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BML_08182015_6_5m_scaffold_1_prodigal-single.1__X__X__00139

Bact-Vir

BML_08182015_6_5m_scaffold_1_prodigal-single.1__X__X__00139

Identity

Kingdom:
phage

Quality

83.9 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 20-115
PDB
Domain cluster: representative
CATH (45)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2f1fA01 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.68 47.0 5.10e-01 100.0% 87.3%
3tupA02 3.30.70.380 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ferrodoxin-fold anticodon-binding domain 0.67 51.0 5.14e-01 100.0% 80.2%
3drxB03 3.30.70.2000 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.67 35.0 4.54e-01 87.5% 96.1%
3mgjA00 3.30.70.2690 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › LOR/SDH bifunctional enzyme, conserved domain 0.66 46.0 4.70e-01 100.0% 74.0%
1v8cA02 3.30.1370.80 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › Molybdopterin cofactor biosynthesis MoaD-related, C-terminal domain 0.66 49.0 5.27e-01 100.0% 95.0%
3nlcA01 3.30.70.2700 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.63 45.0 4.96e-01 97.9% 94.7%
4bhqA00 3.30.70.2830 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.62 37.0 3.62e-01 88.5% 52.3%
1vigA00 3.30.1370.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 0.61 41.0 4.56e-01 100.0% 91.5%
2y3uA02 3.30.980.50 Alpha Beta › 2-Layer Sandwich › Threonyl-tRNA Synthetase; Chain A, domain 2 › 0.60 43.0 4.13e-01 90.6% 64.6%
2qswA00 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.59 41.0 4.28e-01 100.0% 77.8%
2fbjH02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.59 34.0 3.80e-01 86.5% 72.6%
3gkuA01 3.30.30.80 Alpha Beta › 2-Layer Sandwich › Defensin A-like › probable RNA-binding protein from clostridium symbiosum atcc 14940 0.59 34.0 4.15e-01 84.4% 100.0%
1we8A01 3.30.1370.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 0.58 41.0 4.30e-01 100.0% 83.3%
3ns6A00 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.58 45.0 4.46e-01 100.0% 80.8%
2pd1A01 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.58 40.0 4.11e-01 100.0% 73.7%
2od4B01 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.58 42.0 4.33e-01 100.0% 82.0%
2mq8A00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.57 42.0 4.02e-01 100.0% 67.0%
5is2A01 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.56 41.0 4.27e-01 100.0% 83.5%
2jzxA02 3.30.1370.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › K Homology domain, type 1 0.56 39.0 4.16e-01 100.0% 87.3%
2go8A01 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.56 37.0 4.15e-01 96.9% 89.2%
2vxaA00 3.30.1660.10 Alpha Beta › 2-Layer Sandwich › Dodecin subunit-like › Flavin-binding protein dodecin 0.56 35.0 4.03e-01 88.5% 90.9%
2jsxA01 3.30.70.920 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Lrp/AsnC effector binding domain/regulation of amino acid metabolism (RAM) domain 0.55 36.0 4.02e-01 100.0% 90.1%
1lp9E02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 35.0 3.78e-01 100.0% 76.2%
3hluA00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.55 37.0 4.03e-01 100.0% 90.4%
1xdzA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.55 37.0 2.84e-01 99.0% 28.2%
3i4hX02 3.30.70.1900 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.54 45.0 4.39e-01 100.0% 84.6%
4fvmA02 3.30.70.2820 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.54 44.0 4.37e-01 100.0% 82.5%
3i87A02 3.30.70.1710 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › BMC (bacterial microcompartment) domain 0.54 36.0 3.64e-01 100.0% 67.3%
2j8aA01 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.53 42.0 4.41e-01 100.0% 94.3%
8c46A01 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.53 47.0 4.46e-01 100.0% 83.3%
4pxdA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.53 47.0 4.45e-01 100.0% 82.6%
2e7vA01 3.30.70.960 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › SEA domain 0.53 47.0 4.63e-01 100.0% 93.3%
3kyfA02 2.40.10.220 Mainly Beta › Beta Barrel › Thrombin, subunit H › predicted glycosyltransferase like domains 0.53 39.0 3.69e-01 95.8% 65.0%
2onlC01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.52 31.0 3.25e-01 90.6% 64.0%
4pxeA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.52 46.0 4.33e-01 100.0% 82.1%
1golA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.51 32.0 2.92e-01 84.4% 46.1%
3d2uA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 38.0 3.92e-01 96.9% 82.6%
4ewtA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.51 44.0 4.23e-01 100.0% 81.7%
6k3lB02 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.51 29.0 3.04e-01 83.3% 57.1%
3n5fA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.51 44.0 4.21e-01 100.0% 81.6%
1cg2A02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.51 44.0 4.21e-01 100.0% 82.7%
3e3pA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.51 32.0 3.50e-01 90.6% 78.2%
4dpoB00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.51 38.0 3.79e-01 100.0% 77.2%
3gb0A02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.50 43.0 4.10e-01 100.0% 80.4%
8ediA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.50 40.0 3.93e-01 100.0% 79.8%
ECOD (55)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3395088 304.9.1.0 a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.67 49.0 5.34e-01 99.0% 92.5%
3587109 304.5.1.7 a+b two layers › Alpha-beta plaits › GlnB-like › GlnB-like › DUF2179 0.66 42.0 4.35e-01 100.0% 67.8%
4966477 304.18.1.0 a+b two layers › Alpha-beta plaits › Anticodon-binding domain of PheRS › Anticodon-binding domain of PheRS 0.66 46.0 4.66e-01 100.0% 72.6%
138988 304.134.1.1 a+b two layers › Alpha-beta plaits › MJ1480-like › MJ1480-like › Saccharop_dh_N 0.66 46.0 4.68e-01 100.0% 73.2%
3974776 304.8.1.9 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT_6 0.65 43.0 4.72e-01 100.0% 86.7%
3241590 327.11.2.1 a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) › KH_1 0.65 44.0 4.65e-01 100.0% 78.8%
5021132 304.8.1.2 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT 0.64 43.0 4.21e-01 100.0% 62.9%
4955435 304.8.1.0 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.64 43.0 4.76e-01 100.0% 89.3%
3383879 304.8.1.0 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.64 43.0 4.78e-01 99.0% 90.7%
5064549 304.109.1.0 a+b two layers › Alpha-beta plaits › Ribosomal proteins S24e, L23 and L15e › Ribosomal proteins S24e, L23 and L15e 0.63 38.0 3.95e-01 87.5% 63.3%
3331686 304.109.1.4 a+b two layers › Alpha-beta plaits › Ribosomal proteins S24e, L23 and L15e › Ribosomal proteins S24e, L23 and L15e › Ribosomal_S24e 0.63 39.0 4.02e-01 86.5% 65.6%
4937451 304.109.1.0 a+b two layers › Alpha-beta plaits › Ribosomal proteins S24e, L23 and L15e › Ribosomal proteins S24e, L23 and L15e 0.63 41.0 4.62e-01 84.4% 90.0%
4391290 304.8.1.5 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › NIL 0.62 41.0 4.53e-01 100.0% 86.7%
4928686 304.8.1.0 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.62 47.0 4.87e-01 100.0% 85.6%
1117873 310.3.1.5 a+b two layers › RRF/tRNA synthetase additional domain-like › General secretion pathway protein M (EpsM) periplasmic domain-related › General secretion pathway protein M (EpsM) periplasmic domain-related › PilN_bio_d 0.62 39.0 3.74e-01 90.6% 55.0%
3999411 389.1.1.0 few secondary structure elements › EGF-like › EGF-related › EGF/Laminin 0.62 36.0 4.33e-01 89.6% 91.7%
2846995 304.12.1.1 a+b two layers › Alpha-beta plaits › Ribosomal protein S6 › Ribosomal protein S6 › Ribosomal_S6 0.61 47.0 4.78e-01 100.0% 84.9%
3928933 304.18.1.0 a+b two layers › Alpha-beta plaits › Anticodon-binding domain of PheRS › Anticodon-binding domain of PheRS 0.61 48.0 4.98e-01 100.0% 91.1%
3993066 387.1.1.39 few secondary structure elements › omega toxin-like › omega toxin-related › omega toxin-related › TIL_2 0.61 36.0 3.95e-01 88.5% 71.2%
3998555 327.11.2.6 a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) › KH_10 0.59 44.0 4.70e-01 100.0% 93.8%
4951255 304.8.1.0 a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.59 40.0 4.44e-01 100.0% 95.7%
5023975 242.1.1.7 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_3 0.59 44.0 4.03e-01 94.8% 60.0%
4111686 327.11.2.1 a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) › KH_1 0.59 40.0 3.91e-01 100.0% 62.7%
3755849 1036.1.1.1 a+b two layers › 60S ribosomal export protein NMD3 a+b domain › 60S ribosomal export protein NMD3 a+b domain › 60S ribosomal export protein NMD3 a+b domain › NMD3 0.59 38.0 3.60e-01 100.0% 54.8%
4028735 304.18.1.1 a+b two layers › Alpha-beta plaits › Anticodon-binding domain of PheRS › Anticodon-binding domain of PheRS › FDX-ACB 0.59 47.0 4.67e-01 100.0% 84.0%
3615945 304.18.1.1 a+b two layers › Alpha-beta plaits › Anticodon-binding domain of PheRS › Anticodon-binding domain of PheRS › FDX-ACB 0.58 50.0 5.07e-01 100.0% 96.8%
5039399 304.114.1.0 a+b two layers › Alpha-beta plaits › Family B DNA polymerase insertion domain › Family B DNA polymerase insertion domain 0.58 41.0 4.45e-01 99.0% 88.7%
4950064 327.16.1.22 a+b two layers › Alpha-lytic protease prodomain-like › Ring-building motif II in type III secretion system › Ring-building motif II in type III secretion system › PF27275 0.57 37.0 4.13e-01 100.0% 90.0%
3234180 327.11.2.10 a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) › KH-I_CeGLD3_rpt3 0.56 41.0 4.47e-01 100.0% 91.3%
5070158 2484.1.1.34 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DNA_pol_B_exo1 0.56 40.0 2.77e-01 100.0% 21.2%
3679896 327.11.2.1 a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) › KH_1 0.56 40.0 4.18e-01 100.0% 85.7%
3970675 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.56 39.0 3.15e-01 87.5% 38.3%
3897523 304.12.1.0 a+b two layers › Alpha-beta plaits › Ribosomal protein S6 › Ribosomal protein S6 0.56 48.0 4.50e-01 100.0% 75.8%
5022358 242.1.1.7 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_3 0.55 41.0 3.94e-01 97.9% 67.0%
4941329 242.1.1.7 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases › LAGLIDADG_3 0.55 36.0 3.61e-01 94.8% 64.0%
3224729 1.1.7.0 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.55 36.0 3.71e-01 85.4% 68.4%
5047792 304.4.1.0 a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.54 40.0 3.95e-01 100.0% 72.4%
2716980 11.1.1.96 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › C1-set 0.54 41.0 3.95e-01 100.0% 69.9%
3784198 304.114.1.0 a+b two layers › Alpha-beta plaits › Family B DNA polymerase insertion domain › Family B DNA polymerase insertion domain 0.54 48.0 4.69e-01 100.0% 90.5%
3633027 304.57.1.2 a+b two layers › Alpha-beta plaits › Rpp14/Pop5-like › Rpp14/Pop5-like › Pop8 0.54 48.0 4.51e-01 100.0% 82.5%
1824495 2484.1.1.61 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › PilM_2 0.53 35.0 2.93e-01 88.5% 35.9%
3485859 304.47.1.1 a+b two layers › Alpha-beta plaits › SEA domain › SEA domain › SEA 0.53 48.0 4.33e-01 100.0% 96.9%
3377143 304.166.1.3 a+b two layers › Alpha-beta plaits › Nup54 ferredoxin-like domain › Nup54 ferredoxin-like domain › DUF7036 0.53 48.0 4.54e-01 99.0% 88.7%
3997936 327.11.2.0 a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Eukaryotic type KH-domain (KH-domain type I) 0.53 38.0 4.13e-01 99.0% 96.0%
4879057 11.1.1.128 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › DUF1968 0.53 36.0 3.83e-01 100.0% 81.7%
3990850 389.4.1.7 few secondary structure elements › EGF-like › Fibulin-4 EGF-like 1 domain › Fibulin-4 EGF-like 1 domain › TIL_2 0.53 33.0 3.74e-01 88.5% 90.8%
3709816 306.5.1.0 a+b two layers › Glucose permease domain IIB-like › GTP cyclohydrolase I feedback regulatory protein, GFRP › GTP cyclohydrolase I feedback regulatory protein, GFRP 0.53 42.0 3.95e-01 85.4% 100.0%
1780607 304.25.1.1 a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer 0.52 46.0 4.34e-01 100.0% 82.6%
4978111 242.1.1.0 a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases 0.51 38.0 3.37e-01 99.0% 52.4%
3973696 1.1.7.0 beta barrels › cradle loop barrel › RIFT-related › Alanine racemase-C 0.51 40.0 3.75e-01 97.9% 66.4%
3605297 306.10.1.0 a+b two layers › Glucose permease domain IIB-like › H1 domain of KCTD12 › H1 domain of KCTD12 0.51 40.0 3.71e-01 86.5% 100.0%
4025669 304.4.1.0 a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.51 38.0 3.96e-01 100.0% 87.8%
3392505 11.1.1.633 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › KIAA0319 0.50 43.0 4.03e-01 100.0% 75.8%
3700065 304.49.1.0 a+b two layers › Alpha-beta plaits › TRADD, N-terminal domain/Dystroglycan, domain 2 › TRADD, N-terminal domain/Dystroglycan, domain 2 0.50 45.0 4.33e-01 100.0% 91.8%
4025670 304.4.1.0 a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.50 42.0 3.94e-01 100.0% 75.0%