Back to structures

SRR1747040_scaffold_2_curated_closed_complete_prodigal-single.1__X__X__00056

Bact-Vir

SRR1747040_scaffold_2_curated_closed_complete_prodigal-single.1__X__X__00056

Identity

Kingdom:
phage

Quality

73.0 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 3-167
PDB
CATH (14)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3h3mA00 1.20.58.380 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Flagellar protein flit. 0.66 35.0 4.63e-01 84.8% 94.4%
1gvnA00 1.10.8.130 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.65 32.0 4.23e-01 80.0% 87.4%
3l8rA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.64 40.0 5.04e-01 87.9% 100.0%
5tqbB01 1.25.40.10 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › Tetratricopeptide repeat domain 0.64 31.0 2.47e-01 89.1% 22.3%
4k0dA00 1.20.120.1730 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.64 40.0 4.31e-01 93.9% 72.7%
4m70I00 1.20.5.4130 Mainly Alpha › Up-down Bundle › Single alpha-helices involved in coiled-coils or other helix-helix interfaces › 0.59 28.0 3.38e-01 83.6% 66.7%
2odvA01 1.20.58.60 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.58 39.0 4.66e-01 90.3% 100.0%
4hwhE00 1.20.58.120 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › BAG domain 0.57 31.0 4.09e-01 84.2% 98.9%
3swhA01 1.10.357.50 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › 0.55 34.0 3.46e-01 92.1% 61.2%
2yzsA02 1.20.120.920 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › CRISPR-associated endonuclease Cas1, C-terminal domain 0.54 35.0 3.13e-01 80.6% 46.5%
1w07A03 1.20.140.10 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Butyryl-CoA Dehydrogenase, subunit A, domain 3 0.53 38.0 3.84e-01 87.3% 73.2%
1q0gA00 1.20.120.400 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nickel-containing superoxide dismutase 0.53 28.0 3.30e-01 88.5% 72.6%
4cqiA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.52 34.0 4.14e-01 81.8% 100.0%
3f4mA00 1.20.1440.160 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › Tumor necrosis factor alpha-induced protein 8-like 0.50 27.0 2.86e-01 87.9% 57.1%
ECOD (18)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4959549 601.4.1.0 alpha bundles › Four-helical up-and-down bundle › Histidine kinase associated sensor domains › Histidine kinase associated sensor domains 0.62 42.0 4.03e-01 100.0% 59.5%
5038395 601.4.1.0 alpha bundles › Four-helical up-and-down bundle › Histidine kinase associated sensor domains › Histidine kinase associated sensor domains 0.60 38.0 3.99e-01 99.4% 67.7%
3969049 601.4.1.3 alpha bundles › Four-helical up-and-down bundle › Histidine kinase associated sensor domains › Histidine kinase associated sensor domains › 4HB_MCP_1 0.59 40.0 4.06e-01 97.0% 68.5%
4312016 601.4.1.49 alpha bundles › Four-helical up-and-down bundle › Histidine kinase associated sensor domains › Histidine kinase associated sensor domains › TMEM171 0.58 37.0 3.94e-01 88.5% 72.4%
4137048 1075.1.2.0 alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › MacB transmembrane domain 0.58 40.0 3.54e-01 78.8% 47.6%
3377464 3755.3.1.285 alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin › NET2A 0.56 36.0 3.67e-01 99.4% 65.0%
3949246 601.4.1.0 alpha bundles › Four-helical up-and-down bundle › Histidine kinase associated sensor domains › Histidine kinase associated sensor domains 0.56 38.0 3.88e-01 100.0% 69.1%
3948656 601.4.1.2 alpha bundles › Four-helical up-and-down bundle › Histidine kinase associated sensor domains › Histidine kinase associated sensor domains › NIT 0.56 35.0 3.60e-01 90.3% 64.5%
3415708 4177.2.1.1 alpha duplicates or obligate multimers › BAR/IMD domain-like › Inhibitor of kappaB kinase beta dimerization domain › Inhibitor of kappaB kinase beta dimerization domain › TBK1_CCD1 0.56 51.0 4.49e-01 100.0% 85.3%
3904567 4177.1.1.0 alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like 0.55 50.0 4.34e-01 100.0% 88.8%
4941192 3567.1.1.0 a+b duplicates or obligate multimers › MPER trimer › MPER trimer › MPER trimer 0.55 35.0 3.96e-01 95.8% 84.0%
3209845 627.1.1.0 alpha complex topology › VPS9 domain › VPS9 domain › VPS9 domain 0.55 51.0 3.75e-01 98.8% 80.2%
3696555 632.22.1.0 alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.53 48.0 4.70e-01 100.0% 93.0%
None 0.53 40.0 3.74e-01 78.2% 65.4%
5004415 1075.1.2.1 alpha bundles › Type II ABC exporter transmembrane domain fold › Type II ABC exporter transmembrane domain-related › MacB transmembrane domain › FtsX 0.52 39.0 3.73e-01 78.2% 68.5%
3436751 5050.1.1.1 alpha complex topology › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Major facilitator superfamily (MFS) general substrate transporter › Sugar_tr 0.51 37.0 3.36e-01 75.2% 94.3%
3568603 11.1.1.812 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › TM7S3_TM198 0.51 34.0 3.09e-01 91.5% 47.7%
3890423 3758.1.1.0 alpha bundles › Bacterial hemolysins-like › Bacterial hemolysins › Bacterial hemolysins 0.50 39.0 3.29e-01 80.6% 89.5%
D2 high residues 176-247
PDB
Domain cluster: representative
CATH (34)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3erbA02 2.10.70.10 Mainly Beta › Ribbon › Complement Module; domain 1 › Complement Module, domain 1 0.73 57.0 6.12e-01 98.6% 100.0%
6v06A04 2.10.70.10 Mainly Beta › Ribbon › Complement Module; domain 1 › Complement Module, domain 1 0.73 56.0 6.08e-01 100.0% 100.0%
4jguA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.71 55.0 5.08e-01 84.7% 74.7%
2e7cA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.71 55.0 4.98e-01 84.7% 80.0%
2kywA00 3.10.20.320 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Putative peptidoglycan bound protein (lpxtg motif) 0.71 63.0 5.95e-01 100.0% 89.7%
2fcbA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.70 55.0 5.22e-01 86.1% 82.6%
1ly2A02 2.10.70.10 Mainly Beta › Ribbon › Complement Module; domain 1 › Complement Module, domain 1 0.69 53.0 5.68e-01 97.2% 100.0%
2xidA04 2.60.40.1140 Mainly Beta › Sandwich › Immunoglobulin-like › Collagen-binding surface protein Cna, B-type domain 0.69 59.0 5.14e-01 97.2% 98.3%
2wiiC02 2.10.70.10 Mainly Beta › Ribbon › Complement Module; domain 1 › Complement Module, domain 1 0.69 53.0 5.69e-01 98.6% 98.4%
4fqpA03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.69 53.0 4.95e-01 84.7% 82.6%
1ly2A01 2.10.70.10 Mainly Beta › Ribbon › Complement Module; domain 1 › Complement Module, domain 1 0.69 56.0 5.85e-01 100.0% 100.0%
4fomA03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.69 53.0 4.94e-01 84.7% 81.5%
2xrbA04 2.10.70.10 Mainly Beta › Ribbon › Complement Module; domain 1 › Complement Module, domain 1 0.69 54.0 5.71e-01 100.0% 100.0%
6v06A03 2.10.70.10 Mainly Beta › Ribbon › Complement Module; domain 1 › Complement Module, domain 1 0.68 54.0 5.71e-01 98.6% 100.0%
3kxvA01 2.10.70.10 Mainly Beta › Ribbon › Complement Module; domain 1 › Complement Module, domain 1 0.68 46.0 5.18e-01 87.5% 100.0%
4m01A02 3.10.20.320 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Putative peptidoglycan bound protein (lpxtg motif) 0.67 58.0 5.72e-01 95.8% 100.0%
1zjkA01 2.10.70.10 Mainly Beta › Ribbon › Complement Module; domain 1 › Complement Module, domain 1 0.67 57.0 5.83e-01 100.0% 98.5%
2y7qA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.67 52.0 4.90e-01 86.1% 83.1%
2rlqA02 2.10.70.10 Mainly Beta › Ribbon › Complement Module; domain 1 › Complement Module, domain 1 0.67 53.0 5.65e-01 97.2% 100.0%
4igdA01 2.10.70.10 Mainly Beta › Ribbon › Complement Module; domain 1 › Complement Module, domain 1 0.65 55.0 5.70e-01 100.0% 100.0%
7nycC01 2.10.70.10 Mainly Beta › Ribbon › Complement Module; domain 1 › Complement Module, domain 1 0.65 49.0 5.27e-01 98.6% 100.0%
6t8iA01 2.60.40.1740 Mainly Beta › Sandwich › Immunoglobulin-like › hypothetical protein (bacova_03559) 0.65 50.0 4.07e-01 84.7% 81.7%
1hfiA00 2.10.70.10 Mainly Beta › Ribbon › Complement Module; domain 1 › Complement Module, domain 1 0.63 49.0 5.13e-01 98.6% 98.4%
5dzxA02 2.60.40.60 Mainly Beta › Sandwich › Immunoglobulin-like › Cadherins 0.62 47.0 4.23e-01 84.7% 83.2%
2b5iD01 2.10.70.10 Mainly Beta › Ribbon › Complement Module; domain 1 › Complement Module, domain 1 0.61 49.0 5.09e-01 100.0% 98.5%
4n5uA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.61 47.0 4.22e-01 87.5% 79.6%
3o8eB01 2.10.70.10 Mainly Beta › Ribbon › Complement Module; domain 1 › Complement Module, domain 1 0.60 46.0 4.79e-01 97.2% 100.0%
1ok3A01 2.10.70.10 Mainly Beta › Ribbon › Complement Module; domain 1 › Complement Module, domain 1 0.60 46.0 4.85e-01 100.0% 100.0%
1owwA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.58 44.0 4.14e-01 84.7% 83.9%
2rlpA01 2.10.70.10 Mainly Beta › Ribbon › Complement Module; domain 1 › Complement Module, domain 1 0.56 43.0 4.48e-01 100.0% 94.0%
4pbxA04 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 44.0 4.10e-01 87.5% 84.8%
4eoyB00 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.55 47.0 4.01e-01 98.6% 76.4%
7vcrA01 2.60.40.1140 Mainly Beta › Sandwich › Immunoglobulin-like › Collagen-binding surface protein Cna, B-type domain 0.53 44.0 4.01e-01 97.2% 100.0%
4m4pA02 2.60.40.1770 Mainly Beta › Sandwich › Immunoglobulin-like › ephrin a2 ectodomain 0.50 37.0 3.92e-01 95.8% 100.0%
ECOD (36)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4931498 11.1.4.140 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like › Flg_new_2 0.84 77.0 7.27e-01 100.0% 91.8%
4933921 3114.1.1.0 beta sandwiches › Mucin-binding protein domain › Mucin-binding protein domain › Mucin-binding protein domain 0.83 77.0 7.25e-01 100.0% 94.1%
4930763 11.1.4.140 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like › Flg_new_2 0.83 74.0 7.53e-01 98.6% 100.0%
5031778 3114.1.1.6 beta sandwiches › Mucin-binding protein domain › Mucin-binding protein domain › Mucin-binding protein domain › Flg_new_2 0.83 74.0 7.33e-01 100.0% 94.7%
4930762 3114.1.1.6 beta sandwiches › Mucin-binding protein domain › Mucin-binding protein domain › Mucin-binding protein domain › Flg_new_2 0.82 73.0 7.38e-01 97.2% 98.6%
4934581 389.1.2.24 few secondary structure elements › EGF-like › EGF-related › Complement control module/SCR domain › Flg_new_2 0.82 74.0 7.19e-01 100.0% 96.2%
5036399 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.82 74.0 7.53e-01 97.2% 100.0%
5028869 11.1.4.140 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like › Flg_new_2 0.81 72.0 6.95e-01 98.6% 86.3%
4951435 11.1.1.1416 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Flg_new_2 0.81 72.0 7.30e-01 95.8% 100.0%
4955385 11.1.4.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like 0.78 71.0 6.70e-01 100.0% 95.3%
5037628 11.1.4.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like 0.78 68.0 6.60e-01 95.8% 100.0%
4934580 11.1.4.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like 0.78 69.0 6.44e-01 98.6% 98.9%
4927591 11.1.4.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like 0.78 68.0 6.48e-01 97.2% 100.0%
4942978 11.1.4.140 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like › Flg_new_2 0.77 68.0 6.32e-01 98.6% 98.9%
3511410 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.76 67.0 6.26e-01 98.6% 100.0%
5035928 11.1.4.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like 0.75 66.0 6.38e-01 97.2% 100.0%
4186515 3114.1.1.1 beta sandwiches › Mucin-binding protein domain › Mucin-binding protein domain › Mucin-binding protein domain › MucBP 0.72 57.0 6.01e-01 97.2% 96.9%
2085651 389.1.2.1 few secondary structure elements › EGF-like › EGF-related › Complement control module/SCR domain › Sushi 0.69 56.0 5.84e-01 100.0% 98.5%
3549783 389.1.2.1 few secondary structure elements › EGF-like › EGF-related › Complement control module/SCR domain › Sushi 0.68 54.0 5.62e-01 98.6% 95.4%
2429177 389.1.2.1 few secondary structure elements › EGF-like › EGF-related › Complement control module/SCR domain › Sushi 0.67 50.0 5.07e-01 98.6% 80.8%
3626524 389.1.2.1 few secondary structure elements › EGF-like › EGF-related › Complement control module/SCR domain › Sushi 0.67 51.0 5.42e-01 98.6% 100.0%
3576380 389.1.2.1 few secondary structure elements › EGF-like › EGF-related › Complement control module/SCR domain › Sushi 0.67 54.0 5.71e-01 100.0% 98.5%
3619019 389.1.2.1 few secondary structure elements › EGF-like › EGF-related › Complement control module/SCR domain › Sushi 0.66 53.0 5.53e-01 97.2% 96.9%
5078723 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.66 50.0 4.73e-01 84.7% 85.6%
3581302 389.1.2.1 few secondary structure elements › EGF-like › EGF-related › Complement control module/SCR domain › Sushi 0.65 54.0 5.40e-01 100.0% 86.7%
3220947 389.1.2.1 few secondary structure elements › EGF-like › EGF-related › Complement control module/SCR domain › Sushi 0.65 52.0 5.47e-01 100.0% 98.5%
3484643 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.65 51.0 4.44e-01 84.7% 84.5%
4002376 389.1.2.1 few secondary structure elements › EGF-like › EGF-related › Complement control module/SCR domain › Sushi 0.65 53.0 5.57e-01 100.0% 100.0%
5023307 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.65 49.0 4.00e-01 84.7% 68.0%
3899982 389.1.2.1 few secondary structure elements › EGF-like › EGF-related › Complement control module/SCR domain › Sushi 0.65 54.0 5.22e-01 100.0% 82.5%
4004102 389.1.2.0 few secondary structure elements › EGF-like › EGF-related › Complement control module/SCR domain 0.64 49.0 5.24e-01 97.2% 100.0%
3570445 389.1.2.0 few secondary structure elements › EGF-like › EGF-related › Complement control module/SCR domain 0.59 49.0 4.99e-01 97.2% 97.1%
3309890 11.1.4.23 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like › CarboxypepD_reg 0.57 49.0 4.52e-01 98.6% 96.8%
1811351 389.1.2.1 few secondary structure elements › EGF-like › EGF-related › Complement control module/SCR domain › Sushi 0.55 43.0 4.48e-01 100.0% 100.0%
3603165 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.54 38.0 3.32e-01 73.6% 73.0%
2117377 11.1.1.14 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › Glyco_hydro_2 0.53 40.0 3.52e-01 83.3% 85.7%