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NC_054985.1__YP_010080277.1__KMC73_gp56__00056

Bact-Vir

NC_054985.1__YP_010080277.1__KMC73_gp56__00056

Identity

Accession:
NC_054985 ↗
Kingdom:
phage

Quality

84.1 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 6-70
PDB
Domain cluster: representative
CATH (47)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4me3A03 2.20.28.10 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › 0.77 53.0 5.70e-01 72.3% 100.0%
1ltlA03 2.20.28.10 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › 0.71 49.0 5.48e-01 70.8% 98.0%
1cqxA02 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.67 48.0 4.10e-01 78.5% 68.5%
7ylrA01 2.40.30.10 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › Translation factors 0.65 44.0 3.80e-01 70.8% 69.5%
5xyib00 2.20.25.100 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › Ribosomal protein S27 0.65 44.0 4.15e-01 72.3% 69.5%
1qxfA00 2.20.25.100 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › Ribosomal protein S27 0.62 51.0 5.38e-01 95.4% 100.0%
2pn0A02 3.10.50.30 Alpha Beta › Roll › Chitinase A; domain 3 › Transcription elongation factor, GreA/GreB, C-terminal domain 0.62 42.0 3.92e-01 70.8% 86.6%
3r5lA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.61 44.0 3.64e-01 76.9% 53.4%
3s98A02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.61 42.0 3.81e-01 98.5% 51.6%
3lqmA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.60 43.0 3.78e-01 100.0% 49.0%
1aw8B00 2.40.40.20 Mainly Beta › Beta Barrel › Barwin-like endoglucanases › 0.59 41.0 3.71e-01 72.3% 58.2%
2xc8A00 2.60.40.2980 Mainly Beta › Sandwich › Immunoglobulin-like › 0.59 45.0 3.72e-01 100.0% 45.5%
2dm4A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.58 40.0 3.67e-01 100.0% 52.1%
3h96C00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.57 42.0 3.27e-01 76.9% 47.1%
2ww8A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 38.0 3.35e-01 75.4% 44.3%
3un0A00 2.60.200.20 Mainly Beta › Sandwich › Tumour Suppressor Smad4 › 0.56 39.0 3.38e-01 73.8% 97.2%
3qt2B03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 41.0 3.71e-01 100.0% 54.1%
2ed8A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 39.0 3.65e-01 100.0% 57.0%
5mj6A03 2.60.40.1910 Mainly Beta › Sandwich › Immunoglobulin-like › 0.56 39.0 3.69e-01 78.5% 60.0%
4nn5C02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 41.0 3.66e-01 100.0% 53.5%
3bpnC03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 46.0 4.05e-01 100.0% 61.4%
4lsdF00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 40.0 3.54e-01 98.5% 52.0%
3r8qA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 39.0 3.57e-01 100.0% 55.6%
6kryA01 3.10.20.120 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.55 37.0 3.00e-01 72.3% 73.9%
6julA02 3.30.1490.100 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › DNA polymerase, Y-family, little finger domain 0.55 37.0 3.36e-01 72.3% 62.5%
8bs9A01 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.54 39.0 2.58e-01 78.5% 26.7%
2gfoA00 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.54 48.0 3.02e-01 100.0% 35.7%
1gn4A02 3.55.40.20 Alpha Beta › 3-Layer(bab) Sandwich › minor pseudopilin epsh fold › Iron/manganese superoxide dismutase, C-terminal domain 0.54 41.0 3.46e-01 98.5% 47.0%
5chtB00 3.90.70.10 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › Cysteine proteinases 0.54 39.0 2.57e-01 78.5% 27.3%
2jvuA00 2.60.40.2290 Mainly Beta › Sandwich › Immunoglobulin-like › 0.54 41.0 3.70e-01 98.5% 57.1%
4e9kA00 2.60.120.1350 Mainly Beta › Sandwich › Jelly Rolls › Protein of unknown function DUF4465 0.53 38.0 2.65e-01 76.9% 22.9%
2v3sA00 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.53 38.0 3.36e-01 75.4% 100.0%
6hyfA00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.53 39.0 3.39e-01 100.0% 49.1%
3ir9A02 3.30.1330.30 Alpha Beta › 2-Layer Sandwich › 60s Ribosomal Protein L30; Chain: A; › Ribosomal protein L30/S12 0.53 46.0 3.82e-01 100.0% 70.8%
4rdbA01 2.60.40.2580 Mainly Beta › Sandwich › Immunoglobulin-like › 0.53 37.0 2.91e-01 75.4% 39.6%
1c77B00 3.10.20.130 Alpha Beta › Roll › Ubiquitin-like (UB roll) › 0.52 38.0 3.17e-01 80.0% 80.5%
4f07E00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.52 43.0 3.47e-01 100.0% 91.9%
5jpnB04 2.60.120.1540 Mainly Beta › Sandwich › Jelly Rolls › 0.52 36.0 3.02e-01 73.8% 41.3%
3dnhA01 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.52 44.0 3.42e-01 98.5% 41.7%
4ecnA02 2.60.40.3540 Mainly Beta › Sandwich › Immunoglobulin-like › Domain of unknown function DUF4458 0.52 43.0 3.61e-01 98.5% 52.5%
2jqzA00 2.60.40.150 Mainly Beta › Sandwich › Immunoglobulin-like › C2 domain 0.52 44.0 3.60e-01 100.0% 100.0%
1f94A00 2.10.60.10 Mainly Beta › Ribbon › CD59 › CD59 0.51 33.0 3.37e-01 76.9% 66.7%
4ffkA02 3.55.40.20 Alpha Beta › 3-Layer(bab) Sandwich › minor pseudopilin epsh fold › Iron/manganese superoxide dismutase, C-terminal domain 0.51 42.0 3.40e-01 98.5% 47.2%
2q9kA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.51 40.0 3.20e-01 90.8% 78.9%
4fgoA00 3.10.620.30 Alpha Beta › Roll › C8orf32 fold › 0.51 44.0 3.27e-01 100.0% 45.3%
3h20A01 3.30.1490.240 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › RepB DNA-primase, N-terminal domain 0.51 37.0 3.71e-01 98.5% 78.8%
3pftA00 2.30.110.10 Mainly Beta › Roll › Pnp Oxidase; Chain A › Electron Transport, Fmn-binding Protein; Chain A 0.50 42.0 3.29e-01 98.5% 89.7%
ECOD (55)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5077070 375.1.3.1 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Hypothetical protein MTH1184 › DUF1922 0.83 56.0 5.81e-01 73.8% 75.0%
4932189 4076.2.1.6 a+b two layers › L9 N-domain-like › MbtH-like › MbtH-like › DUF1922 0.81 57.0 5.60e-01 75.4% 68.6%
5030549 375.1.3.1 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Hypothetical protein MTH1184 › DUF1922 0.78 53.0 5.74e-01 70.8% 83.6%
5039411 375.1.1.12 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Ribosomal_S27e 0.78 55.0 5.58e-01 73.8% 90.6%
4991529 375.1.3.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Hypothetical protein MTH1184 0.77 54.0 5.60e-01 72.3% 78.3%
5034126 375.1.3.3 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Hypothetical protein MTH1184 › DUF5817 0.77 53.0 5.56e-01 72.3% 78.3%
5078006 375.1.3.1 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Hypothetical protein MTH1184 › DUF1922 0.77 54.0 5.34e-01 73.8% 68.6%
5041477 375.1.3.3 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Hypothetical protein MTH1184 › DUF5817 0.77 53.0 5.54e-01 72.3% 78.3%
4947213 375.1.3.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Hypothetical protein MTH1184 0.77 52.0 5.63e-01 70.8% 83.6%
5030111 375.1.1.12 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Ribosomal_S27e 0.76 53.0 5.42e-01 73.8% 89.1%
4959767 375.1.3.3 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Hypothetical protein MTH1184 › DUF5817 0.76 53.0 5.55e-01 73.8% 80.0%
4970821 375.1.3.1 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Hypothetical protein MTH1184 › DUF1922 0.74 51.0 5.05e-01 73.8% 67.1%
5035944 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.74 51.0 5.36e-01 72.3% 95.0%
5052150 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.73 51.0 5.45e-01 72.3% 98.2%
5060529 375.1.3.3 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Hypothetical protein MTH1184 › DUF5817 0.73 52.0 5.06e-01 73.8% 68.6%
4930203 375.1.1.58 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › MCM_OB 0.72 50.0 5.41e-01 72.3% 94.5%
5015298 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.72 52.0 5.80e-01 98.5% 100.0%
5035898 375.1.3.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Hypothetical protein MTH1184 0.71 51.0 5.30e-01 96.9% 81.7%
2775138 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.69 62.0 4.69e-01 100.0% 48.3%
5078363 2003.1.5.19 a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › TRM 0.69 48.0 2.96e-01 75.4% 12.3%
5061487 301.1.1.2 a+b three layers › Bacillus chorismate mutase-like › L30e-like › L30e-like › eRF1_3 0.66 56.0 4.48e-01 98.5% 60.1%
3607261 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.64 42.0 4.84e-01 72.3% 97.8%
5028854 301.1.1.2 a+b three layers › Bacillus chorismate mutase-like › L30e-like › L30e-like › eRF1_3 0.64 55.0 4.37e-01 98.5% 62.6%
4796557 4012.3.1.0 a+b two layers › SSHS domain › SSHS domain in CRISPR-associated endonuclease Cas9 › SSHS domain in CRISPR-associated endonuclease Cas9 0.62 43.0 4.40e-01 73.8% 88.9%
3235447 821.1.1.8 a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › ANKLE2_3rd 0.61 44.0 4.03e-01 95.4% 55.6%
4956150 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.61 47.0 5.02e-01 100.0% 100.0%
5005235 11.1.4.23 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like › CarboxypepD_reg 0.60 39.0 3.64e-01 73.8% 51.8%
5059037 11.1.4.23 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like › CarboxypepD_reg 0.59 38.0 3.55e-01 73.8% 50.6%
4443488 284.1.1.4 a+b two layers › FKBP-like › FKBP-like › FKBP-like › GreA_GreB 0.59 41.0 3.92e-01 72.3% 93.3%
5041001 11.1.4.23 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like › CarboxypepD_reg 0.59 38.0 3.61e-01 73.8% 53.8%
3698836 3529.1.1.3 beta sandwiches › Major vault protein (MVP) structural repeat domain › Major vault protein (MVP) structural repeat domain › Major vault protein (MVP) structural repeat domain › Vault_3 0.59 42.0 4.13e-01 75.4% 95.7%
3619496 5.1.4.0 beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.58 47.0 3.00e-01 92.3% 35.0%
3868570 3529.1.1.3 beta sandwiches › Major vault protein (MVP) structural repeat domain › Major vault protein (MVP) structural repeat domain › Major vault protein (MVP) structural repeat domain › Vault_3 0.58 42.0 3.64e-01 76.9% 58.0%
5059024 11.1.4.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like 0.58 38.0 3.48e-01 73.8% 48.9%
5070290 301.1.1.2 a+b three layers › Bacillus chorismate mutase-like › L30e-like › L30e-like › eRF1_3 0.58 49.0 4.06e-01 100.0% 64.0%
3467170 821.1.1.1 a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG 0.57 48.0 4.92e-01 100.0% 100.0%
4983067 325.1.7.0 a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif 0.57 41.0 4.59e-01 96.9% 100.0%
4987894 11.1.1.1410 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › CarboxypepD_reg 0.57 38.0 3.62e-01 73.8% 56.2%
3962499 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.57 40.0 3.87e-01 75.4% 72.0%
3595911 3529.1.1.0 beta sandwiches › Major vault protein (MVP) structural repeat domain › Major vault protein (MVP) structural repeat domain › Major vault protein (MVP) structural repeat domain 0.57 38.0 3.79e-01 70.8% 91.4%
5052959 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.56 43.0 4.65e-01 96.9% 100.0%
5071371 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.56 40.0 3.50e-01 78.5% 52.4%
3892161 11.1.1.2 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › fn3 0.55 40.0 3.23e-01 98.5% 39.2%
3597364 4.1.1.0 beta barrels › SH3 › SH3 › SH3 0.55 46.0 2.89e-01 100.0% 17.0%
3615721 3529.1.1.3 beta sandwiches › Major vault protein (MVP) structural repeat domain › Major vault protein (MVP) structural repeat domain › Major vault protein (MVP) structural repeat domain › Vault_3 0.55 39.0 3.49e-01 76.9% 61.1%
3923581 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.54 37.0 3.29e-01 73.8% 49.0%
4947623 268.1.1.0 a+b two layers › Sterol carrier protein-like › Sterol carrier protein, SCP-related › Sterol carrier protein, SCP-related 0.53 38.0 3.31e-01 75.4% 78.0%
4252321 11.1.1.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.53 37.0 3.26e-01 75.4% 56.2%
3515328 10.10.1.0 beta sandwiches › jelly-roll › Lipase/lipooxygenase domain (PLAT/LH2 domain) › Lipase/lipooxygenase domain (PLAT/LH2 domain) 0.53 38.0 3.39e-01 80.0% 61.0%
4239904 284.1.1.4 a+b two layers › FKBP-like › FKBP-like › FKBP-like › GreA_GreB 0.52 46.0 4.21e-01 98.5% 100.0%
3597115 11.10.1.5 beta sandwiches › Immunoglobulin-like beta-sandwich › TRAF domain-like › TRAF domain-like › MATH_2 0.51 36.0 3.05e-01 73.8% 57.4%
3273274 10.2.1.0 beta sandwiches › jelly-roll › Nucleoplasmin-like/VP (viral coat and capsid proteins) › Nucleoplasmin-like/VP (viral coat and capsid proteins) 0.51 42.0 3.08e-01 100.0% 57.7%
3314684 10.10.1.5 beta sandwiches › jelly-roll › Lipase/lipooxygenase domain (PLAT/LH2 domain) › Lipase/lipooxygenase domain (PLAT/LH2 domain) › DUF7755 0.51 37.0 2.88e-01 78.5% 46.5%
5044011 11.1.4.0 beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Prealbumin-like 0.51 34.0 3.34e-01 75.4% 61.3%
3964976 4334.1.1.1 beta complex topology › Inserted beta sandwich domain in Dac-like proteins › Inserted beta sandwich domain in Dac-like proteins › Inserted beta sandwich domain in Dac-like proteins › Peptidase_S13 0.51 39.0 3.66e-01 83.1% 100.0%