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SR-VP_0-2_scaffold_141_4556078_prodigal-single.1__X__X__00454

Bact-Vir

SR-VP_0-2_scaffold_141_4556078_prodigal-single.1__X__X__00454

Identity

Kingdom:
phage

Quality

93.9 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 29-114
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF00188.33 best CAP 47.4 4.70e-12 97.7% 79.8%
CATH (52)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4d53A00 3.40.33.10 Alpha Beta › 3-Layer(aba) Sandwich › Pathogenesis-related Protein p14a › CAP 0.91 86.0 7.26e-01 100.0% 70.7%
4ifaA01 3.40.33.10 Alpha Beta › 3-Layer(aba) Sandwich › Pathogenesis-related Protein p14a › CAP 0.89 86.0 5.72e-01 100.0% 32.6%
5vhgA00 3.40.33.10 Alpha Beta › 3-Layer(aba) Sandwich › Pathogenesis-related Protein p14a › CAP 0.89 85.0 6.79e-01 100.0% 66.0%
4p27A00 3.40.33.10 Alpha Beta › 3-Layer(aba) Sandwich › Pathogenesis-related Protein p14a › CAP 0.83 78.0 6.29e-01 100.0% 61.9%
1cfeA00 3.40.33.10 Alpha Beta › 3-Layer(aba) Sandwich › Pathogenesis-related Protein p14a › CAP 0.78 73.0 6.12e-01 100.0% 70.4%
4bfeA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.70 43.0 4.44e-01 82.6% 65.4%
3bp6B02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.68 45.0 4.50e-01 83.7% 65.9%
7k0xA03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.67 43.0 4.50e-01 82.6% 71.8%
4bfiB02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.66 44.0 4.34e-01 83.7% 64.4%
2vqeC02 3.30.1140.32 Alpha Beta › 2-Layer Sandwich › Ribosomal protein S3 C-terminal domain › Ribosomal protein S3, C-terminal domain 0.63 57.0 5.45e-01 100.0% 89.0%
3tupA02 3.30.70.380 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ferrodoxin-fold anticodon-binding domain 0.62 42.0 4.10e-01 70.9% 62.5%
2k3iA01 3.30.70.860 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.62 41.0 4.21e-01 76.7% 69.4%
4i0kA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.62 44.0 4.25e-01 83.7% 66.3%
4r6uA03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.61 42.0 3.96e-01 82.6% 59.2%
6x4tA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.61 41.0 4.17e-01 81.4% 70.6%
3jamD02 3.30.1140.32 Alpha Beta › 2-Layer Sandwich › Ribosomal protein S3 C-terminal domain › Ribosomal protein S3, C-terminal domain 0.60 54.0 4.70e-01 100.0% 67.7%
2ogkD00 3.30.1440.10 Alpha Beta › 2-Layer Sandwich › 50s Ribosomal Protein L5; Chain: A, › Ribosomal protein L5 0.60 37.0 3.20e-01 70.9% 37.3%
1xuvA00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.59 45.0 3.71e-01 82.6% 77.3%
3ku7A00 3.30.1070.10 Alpha Beta › 2-Layer Sandwich › Cell Cycle; Chain A › Cell division topological specificity factor MinE 0.59 40.0 4.62e-01 74.4% 100.0%
7r3eB02 3.30.450.80 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Transcription factor LuxR-like, autoinducer-binding domain 0.58 46.0 3.73e-01 83.7% 71.2%
1fp5A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.58 43.0 4.16e-01 82.6% 68.0%
7pwfD02 3.30.1140.32 Alpha Beta › 2-Layer Sandwich › Ribosomal protein S3 C-terminal domain › Ribosomal protein S3, C-terminal domain 0.58 52.0 5.17e-01 100.0% 97.8%
1sqeA00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.57 38.0 3.63e-01 70.9% 57.4%
5l09B00 3.30.450.80 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Transcription factor LuxR-like, autoinducer-binding domain 0.57 44.0 3.61e-01 83.7% 73.8%
2yqzA01 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.57 46.0 3.61e-01 89.5% 91.7%
1tz0B00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.57 38.0 3.70e-01 72.1% 60.8%
3duwA00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.57 46.0 3.44e-01 88.4% 97.3%
5ajiB03 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.56 39.0 3.82e-01 72.1% 65.3%
2bjnB00 3.30.1380.20 Alpha Beta › 2-Layer Sandwich › Muramoyl-pentapeptide Carboxypeptidase; domain 2 › Trafficking protein particle complex subunit 3 0.56 40.0 3.44e-01 82.6% 44.6%
3o4oB03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 43.0 4.04e-01 83.7% 68.8%
3ix3A00 3.30.450.80 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Transcription factor LuxR-like, autoinducer-binding domain 0.55 46.0 3.75e-01 90.7% 77.9%
3pcoB06 3.30.70.380 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ferrodoxin-fold anticodon-binding domain 0.55 37.0 3.67e-01 70.9% 63.8%
6cc0A01 3.30.450.80 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Transcription factor LuxR-like, autoinducer-binding domain 0.55 45.0 3.68e-01 90.7% 74.4%
4bbyA05 3.30.300.330 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › 0.55 43.0 4.03e-01 100.0% 68.5%
4djbA00 3.30.70.2870 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Mastadenovirus E4 ORF3 0.54 37.0 3.38e-01 70.9% 59.3%
2x3gA00 3.30.70.1910 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.54 39.0 3.60e-01 100.0% 57.8%
3e3pA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.54 43.0 4.48e-01 100.0% 97.4%
3aawA02 3.30.2130.10 Alpha Beta › 2-Layer Sandwich › VC0802-like › VC0802-like 0.54 41.0 3.37e-01 83.7% 81.8%
4dpoB00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.53 37.0 3.60e-01 74.4% 97.0%
3tmaA02 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.53 42.0 3.36e-01 86.0% 93.8%
3a27A00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.53 43.0 3.24e-01 89.5% 76.3%
5tkwA01 3.30.420.380 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › 0.52 34.0 2.82e-01 73.3% 34.7%
6hhnA01 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.51 34.0 3.37e-01 70.9% 63.0%
1q8bA00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.51 40.0 3.92e-01 84.9% 95.7%
2pgcA02 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.51 36.0 3.44e-01 74.4% 90.6%
3euoA02 3.40.47.10 Alpha Beta › 3-Layer(aba) Sandwich › Peroxisomal Thiolase; Chain A, domain 1 › Thiolase/Chalcone synthase 0.51 44.0 3.68e-01 98.8% 96.8%
1xkpB00 3.30.1460.10 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › 0.51 36.0 3.29e-01 83.7% 52.9%
2c7yA00 3.40.47.10 Alpha Beta › 3-Layer(aba) Sandwich › Peroxisomal Thiolase; Chain A, domain 1 › Thiolase/Chalcone synthase 0.51 43.0 2.90e-01 100.0% 94.9%
1lq9A00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.51 36.0 3.40e-01 76.7% 93.8%
4ushA00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.51 38.0 3.60e-01 81.4% 78.6%
3bm7A00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.50 39.0 3.71e-01 86.0% 87.7%
3e23A00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.50 43.0 3.34e-01 96.5% 86.4%
ECOD (58)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4031162 273.1.1.1 ↗ a+b three layers › PR-1-like › PR-1-like › PR-1-like › CAP 0.96 91.0 7.66e-01 97.7% 72.3%
5084002 273.1.1.1 ↗ a+b three layers › PR-1-like › PR-1-like › PR-1-like › CAP 0.94 91.0 7.55e-01 100.0% 71.1%
3968107 273.1.1.1 ↗ a+b three layers › PR-1-like › PR-1-like › PR-1-like › CAP 0.94 90.0 7.36e-01 98.8% 69.3%
4942971 273.1.1.1 ↗ a+b three layers › PR-1-like › PR-1-like › PR-1-like › CAP 0.93 88.0 6.77e-01 98.8% 80.4%
3283186 273.1.1.1 ↗ a+b three layers › PR-1-like › PR-1-like › PR-1-like › CAP 0.91 87.0 7.08e-01 100.0% 69.0%
1697211 273.1.1.1 ↗ a+b three layers › PR-1-like › PR-1-like › PR-1-like › CAP 0.91 86.0 7.26e-01 100.0% 70.7%
3278331 273.1.1.1 ↗ a+b three layers › PR-1-like › PR-1-like › PR-1-like › CAP 0.91 86.0 7.03e-01 100.0% 77.9%
1031145 273.1.1.1 ↗ a+b three layers › PR-1-like › PR-1-like › PR-1-like › CAP 0.89 86.0 7.19e-01 100.0% 68.4%
4001525 273.1.1.1 ↗ a+b three layers › PR-1-like › PR-1-like › PR-1-like › CAP 0.86 82.0 5.22e-01 100.0% 27.1%
3997567 273.1.1.1 ↗ a+b three layers › PR-1-like › PR-1-like › PR-1-like › CAP 0.83 79.0 5.95e-01 100.0% 51.4%
3448585 273.1.1.0 ↗ a+b three layers › PR-1-like › PR-1-like › PR-1-like 0.83 77.0 6.39e-01 100.0% 78.6%
3992804 273.1.1.1 ↗ a+b three layers › PR-1-like › PR-1-like › PR-1-like › CAP 0.83 71.0 6.49e-01 96.5% 70.9%
3931530 273.1.1.1 ↗ a+b three layers › PR-1-like › PR-1-like › PR-1-like › CAP 0.78 71.0 6.34e-01 98.8% 71.2%
3614061 864.1.1.8 ↗ a+b two layers › DLC › DLC › DLC › CEP76_C 0.72 64.0 5.43e-01 100.0% 72.7%
3499933 273.1.1.0 ↗ a+b three layers › PR-1-like › PR-1-like › PR-1-like 0.70 62.0 5.47e-01 100.0% 69.2%
3881301 11.1.1.363 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › C2-set_3 0.69 43.0 4.32e-01 82.6% 61.1%
4940779 256.1.1.0 ↗ a+b two layers › MTH1598-like › MTH1598-like › MTH1598-like 0.66 45.0 4.89e-01 70.9% 85.7%
3839537 812.1.1.1 ↗ a+b duplicates or obligate multimers › MinE-like › Cell division protein MinE topological specificity domain › Cell division protein MinE topological specificity domain › MinE 0.63 43.0 4.66e-01 72.1% 87.1%
3491163 864.1.1.2 ↗ a+b two layers › DLC › DLC › DLC › Tctex-1 0.63 56.0 4.92e-01 100.0% 91.4%
4008366 812.1.1.0 ↗ a+b duplicates or obligate multimers › MinE-like › Cell division protein MinE topological specificity domain › Cell division protein MinE topological specificity domain 0.62 44.0 4.36e-01 73.3% 73.3%
4659010 2003.1.5.81 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Methyltransf_25 0.62 49.0 3.91e-01 86.0% 97.7%
3163632 3313.1.1.1 ↗ a+b two layers › Uncharacterized protein VC_A0919 › Uncharacterized protein VC_A0919 › Uncharacterized protein VC_A0919 › DUF406 0.61 44.0 4.58e-01 83.7% 82.5%
4607326 305.1.1.1 ↗ a+b two layers › DCoH-like › RBP11-like subunits of RNA polymerase › RBP11-like subunits of RNA polymerase › RNA_pol_L 0.61 46.0 4.37e-01 83.7% 66.7%
3985634 3313.1.1.1 ↗ a+b two layers › Uncharacterized protein VC_A0919 › Uncharacterized protein VC_A0919 › Uncharacterized protein VC_A0919 › DUF406 0.60 44.0 4.28e-01 83.7% 69.0%
4048096 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 41.0 4.05e-01 70.9% 66.7%
185044 304.61.1.1 ↗ a+b two layers › Alpha-beta plaits › Aldoxime dehydratase › Aldoxime dehydratase › Dehydratase_hem 0.59 40.0 3.51e-01 72.1% 48.2%
4629319 304.55.1.13 ↗ a+b two layers › Alpha-beta plaits › Origin of replication-binding domains › Origin of replication-binding domains › Relaxase 0.59 41.0 3.76e-01 74.4% 59.2%
3999424 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.59 39.0 3.67e-01 72.1% 53.6%
5077552 304.39.1.0 ↗ a+b two layers › Alpha-beta plaits › Mechanosensitive channel protein MscS (YggB), C-terminal domain › Mechanosensitive channel protein MscS (YggB), C-terminal domain 0.58 42.0 4.08e-01 76.7% 68.4%
3476800 328.1.1.0 ↗ a+b two layers › IF3-like › AlbA-like › AlbA-like 0.58 46.0 4.14e-01 86.0% 97.5%
4294933 223.1.1.7 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains › Autoind_bind 0.58 49.0 3.86e-01 90.7% 71.8%
5022355 242.1.1.0 ↗ a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases 0.58 43.0 3.78e-01 82.6% 51.4%
11228 2484.1.1.47 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › T2SSL 0.57 40.0 3.42e-01 73.3% 77.1%
4376910 305.1.1.0 ↗ a+b two layers › DCoH-like › RBP11-like subunits of RNA polymerase › RBP11-like subunits of RNA polymerase 0.57 44.0 4.33e-01 83.7% 75.8%
3165967 3313.1.1.1 ↗ a+b two layers › Uncharacterized protein VC_A0919 › Uncharacterized protein VC_A0919 › Uncharacterized protein VC_A0919 › DUF406 0.57 43.0 4.24e-01 83.7% 76.7%
4048714 812.1.1.1 ↗ a+b duplicates or obligate multimers › MinE-like › Cell division protein MinE topological specificity domain › Cell division protein MinE topological specificity domain › MinE 0.57 43.0 4.41e-01 81.4% 91.8%
3827396 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.56 39.0 3.65e-01 72.1% 59.1%
4457840 812.1.1.1 ↗ a+b duplicates or obligate multimers › MinE-like › Cell division protein MinE topological specificity domain › Cell division protein MinE topological specificity domain › MinE 0.56 41.0 4.18e-01 77.9% 89.4%
4994093 242.1.1.0 ↗ a+b two layers › Homing endonucleases-like › Homing endonucleases › Homing endonucleases 0.56 41.0 3.37e-01 79.1% 44.7%
3742605 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.56 48.0 3.24e-01 95.3% 32.5%
5027827 304.28.1.0 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin domains in multidrug efflux transporter › Multidrug efflux transporter AcrB pore domain 0.56 37.0 3.78e-01 73.3% 69.4%
4026407 304.4.1.0 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.56 43.0 3.72e-01 81.4% 56.2%
3306490 304.39.1.0 ↗ a+b two layers › Alpha-beta plaits › Mechanosensitive channel protein MscS (YggB), C-terminal domain › Mechanosensitive channel protein MscS (YggB), C-terminal domain 0.56 38.0 3.60e-01 72.1% 58.2%
4054258 2484.1.1.47 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › T2SSL 0.56 39.0 3.36e-01 73.3% 80.7%
5006044 206.1.1.268 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › DUF6206 0.55 49.0 3.39e-01 100.0% 34.2%
4257164 331.2.1.1 ↗ a+b two layers › TBP-like › Phosphoglucomutase, C-terminal domain › Phosphoglucomutase, C-terminal domain › PGM_PMM_IV 0.54 34.0 3.52e-01 100.0% 68.8%
4132512 331.10.1.1 ↗ a+b two layers › TBP-like › S-adenosylmethionine decarboxylase-related › S-adenosylmethionine decarboxylase › SAM_decarbox 0.53 47.0 3.15e-01 100.0% 53.1%
3593787 331.3.1.0 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like 0.52 45.0 3.43e-01 100.0% 76.4%
3690206 304.4.1.4 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › ABM 0.52 40.0 3.64e-01 84.9% 77.5%
4571276 331.2.1.1 ↗ a+b two layers › TBP-like › Phosphoglucomutase, C-terminal domain › Phosphoglucomutase, C-terminal domain › PGM_PMM_IV 0.52 34.0 3.54e-01 72.1% 72.5%
3698884 304.46.1.1 ↗ a+b two layers › Alpha-beta plaits › eEF1-gamma domain › eEF1-gamma domain › EF1G 0.52 41.0 3.76e-01 96.5% 64.3%
3968919 304.4.1.57 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › MFS_3 0.52 37.0 3.33e-01 77.9% 52.8%
4959305 304.4.1.0 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel 0.51 35.0 3.16e-01 70.9% 50.4%
3378623 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 0.51 31.0 3.12e-01 98.8% 60.0%
5051275 304.24.1.0 ↗ a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like 0.51 33.0 3.53e-01 98.8% 76.0%
3923792 206.1.1.1 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › Pkinase 0.51 46.0 3.19e-01 100.0% 30.7%
3062929 304.4.1.4 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › ABM 0.51 39.0 3.75e-01 84.9% 90.2%
4025573 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 0.51 33.0 3.25e-01 70.9% 62.2%