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SR-VP_0-2_scaffold_141_2510002_prodigal-single.1__X__X__00202

Bact-Vir

SR-VP_0-2_scaffold_141_2510002_prodigal-single.1__X__X__00202

Identity

Kingdom:
phage

Quality

87.5 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 2-73
PDB
Domain cluster: representative
CATH (35)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3cyjA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.69 60.0 5.05e-01 98.6% 87.7%
3ik4B01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.67 58.0 5.00e-01 98.6% 92.4%
2chrA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.67 57.0 4.87e-01 100.0% 87.4%
3wyfE00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.64 42.0 3.44e-01 87.5% 35.2%
3ijlA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.63 55.0 4.80e-01 97.2% 93.5%
2pgeA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.62 52.0 4.44e-01 97.2% 99.2%
3fzxA00 2.40.360.20 Mainly Beta › Beta Barrel › YmcC-like fold › 0.61 49.0 3.60e-01 91.7% 33.0%
2v14A00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.60 52.0 4.27e-01 97.2% 97.8%
1xteA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.60 51.0 4.45e-01 98.6% 97.4%
1ocsA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.59 50.0 4.22e-01 98.6% 93.9%
2dixA01 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.58 44.0 4.35e-01 84.7% 76.9%
1yb3A00 3.30.930.10 Alpha Beta › 2-Layer Sandwich › BirA Bifunctional Protein; domain 2 › Bira Bifunctional Protein; Domain 2 0.58 45.0 3.41e-01 83.3% 60.0%
7mwzD01 3.40.50.12100 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Stimulator of interferon genes protein 0.57 46.0 3.49e-01 90.3% 66.1%
4p2iA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.57 48.0 4.23e-01 100.0% 99.1%
2i4kA00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.57 48.0 4.06e-01 98.6% 99.2%
2lnjA00 3.40.1000.10 Alpha Beta › 3-Layer(aba) Sandwich › Protein Transport Mog1p; Chain A › Mog1/PsbP, alpha/beta/alpha sandwich 0.56 44.0 3.45e-01 90.3% 88.8%
1cx8A01 3.40.630.10 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Zn peptidases 0.56 46.0 3.18e-01 100.0% 56.0%
1imuA00 3.30.160.100 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Ribosome hibernation promotion factor-like 0.54 40.0 3.60e-01 81.9% 57.9%
4dduA07 2.60.510.20 Mainly Beta › Sandwich › EV matrix protein fold › 0.54 45.0 4.00e-01 94.4% 82.2%
2rajA02 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.54 44.0 3.86e-01 100.0% 88.1%
2gtlO02 2.40.128.620 Mainly Beta › Beta Barrel › Lipocalin › 0.53 40.0 3.23e-01 84.7% 60.7%
2vqeE01 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.53 41.0 4.26e-01 97.2% 98.4%
2rfrA00 3.10.450.50 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.53 38.0 3.05e-01 76.4% 39.6%
3ub1D02 3.10.450.540 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.53 36.0 3.15e-01 77.8% 43.9%
1whqA01 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.53 41.0 4.13e-01 94.4% 88.7%
3iq2A00 3.30.1520.10 Alpha Beta › 2-Layer Sandwich › PX Domain › Phox-like domain 0.53 39.0 3.39e-01 81.9% 87.8%
3htxA01 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.52 43.0 4.29e-01 97.2% 88.2%
2n3gA00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.52 39.0 3.96e-01 90.3% 83.3%
2l2nA00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.52 41.0 4.16e-01 94.4% 88.7%
2xzmE01 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.52 43.0 3.82e-01 100.0% 67.2%
7r97A02 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.51 39.0 3.96e-01 91.7% 89.7%
3of6E00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 39.0 3.58e-01 87.5% 93.3%
4aeeA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 40.0 3.63e-01 84.7% 86.6%
1gesA03 3.30.390.30 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › FAD/NAD-linked reductase, C-terminal dimerisation domain 0.51 41.0 3.62e-01 93.1% 86.7%
5nj5A01 3.30.2290.10 Alpha Beta › 2-Layer Sandwich › PmbA/TldD fold › PmbA/TldD superfamily 0.50 39.0 2.88e-01 90.3% 37.7%
ECOD (60)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3225458 277.1.1.1 a+b two layers › PX domain › PX domain › PX domain › PX 0.63 56.0 4.37e-01 100.0% 88.4%
3460645 4177.1.1.0 alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like 0.61 53.0 3.36e-01 98.6% 32.6%
3626463 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.60 50.0 3.51e-01 95.8% 68.2%
3800321 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.59 51.0 3.76e-01 98.6% 88.0%
3502587 2484.1.1.9 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › rve 0.59 45.0 4.09e-01 86.1% 65.7%
3871082 277.1.1.1 a+b two layers › PX domain › PX domain › PX domain › PX 0.59 42.0 3.36e-01 76.4% 81.3%
3738197 277.1.1.1 a+b two layers › PX domain › PX domain › PX domain › PX 0.58 48.0 3.83e-01 98.6% 85.5%
4943023 10.1.2.0 beta sandwiches › jelly-roll › Concanavalin A-like › GOLD domain-like (DEPRECATED) 0.58 44.0 3.74e-01 86.1% 95.4%
3266842 277.1.1.1 a+b two layers › PX domain › PX domain › PX domain › PX 0.58 50.0 4.19e-01 98.6% 90.4%
3291354 243.1.1.26 a+b two layers › Cystatin-like › NTF2-like › NTF2-like › SnoaL_4 0.57 46.0 3.43e-01 88.9% 83.7%
3514575 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.57 45.0 4.05e-01 88.9% 87.6%
3911618 277.1.1.1 a+b two layers › PX domain › PX domain › PX domain › PX 0.57 48.0 3.78e-01 100.0% 81.7%
3663237 330.1.1.0 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.57 47.0 4.56e-01 93.1% 86.3%
3863194 277.1.1.1 a+b two layers › PX domain › PX domain › PX domain › PX 0.56 47.0 3.96e-01 97.2% 91.5%
3456246 330.1.1.19 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › DSRM_2 0.56 45.0 4.31e-01 93.1% 80.0%
4946190 243.3.1.0 a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.56 41.0 3.75e-01 90.3% 57.1%
3711119 331.9.1.0 a+b two layers › TBP-like › Subdomain of clathrin and coatomer appendage domain › Subdomain of clathrin and coatomer appendage domain 0.55 38.0 3.24e-01 70.8% 92.2%
3593482 2.1.1.135 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › DUF3592 0.55 47.0 4.29e-01 97.2% 92.0%
3727458 330.1.1.0 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.55 46.0 4.46e-01 98.6% 84.7%
3630103 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.55 47.0 3.97e-01 98.6% 75.4%
3805100 881.1.1.1 a+b three layers › Mog1p/PsbP-like › Mog1p/PsbP-like › Mog1p/PsbP-like › PsbP 0.55 44.0 3.32e-01 90.3% 92.0%
3518995 2484.1.1.0 mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.55 46.0 3.55e-01 95.8% 92.6%
3774525 277.1.1.1 a+b two layers › PX domain › PX domain › PX domain › PX 0.55 46.0 3.57e-01 100.0% 70.6%
4106730 264.2.1.1 beta barrels › LigT-like › Prokaryotic type I DNA topoisomerase beta-barrel domain › Prokaryotic type I DNA topoisomerase beta-barrel domain › Topoisom_bac 0.55 45.0 3.77e-01 94.4% 87.4%
5055109 512.1.1.0 a+b two layers › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) 0.55 42.0 4.00e-01 87.5% 81.1%
5036880 330.1.1.35 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › LeuA_dimer 0.54 39.0 3.98e-01 79.2% 90.0%
3388351 7503.1.1.23 a/b three-layered sandwiches › TolB, N-terminal domain › TolB, N-terminal domain › TolB, N-terminal domain › PF28194 0.54 41.0 3.22e-01 86.1% 45.4%
5011932 330.2.1.5 a+b two layers › dsRBD-like › Ribosome binding protein Y (YfiA homologue) › Ribosome binding protein Y (YfiA homologue) › PF29181 0.54 42.0 3.82e-01 91.7% 61.0%
4609098 330.6.1.1 a+b two layers › dsRBD-like › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain › LeuA_dimer 0.54 39.0 3.34e-01 81.9% 48.9%
5071146 330.2.1.5 a+b two layers › dsRBD-like › Ribosome binding protein Y (YfiA homologue) › Ribosome binding protein Y (YfiA homologue) › PF29181 0.54 43.0 3.98e-01 94.4% 67.0%
3369111 330.1.1.1 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.53 41.0 3.94e-01 91.7% 72.9%
3449957 330.1.1.1 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.53 42.0 3.89e-01 94.4% 66.3%
3245175 330.1.1.1 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.53 43.0 3.95e-01 93.1% 68.4%
4304505 330.6.1.1 a+b two layers › dsRBD-like › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain › LeuA_dimer 0.53 40.0 3.42e-01 93.1% 46.9%
4939419 512.1.1.1 a+b two layers › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › PmbA_TldD_1st 0.53 41.0 3.99e-01 90.3% 85.9%
4976982 330.6.1.0 a+b two layers › dsRBD-like › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain 0.53 38.0 3.39e-01 88.9% 50.9%
3480250 330.1.1.1 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.53 40.0 3.80e-01 94.4% 67.8%
4978348 512.1.1.0 a+b two layers › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) 0.53 40.0 3.84e-01 84.7% 82.4%
4507935 330.6.1.1 a+b two layers › dsRBD-like › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain › LeuA_dimer 0.53 41.0 3.57e-01 90.3% 92.7%
5045089 330.2.1.5 a+b two layers › dsRBD-like › Ribosome binding protein Y (YfiA homologue) › Ribosome binding protein Y (YfiA homologue) › PF29181 0.52 43.0 3.91e-01 95.8% 67.0%
4391625 330.6.1.1 a+b two layers › dsRBD-like › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain › LeuA_dimer 0.52 40.0 3.57e-01 86.1% 100.0%
3958972 512.1.1.0 a+b two layers › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) 0.52 42.0 3.96e-01 94.4% 76.8%
3184113 318.1.1.0 a+b two layers › Ribosomal protein L6 › Ribosomal protein L6 › Ribosomal protein L6 0.52 45.0 4.09e-01 100.0% 88.0%
5066760 330.6.1.1 a+b two layers › dsRBD-like › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain › LeuA_dimer 0.52 39.0 3.41e-01 94.4% 50.0%
3409973 330.1.1.1 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.52 41.0 4.08e-01 93.1% 85.3%
3329514 330.1.1.1 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.51 40.0 3.89e-01 93.1% 77.5%
4245955 330.6.1.1 a+b two layers › dsRBD-like › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain › LeuA_dimer 0.51 38.0 3.30e-01 91.7% 46.2%
4993469 243.3.1.0 a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.51 37.0 3.62e-01 94.4% 71.2%
4667824 330.6.1.1 a+b two layers › dsRBD-like › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain › LeuA_dimer 0.51 40.0 3.45e-01 90.3% 91.1%
4994509 512.1.1.1 a+b two layers › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › PmbA_TldD_1st 0.51 41.0 3.97e-01 94.4% 84.7%
4579550 330.6.1.1 a+b two layers › dsRBD-like › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain › LeuA_dimer 0.51 39.0 3.34e-01 87.5% 90.0%
4970559 330.2.1.5 a+b two layers › dsRBD-like › Ribosome binding protein Y (YfiA homologue) › Ribosome binding protein Y (YfiA homologue) › PF29181 0.51 39.0 3.66e-01 91.7% 65.0%
3585171 330.1.1.5 a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › DND1_DSRM 0.51 42.0 4.01e-01 94.4% 80.0%
4979863 512.1.1.1 a+b two layers › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › PmbA_TldD_1st 0.51 40.0 3.84e-01 93.1% 78.9%
3956483 512.1.1.1 a+b two layers › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › PmbA_TldD_1st 0.51 42.0 3.68e-01 98.6% 67.5%
5002173 2.1.1.0 beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.50 42.0 3.98e-01 97.2% 82.2%
4393122 330.6.1.1 a+b two layers › dsRBD-like › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain › LeuA_dimer 0.50 39.0 3.35e-01 95.8% 50.4%
5071836 512.1.1.1 a+b two layers › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › a+b domain in putative modulator of DNA gyrase, PmbA/TldD (Pfam 01523) › PmbA_TldD_1st 0.50 40.0 3.79e-01 91.7% 82.2%
4240105 330.6.1.1 a+b two layers › dsRBD-like › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain › LeuA_dimer 0.50 40.0 3.53e-01 90.3% 97.4%
4124320 330.6.1.1 a+b two layers › dsRBD-like › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain › LeuA_dimer 0.50 40.0 3.38e-01 90.3% 86.9%