625578 219.1.1.163 a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › PF31135 0.51 40.0 3.42e-01 86.7% 64.3%
3263949 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.51 42.0 4.03e-01 100.0% 78.9%
D2 high residues 128-256
PDB
CATH (8)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2kzbA00 2.60.40.2830 Mainly Beta › Sandwich › Immunoglobulin-like › 0.62 36.0 3.82e-01 100.0% 63.2%
5dstA02 2.70.160.11 Mainly Beta › Distorted Sandwich › Hnrnp arginine n-methyltransferase1 › Hnrnp arginine n-methyltransferase1 0.60 56.0 4.98e-01 100.0% 97.2%
1f3lA02 2.70.160.11 Mainly Beta › Distorted Sandwich › Hnrnp arginine n-methyltransferase1 › Hnrnp arginine n-methyltransferase1 0.60 55.0 5.02e-01 100.0% 97.1%
3b4nA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.59 30.0 3.44e-01 74.4% 65.9%
4g56A03 2.70.160.11 Mainly Beta › Distorted Sandwich › Hnrnp arginine n-methyltransferase1 › Hnrnp arginine n-methyltransferase1 0.57 52.0 4.76e-01 100.0% 96.5%
4lsdF00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.54 28.0 3.16e-01 86.8% 62.2%
3k6yA02 2.40.10.10 Mainly Beta › Beta Barrel › Thrombin, subunit H › Trypsin-like serine proteases 0.51 33.0 3.53e-01 100.0% 76.6%
1d3bB00 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.50 25.0 2.98e-01 100.0% 70.4%
ECOD (1)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3429776 10.10.1.1 beta sandwiches › jelly-roll › Lipase/lipooxygenase domain (PLAT/LH2 domain) › Lipase/lipooxygenase domain (PLAT/LH2 domain) › PLAT 0.54 35.0 3.42e-01 84.5% 57.9%