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SR-VP_0-2_scaffold_141_2071242_prodigal-single.1__X__X__00535

Bact-Vir

SR-VP_0-2_scaffold_141_2071242_prodigal-single.1__X__X__00535

Identity

Kingdom:
phage

Quality

62.7 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 82-125
PDB
Domain cluster: representative
CATH (43)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2uurA00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.80 56.0 3.54e-01 75.0% 20.5%
2y8nB01 2.20.70.100 Mainly Beta › Single Sheet › Ubiquitin Ligase Nedd4; Chain: W; › 0.71 52.0 5.29e-01 93.2% 81.0%
1vq8A01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.70 50.0 4.15e-01 77.3% 61.5%
3k2tA01 3.30.505.50 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › Sigma 54 modulation/S30EA ribosomal protein, C-terminal domain 0.68 53.0 5.22e-01 84.1% 91.3%
2jheA02 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.67 55.0 4.31e-01 100.0% 75.9%
2xzmW01 3.10.290.10 Alpha Beta › Roll › Structural Genomics Hypothetical 15.5 Kd Protein In mrcA-pckA Intergenic Region; Chain A › RNA-binding S4 domain 0.66 52.0 3.95e-01 93.2% 83.1%
1g2bA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.66 57.0 5.15e-01 100.0% 93.5%
1rl2A01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.66 49.0 4.56e-01 81.8% 80.4%
3kbgA01 3.10.290.10 Alpha Beta › Roll › Structural Genomics Hypothetical 15.5 Kd Protein In mrcA-pckA Intergenic Region; Chain A › RNA-binding S4 domain 0.65 51.0 4.24e-01 88.6% 86.4%
4qrlA00 2.40.128.280 Mainly Beta › Beta Barrel › Lipocalin › 0.65 44.0 3.29e-01 70.5% 41.8%
2zylA01 2.102.10.10 Mainly Beta › 3-layer Sandwich › Rieske Iron-sulfur Protein › Rieske [2Fe-2S] iron-sulphur domain 0.64 50.0 3.46e-01 84.1% 28.1%
7x4pA01 3.30.460.10 Alpha Beta › 2-Layer Sandwich › Beta Polymerase; domain 2 › Beta Polymerase, domain 2 0.64 46.0 3.21e-01 79.5% 62.4%
2au3A02 3.90.980.10 Alpha Beta › Alpha-Beta Complex › DNA primase DNAg catalytic core, N-terminal domain › DNA primase, catalytic core, N-terminal domain 0.64 50.0 3.72e-01 93.2% 79.5%
2ffgA00 3.30.720.20 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › Protein of unknown function DUF1797 0.63 44.0 3.71e-01 75.0% 51.2%
2v8qA01 3.30.310.80 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Kinase associated domain 1, KA1 0.62 52.0 4.30e-01 100.0% 73.0%
1eqnB01 3.90.980.10 Alpha Beta › Alpha-Beta Complex › DNA primase DNAg catalytic core, N-terminal domain › DNA primase, catalytic core, N-terminal domain 0.61 47.0 3.63e-01 95.5% 83.3%
2y1sA00 2.30.60.10 Mainly Beta › Roll › HIV-inactivating Protein, Cyanovirin-n › Cyanovirin-N 0.61 44.0 3.53e-01 86.4% 47.2%
3ednA01 3.10.310.10 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 0.60 51.0 3.68e-01 100.0% 35.8%
5hy7B01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.60 46.0 2.73e-01 93.2% 16.3%
4i8oA01 3.30.310.240 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Bacterial toxin RNase RnlA/LsoA, N-terminal domain 0.59 47.0 3.99e-01 100.0% 76.4%
2k4rA00 2.40.20.10 Mainly Beta › Beta Barrel › Plasminogen Kringle 4 › Plasminogen Kringle 4 0.58 47.0 4.11e-01 100.0% 77.9%
7plsA02 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.57 42.0 3.51e-01 100.0% 40.9%
3pufL00 2.40.128.680 Mainly Beta › Beta Barrel › Lipocalin › 0.57 42.0 3.38e-01 93.2% 64.7%
1b1eA00 3.10.130.10 Alpha Beta › Roll › P-30 Protein › Ribonuclease A-like domain 0.56 48.0 3.55e-01 100.0% 89.4%
2p25A01 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.56 48.0 3.53e-01 97.7% 42.9%
4kghA00 3.15.10.10 Alpha Beta › Super Roll › Bactericidal permeability-increasing protein; domain 1 › Bactericidal permeability-increasing protein; domain 1 0.56 42.0 2.82e-01 84.1% 60.6%
1aisA02 3.30.310.10 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › TATA-Binding Protein 0.56 47.0 3.85e-01 100.0% 57.5%
2sliA03 2.40.220.10 Mainly Beta › Beta Barrel › Intramolecular trans-sialidase; domain 3 › Intramolecular Trans-sialidase; Domain 3 0.55 42.0 3.42e-01 90.9% 79.0%
5bmnA04 3.30.310.50 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › Alpha-D-phosphohexomutase, C-terminal domain 0.55 42.0 3.69e-01 100.0% 66.3%
3kioC01 2.40.128.680 Mainly Beta › Beta Barrel › Lipocalin › 0.55 42.0 3.58e-01 100.0% 79.6%
3oulA00 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.54 45.0 2.94e-01 100.0% 33.8%
2p90A01 3.40.50.10900 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › PAC-like subunit 0.54 44.0 2.90e-01 100.0% 88.8%
6az1E03 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.54 41.0 3.45e-01 100.0% 50.0%
5ha4A02 3.10.310.10 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › Diaminopimelate Epimerase; Chain A, domain 1 0.54 40.0 3.14e-01 100.0% 99.3%
1m3qA01 3.30.310.40 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › 0.54 43.0 3.61e-01 100.0% 58.4%
3cz8A02 3.10.50.10 Alpha Beta › Roll › Chitinase A; domain 3 › 0.53 45.0 4.23e-01 100.0% 98.2%
3f0zA01 3.30.310.260 Alpha Beta › 2-Layer Sandwich › TATA-Binding Protein › 0.53 41.0 3.32e-01 100.0% 45.5%
2yj6A02 3.40.1110.10 Alpha Beta › 3-Layer(aba) Sandwich › Calcium-transporting ATPase, cytoplasmic domain N › Calcium-transporting ATPase, cytoplasmic domain N 0.53 38.0 3.29e-01 93.2% 81.1%
3bxwA03 3.10.50.10 Alpha Beta › Roll › Chitinase A; domain 3 › 0.53 45.0 4.25e-01 100.0% 94.5%
1aorA02 1.10.569.10 Mainly Alpha › Orthogonal Bundle › Aldehyde Ferredoxin Oxidoreductase Protein, subunit A; domain 2 › Aldehyde Ferredoxin Oxidoreductase Protein, subunit A, domain 2 0.52 39.0 2.76e-01 95.5% 34.9%
1u3eM01 3.90.75.20 Alpha Beta › Alpha-Beta Complex › Homing Intron 3 (I-Ppo) Encoded Endonuclease; Chain A › 0.51 38.0 2.97e-01 84.1% 35.8%
1t8hA00 3.60.140.10 Alpha Beta › 4-Layer Sandwich › CNF1/YfiH-like putative cysteine hydrolases › CNF1/YfiH-like putative cysteine hydrolases 0.51 37.0 2.37e-01 100.0% 14.3%
6b1pA02 3.90.800.10 Alpha Beta › Alpha-Beta Complex › Glutamyl-tRNA Synthetase; domain 3 › Glutamyl-tRNA Synthetase; Domain 3 0.50 37.0 3.15e-01 90.9% 89.9%
ECOD (54)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3749834 64.1.1.0 ↗ beta meanders › WW domain-like › WW domain › WW domain 0.82 60.0 5.63e-01 79.5% 72.7%
3909185 10.1.1.17 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases › Laminin_G_2 0.81 58.0 3.65e-01 75.0% 21.0%
3894532 10.1.1.0 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases 0.81 56.0 3.64e-01 75.0% 22.1%
3874056 64.1.1.1 ↗ beta meanders › WW domain-like › WW domain › WW domain › WW 0.76 54.0 5.10e-01 77.3% 70.9%
3409645 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 0.76 58.0 5.78e-01 86.4% 80.0%
3403471 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 0.75 56.0 5.43e-01 88.6% 72.0%
3279949 3708.1.1.1 ↗ a+b three layers › ESX-1 secretion system protein eccB1 modular domains › ESX-1 secretion system protein eccB1 modular domains › ESX-1 secretion system protein eccB1 modular domains › T7SS_ESX1_EccB 0.74 51.0 4.16e-01 77.3% 40.0%
4978135 101.1.1.0 ↗ alpha arrays › HTH › HTH › Three-helical HTH 0.74 61.0 4.22e-01 93.2% 33.1%
5040009 5.1.3.22 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › GSDH 0.74 61.0 3.58e-01 93.2% 25.5%
4207610 274.1.1.13 ↗ a+b two layers › Pili subunits › Pili subunits › Pili subunits › GspH 0.73 51.0 3.52e-01 90.9% 22.0%
3579437 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.72 54.0 4.65e-01 90.9% 51.4%
4662143 10.1.1.17 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases › Laminin_G_2 0.71 48.0 3.10e-01 72.7% 18.6%
3406773 241.10.1.1 ↗ a+b two layers › Type III secretory system chaperone-like › GAS2 domain › GAS2 domain › GAS2 0.71 58.0 5.02e-01 93.2% 65.7%
3245636 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 0.70 56.0 5.24e-01 88.6% 70.9%
3994928 386.1.1.71 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › SURF2 0.70 53.0 4.85e-01 95.5% 61.7%
3748155 10.1.1.17 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases › Laminin_G_2 0.69 47.0 3.10e-01 72.7% 20.5%
5029687 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.69 54.0 5.43e-01 86.4% 97.8%
2512825 10.1.1.25 ↗ beta sandwiches › jelly-roll › Concanavalin A-like › Concanavalin A-like lectins/glucanases › Toxin_R_bind_N 0.69 49.0 3.09e-01 77.3% 17.3%
5069785 284.4.1.0 ↗ a+b two layers › FKBP-like › Archaeal FKBP insertion domain › Archaeal FKBP insertion domain 0.68 58.0 4.23e-01 100.0% 36.8%
4588602 3097.1.1.1 ↗ a+b two layers › Ribosome-associated factor Y › Ribosome-associated factor Y › Ribosome-associated factor Y › Ribosom_S30AE_C 0.68 52.0 5.00e-01 84.1% 84.0%
3543340 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 0.67 52.0 4.92e-01 86.4% 79.6%
3356654 221.1.2.20 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Alpha-L RNA-binding motif › Ribosomal_S4e 0.67 47.0 4.50e-01 77.3% 83.6%
5069060 221.1.2.5 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Alpha-L RNA-binding motif › S4 0.67 52.0 4.34e-01 90.9% 100.0%
5045922 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.67 46.0 4.75e-01 72.7% 90.0%
5030490 221.1.2.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Alpha-L RNA-binding motif 0.66 52.0 4.04e-01 93.2% 87.3%
3844188 386.1.1.289 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › PF30903 0.66 46.0 4.22e-01 93.2% 55.0%
3490040 708.1.2.0 ↗ beta complex topology › ETN0001 domain-like › ETN0001 domain-like › Mss4-like 0.66 53.0 4.19e-01 100.0% 41.3%
3652022 386.1.1.207 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-BED_2 0.66 52.0 4.30e-01 88.6% 55.0%
3961965 3097.1.1.1 ↗ a+b two layers › Ribosome-associated factor Y › Ribosome-associated factor Y › Ribosome-associated factor Y › Ribosom_S30AE_C 0.66 50.0 4.43e-01 84.1% 64.6%
2858693 66.1.1.0 ↗ beta sandwiches › ISP domain › ISP domain › ISP domain 0.65 49.0 4.77e-01 81.8% 79.6%
3264997 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.65 45.0 4.23e-01 90.9% 58.2%
3931217 502.1.1.0 ↗ a+b two layers › Anti-LPS factor/recA domain › Anti-LPS factor/recA domain › Anti-LPS factor/recA domain 0.65 49.0 4.32e-01 88.6% 55.4%
4627769 221.1.2.5 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Alpha-L RNA-binding motif › S4 0.64 48.0 3.97e-01 88.6% 80.0%
3992839 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.64 45.0 4.47e-01 81.8% 73.3%
3556118 6.1.1.4 ↗ beta duplicates or obligate multimers › beta-Trefoil › beta-Trefoil › beta-Trefoil › Ricin_B_lectin 0.64 51.0 3.74e-01 100.0% 35.0%
4992030 632.1.1.40 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain › DUF3536 0.64 47.0 3.10e-01 81.8% 29.3%
1407259 4023.1.1.1 ↗ a+b two layers › N-terminal a+b domain in DNA primase core › N-terminal a+b domain in DNA primase core › N-terminal a+b domain in DNA primase core › DNAG_N 0.63 49.0 3.70e-01 93.2% 80.8%
3312039 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.63 45.0 4.22e-01 84.1% 62.3%
4431296 2004.1.1.307 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Spore_III_AA 0.63 52.0 3.20e-01 100.0% 22.3%
4966736 221.1.2.0 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Alpha-L RNA-binding motif 0.62 48.0 4.04e-01 90.9% 84.7%
4963287 375.1.1.334 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › HVO_0758 0.61 48.0 4.57e-01 95.5% 83.6%
3498776 239.3.1.1 ↗ beta barrels › Ribosomal protein L25-like › FAS1 domain › FAS1 domain › Fasciclin 0.61 46.0 3.45e-01 86.4% 51.7%
4255854 4294.1.1.8 ↗ few secondary structure elements › Trm112p-like › Trm112p-like › Trm112p-like › PF27112 0.61 47.0 4.57e-01 86.4% 76.0%
3257931 284.2.1.0 ↗ a+b two layers › FKBP-like › Chitinase insertion domain › Chitinase insertion domain 0.60 48.0 3.86e-01 95.5% 100.0%
3616640 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.59 48.0 3.71e-01 93.2% 41.9%
3925225 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.59 36.0 3.93e-01 77.3% 77.1%
3736787 331.3.1.2 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like › Ring_hydroxyl_A 0.59 49.0 3.08e-01 100.0% 33.0%
3088608 331.3.1.2 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like › Ring_hydroxyl_A 0.59 48.0 3.04e-01 100.0% 53.5%
5016637 295.1.1.52 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain › DUF1894 0.58 44.0 3.84e-01 100.0% 80.0%
3630572 391.1.1.0 ↗ few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › Fibronectin type I module 0.56 39.0 4.13e-01 79.5% 100.0%
3604153 331.2.1.1 ↗ a+b two layers › TBP-like › Phosphoglucomutase, C-terminal domain › Phosphoglucomutase, C-terminal domain › PGM_PMM_IV 0.55 42.0 3.73e-01 100.0% 67.5%
5003276 331.1.1.5 ↗ a+b two layers › TBP-like › TATA-box binding protein-like › TATA-box binding protein-like › OGG_N 0.55 42.0 3.94e-01 100.0% 80.0%
4158802 6.1.1.36 ↗ beta duplicates or obligate multimers › beta-Trefoil › beta-Trefoil › beta-Trefoil › RNaseT2L_C 0.53 41.0 3.19e-01 97.7% 37.5%
3812379 1.1.1.27 ↗ beta barrels › cradle loop barrel › RIFT-related › acid protease › Asp, TAXi_N 0.50 40.0 2.64e-01 100.0% 80.0%