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NC_011421.1__YP_002300460.1__SPO1_189__00184

Bact-Vir

NC_011421.1__YP_002300460.1__SPO1_189__00184

Identity

Accession:
NC_011421 ↗
Kingdom:
phage

Quality

78.7 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 medium residues 1-43
PDB
Domain cluster: representative
CATH (31)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3m7nA03 2.20.70.10 Mainly Beta › Single Sheet › Ubiquitin Ligase Nedd4; Chain: W; › 0.81 55.0 6.04e-01 76.7% 91.2%
4esjA01 3.40.210.30 Alpha Beta › 3-Layer(aba) Sandwich › PvuII Endonuclease; Chain A › Dam replacing family, catalytic PD-(D/E)XK domain 0.76 66.0 4.46e-01 97.7% 94.9%
1pg5B02 2.30.30.20 Mainly Beta › Roll › SH3 type barrels. › Aspartate carbamoyltransferase regulatory subunit, C-terminal domain 0.75 60.0 5.51e-01 90.7% 89.5%
2nutA02 2.30.30.380 Mainly Beta › Roll › SH3 type barrels. › Zn-finger domain of Sec23/24 0.75 58.0 5.22e-01 86.0% 67.2%
1jj2Y00 2.20.25.30 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › 0.74 61.0 5.16e-01 95.3% 65.8%
2nutB02 2.30.30.380 Mainly Beta › Roll › SH3 type barrels. › Zn-finger domain of Sec23/24 0.73 57.0 5.09e-01 86.0% 62.9%
1m2vB03 2.30.30.380 Mainly Beta › Roll › SH3 type barrels. › Zn-finger domain of Sec23/24 0.73 57.0 5.07e-01 86.0% 66.1%
2aklA01 2.20.25.10 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › 0.73 54.0 5.41e-01 86.0% 81.4%
4ifdI02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.73 53.0 3.63e-01 79.1% 86.1%
3u50C02 2.20.25.10 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › 0.71 50.0 5.28e-01 86.0% 94.3%
2atcB02 2.30.30.20 Mainly Beta › Roll › SH3 type barrels. › Aspartate carbamoyltransferase regulatory subunit, C-terminal domain 0.70 55.0 5.22e-01 90.7% 94.2%
2de6A03 2.20.25.10 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › 0.69 50.0 4.71e-01 81.4% 98.2%
3k8rA01 3.30.2020.40 Alpha Beta › 2-Layer Sandwich › NE0471 N-terminal domain-like › Uncharacterised protein PF10387, DUF2442 0.67 49.0 4.37e-01 83.7% 79.4%
1vwxp00 2.20.25.30 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › 0.66 54.0 4.37e-01 97.7% 56.0%
6nw1A00 2.20.28.10 Mainly Beta › Single Sheet › Rubrerythrin, domain 2 › 0.62 49.0 4.83e-01 86.0% 97.8%
2xzm901 6.20.50.180 Special › Other non-globular › N-terminal domain of TfIIb › 0.62 46.0 3.99e-01 86.0% 50.0%
7cymA02 2.60.40.60 Mainly Beta › Sandwich › Immunoglobulin-like › Cadherins 0.62 47.0 3.55e-01 86.0% 80.2%
2yuuA00 3.30.60.20 Alpha Beta › 2-Layer Sandwich › Wheat Germ Agglutinin (Isolectin 2); domain 1 › 0.62 46.0 3.78e-01 83.7% 60.2%
2pziB02 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.61 51.0 3.63e-01 100.0% 90.3%
2y8nB01 2.20.70.100 Mainly Beta › Single Sheet › Ubiquitin Ligase Nedd4; Chain: W; › 0.61 43.0 4.39e-01 83.7% 81.0%
1nuiA01 2.20.25.10 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › 0.59 43.0 4.34e-01 81.4% 81.4%
4ba0A03 2.60.40.1180 Mainly Beta › Sandwich › Immunoglobulin-like › Golgi alpha-mannosidase II 0.59 33.0 3.19e-01 83.7% 45.1%
2nqlA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.58 40.0 2.78e-01 79.1% 18.5%
2cjgA01 3.90.1150.10 Alpha Beta › Alpha-Beta Complex › Aspartate Aminotransferase, domain 1 › Aspartate Aminotransferase, domain 1 0.58 46.0 3.26e-01 93.0% 70.1%
2kvaA01 2.70.130.10 Mainly Beta › Distorted Sandwich › Cation-dependent Mannose-6-phosphate Receptor; Chain A › Mannose-6-phosphate receptor binding domain 0.58 43.0 3.16e-01 88.4% 85.1%
3hfnA00 2.30.30.100 Mainly Beta › Roll › SH3 type barrels. › 0.58 43.0 4.02e-01 86.0% 81.7%
3mhsA01 3.30.40.10 Alpha Beta › 2-Layer Sandwich › Herpes Virus-1 › Zinc/RING finger domain, C3HC4 (zinc finger) 0.57 42.0 3.19e-01 86.0% 96.1%
2jgdA03 3.40.50.12470 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.57 46.0 2.93e-01 97.7% 37.4%
2ia1A01 3.30.500.20 Alpha Beta › 2-Layer Sandwich › Murine Class I Major Histocompatibility Complex, H2-DB; Chain A, domain 1 › BH3703-like domains 0.56 44.0 3.30e-01 93.0% 42.0%
7uzsX02 3.90.260.10 Alpha Beta › Alpha-Beta Complex › Coagulation Factor XIII; Chain A, domain 2 › Transglutaminase-like 0.55 45.0 2.78e-01 97.7% 89.3%
1fjrA02 2.170.180.11 Mainly Beta › Beta Complex › Methuselah ectodomain, domain 2 › Methuselah ectodomain, domain 2 0.51 39.0 2.93e-01 86.0% 71.2%
ECOD (77)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4255854 4294.1.1.8 few secondary structure elements › Trm112p-like › Trm112p-like › Trm112p-like › PF27112 0.87 62.0 5.95e-01 76.7% 72.0%
4943890 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.87 65.0 4.39e-01 79.1% 81.5%
4976822 2.1.1.7 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › S1 0.85 63.0 4.41e-01 79.1% 88.0%
5027082 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.83 62.0 4.31e-01 79.1% 87.2%
4975267 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.82 58.0 5.96e-01 81.4% 80.0%
4945128 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.82 61.0 6.59e-01 79.1% 97.1%
4977601 375.1.1.13 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Ribosomal_L37ae 0.80 58.0 4.52e-01 81.4% 36.7%
5020293 375.1.1.19 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › RNA_POL_M_15KD 0.80 55.0 5.51e-01 79.1% 71.1%
3498209 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.78 58.0 5.03e-01 79.1% 54.7%
3603682 2484.1.1.211 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › OrfB_IS605, Cas12f1-like_TNB 0.78 63.0 3.94e-01 90.7% 18.7%
5075189 2484.1.1.302 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Cas12f1-like_TNB 0.77 61.0 3.95e-01 90.7% 43.4%
4932429 375.1.1.13 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Ribosomal_L37ae 0.77 58.0 5.17e-01 83.7% 63.5%
4978303 375.10.1.0 few secondary structure elements › Rubredoxin-like › Zinc finger domain of DNA polymerase-alpha › Zinc finger domain of DNA polymerase-alpha 0.77 65.0 5.99e-01 95.3% 78.2%
4122844 375.1.1.213 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Zn_ribbon_TiaS 0.76 60.0 6.17e-01 83.7% 90.0%
4943013 375.1.1.13 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Ribosomal_L37ae 0.76 64.0 5.15e-01 100.0% 61.1%
4946534 2484.1.1.302 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Cas12f1-like_TNB 0.75 60.0 3.71e-01 90.7% 36.2%
4943069 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.75 60.0 4.20e-01 90.7% 30.0%
4962086 375.1.1.19 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › RNA_POL_M_15KD 0.75 53.0 5.50e-01 81.4% 82.5%
5047885 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.75 55.0 5.44e-01 81.4% 75.6%
3606741 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.74 55.0 5.99e-01 79.1% 97.1%
4187442 375.1.1.76 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › zf-RRN7 0.74 53.0 5.61e-01 76.7% 94.3%
3514931 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.74 57.0 5.90e-01 88.4% 90.0%
3366361 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.74 54.0 5.62e-01 86.0% 87.5%
5028391 375.1.1.13 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Ribosomal_L37ae 0.74 62.0 4.90e-01 97.7% 54.8%
4995783 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.73 57.0 5.90e-01 86.0% 92.5%
5025770 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.73 58.0 5.62e-01 90.7% 80.0%
3506351 375.1.1.44 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › zf-NADH-PPase 0.73 54.0 5.71e-01 88.4% 100.0%
4991529 375.1.3.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Hypothetical protein MTH1184 0.73 57.0 5.11e-01 86.0% 61.7%
5042912 375.1.1.13 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Ribosomal_L37ae 0.72 61.0 5.04e-01 97.7% 63.7%
2642976 375.1.1.206 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Ribosomal_L37ae, Zn_ribbon_IS1595 0.72 61.0 4.94e-01 97.7% 60.7%
4168580 375.1.1.205 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › DUF2614 0.72 50.0 4.99e-01 79.1% 71.1%
4040325 375.4.1.2 few secondary structure elements › Rubredoxin-like › Nucleolar RNA-binding protein Nop10-like › Nucleolar RNA-binding protein Nop10-like › DUF2614 0.72 50.0 5.16e-01 79.1% 80.0%
3678606 375.1.1.212 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Zn_ribbon_FGT1_2 0.72 54.0 5.83e-01 86.0% 100.0%
3436005 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.72 54.0 4.80e-01 83.7% 55.4%
4960851 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.72 54.0 5.88e-01 86.0% 100.0%
3786601 375.1.1.200 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › zf-LSD1 0.71 54.0 5.88e-01 81.4% 100.0%
3717004 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.71 61.0 5.24e-01 93.0% 90.8%
4941648 2484.1.1.302 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Cas12f1-like_TNB 0.71 56.0 3.69e-01 90.7% 22.1%
5041477 375.1.3.3 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Hypothetical protein MTH1184 › DUF5817 0.71 56.0 4.99e-01 86.0% 61.7%
5044642 2484.1.1.302 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Cas12f1-like_TNB 0.71 57.0 3.53e-01 90.7% 16.5%
3992738 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.71 54.0 5.38e-01 88.4% 80.0%
4943268 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.71 59.0 4.84e-01 97.7% 60.0%
3517444 375.10.1.0 few secondary structure elements › Rubredoxin-like › Zinc finger domain of DNA polymerase-alpha › Zinc finger domain of DNA polymerase-alpha 0.71 57.0 4.98e-01 93.0% 75.0%
3656347 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.71 51.0 5.46e-01 79.1% 94.3%
1442764 375.1.1.13 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Ribosomal_L37ae 0.71 58.0 4.54e-01 97.7% 50.0%
3825063 1067.1.1.0 few secondary structure elements › pheromone Ep-1 › pheromone Ep-1 › pheromone Ep-1 0.70 53.0 5.67e-01 88.4% 100.0%
4992438 2484.1.1.302 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Cas12f1-like_TNB 0.70 56.0 3.82e-01 93.0% 26.7%
5004517 2484.1.1.302 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Cas12f1-like_TNB 0.70 57.0 3.66e-01 90.7% 20.5%
5075187 375.1.3.1 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Hypothetical protein MTH1184 › DUF1922 0.70 52.0 4.69e-01 86.0% 58.3%
1949611 375.1.1.13 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Ribosomal_L37ae 0.70 57.0 4.59e-01 97.7% 56.0%
3362800 375.1.1.193 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Zn_ribbon_FGT1_1 0.69 53.0 5.26e-01 86.0% 80.0%
4282792 375.1.1.44 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › zf-NADH-PPase 0.69 50.0 5.33e-01 79.1% 97.1%
3507653 375.4.1.0 few secondary structure elements › Rubredoxin-like › Nucleolar RNA-binding protein Nop10-like › Nucleolar RNA-binding protein Nop10-like 0.68 53.0 3.53e-01 83.7% 22.1%
4439164 2004.1.1.0 a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.68 54.0 3.40e-01 93.0% 16.1%
3168651 375.1.1.19 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › RNA_POL_M_15KD 0.68 52.0 5.04e-01 86.0% 78.0%
4465307 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.68 54.0 5.12e-01 86.0% 76.0%
4999482 2484.1.1.302 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Cas12f1-like_TNB 0.67 54.0 3.46e-01 88.4% 18.1%
5073392 606.1.1.0 alpha complex topology › Nop N-terminal domain › Nop N-terminal domain › Nop N-terminal domain 0.67 48.0 3.74e-01 76.7% 89.5%
5055298 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.67 47.0 4.35e-01 76.7% 61.7%
3867531 376.1.2.0 few secondary structure elements › RING/U-box-like › RING/U-box-like › Cysteine-rich domain 0.67 47.0 3.82e-01 72.1% 61.3%
3689283 376.1.1.37 few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box › SLX1_C 0.67 54.0 4.39e-01 97.7% 71.0%
4202634 375.1.1.11 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › Ribosomal_S27 0.66 48.0 4.41e-01 79.1% 56.7%
4929702 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.66 52.0 4.99e-01 88.4% 80.0%
4056467 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.65 52.0 4.79e-01 95.3% 68.3%
3805321 376.1.2.2 few secondary structure elements › RING/U-box-like › RING/U-box-like › Cysteine-rich domain › C1_2 0.65 48.0 4.48e-01 88.4% 100.0%
3980811 375.1.1.60 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › PriA_CRR 0.65 51.0 4.71e-01 95.3% 78.3%
5056342 2.1.1.15 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › tRNA_anti-codon 0.64 47.0 3.24e-01 86.0% 21.3%
4979347 375.1.3.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Hypothetical protein MTH1184 0.64 49.0 4.25e-01 88.4% 52.9%
3790969 375.4.1.0 few secondary structure elements › Rubredoxin-like › Nucleolar RNA-binding protein Nop10-like › Nucleolar RNA-binding protein Nop10-like 0.64 48.0 4.97e-01 86.0% 100.0%
2800346 375.1.1.0 few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.64 48.0 4.87e-01 83.7% 83.7%
5076006 109.4.1.195 alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_11 0.63 47.0 2.96e-01 86.0% 14.0%
4229239 2484.1.1.85 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RuvC_III 0.62 51.0 3.21e-01 93.0% 32.3%
3484622 386.1.1.1 few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-C2H2 0.61 45.0 3.68e-01 83.7% 42.5%
3324892 386.1.1.71 few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › SURF2 0.57 45.0 3.52e-01 88.4% 41.8%
5010276 101.1.3.0 alpha arrays › HTH › HTH › tetra-helical, LuxR-like 0.55 42.0 3.09e-01 86.0% 75.4%
4278066 386.1.1.1 few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-C2H2 0.55 42.0 3.44e-01 83.7% 50.6%
3899126 386.1.1.0 few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.51 35.0 3.55e-01 76.7% 88.9%