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NC_016164.1__YP_004934618.1__S-CBS1_gp18__00018

Bact-Vir

NC_016164.1__YP_004934618.1__S-CBS1_gp18__00018

Identity

Accession:
NC_016164 ↗
Kingdom:
phage

Quality

82.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Synechococcus_phage_S-CBS1

TaxID: 909297

Cluster

View cluster (19 members)

3D Structure

Download PDB Download Scores JSON

Domains

high = three domain segmentations agree, medium = two domain segmentations agree. Numbered high-first then medium, N→C within each tier.

D1 high residues 11-117
PDB
Domain cluster: rep: AY357582.2__AAQ63347.1__Nazgul47__00047__D14-81_161-188
CATH (41)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
5is2A01 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.73 37.0 4.08e-01 72.0% 58.2%
1zpvA00 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.73 37.0 4.19e-01 72.0% 62.4%
3ibwA00 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.71 36.0 4.19e-01 72.0% 67.1%
2nyiA01 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.70 36.0 4.13e-01 72.0% 65.4%
2nykA02 2.60.40.2530 Mainly Beta › Sandwich › Immunoglobulin-like › 0.70 33.0 3.71e-01 100.0% 56.3%
4divV01 2.40.30.200 Mainly Beta › Beta Barrel › Elongation Factor Tu (Ef-tu); domain 3 › 0.70 61.0 5.62e-01 100.0% 74.5%
4acvA00 3.30.2000.30 Alpha Beta › 2-Layer Sandwich › STM4215-like › 0.66 46.0 4.45e-01 100.0% 64.7%
2apoA03 3.30.70.3190 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.64 38.0 4.04e-01 73.8% 66.3%
6n3oA01 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.63 40.0 4.31e-01 100.0% 75.6%
1k8kD01 3.30.1460.20 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › 0.61 43.0 3.83e-01 100.0% 51.7%
6qdws00 3.90.470.10 Alpha Beta › Alpha-Beta Complex › Ribosomal Protein L22; Chain A › Ribosomal protein L22/L17 0.61 42.0 4.24e-01 71.0% 100.0%
4bhqA00 3.30.70.2830 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.61 44.0 4.42e-01 100.0% 73.4%
1dj0A01 3.30.70.660 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Pseudouridine synthase I, catalytic domain, C-terminal subdomain 0.60 42.0 3.85e-01 71.0% 62.3%
1tuwA00 3.30.70.1090 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Dimeric alpha+beta barrel. 0.59 33.0 3.32e-01 71.0% 51.9%
7d58G01 3.30.1490.120 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › RNA polymerase Rpb7-like, N-terminal domain 0.58 39.0 4.42e-01 72.9% 97.3%
2aneH00 2.30.130.40 Mainly Beta › Roll › Archaeosine Trna-guanine Transglycosylase; Chain: A, domain 4 › LON domain-like 0.57 41.0 4.09e-01 100.0% 72.5%
7x7zA01 2.40.480.10 Mainly Beta › Beta Barrel › AOC barrel-like › Allene oxide cyclase-like 0.57 40.0 3.68e-01 72.0% 100.0%
1v8cA02 3.30.1370.80 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › Molybdopterin cofactor biosynthesis MoaD-related, C-terminal domain 0.57 35.0 3.95e-01 72.0% 81.2%
4g6tA00 3.30.1460.10 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › 0.57 33.0 3.19e-01 100.0% 47.7%
2ns9A01 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.57 40.0 3.62e-01 73.8% 76.4%
3f62A00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.56 37.0 3.71e-01 100.0% 65.7%
3otlA00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.56 41.0 3.62e-01 75.7% 79.1%
3hlzB01 3.40.1000.10 Alpha Beta › 3-Layer(aba) Sandwich › Protein Transport Mog1p; Chain A › Mog1/PsbP, alpha/beta/alpha sandwich 0.56 42.0 3.84e-01 100.0% 60.7%
3rd6A00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.55 40.0 3.65e-01 75.7% 81.9%
4bxiA00 3.30.565.10 Alpha Beta › 2-Layer Sandwich › Heat Shock Protein 90 › Histidine kinase-like ATPase, C-terminal domain 0.55 35.0 3.17e-01 100.0% 47.3%
3ejjX03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.55 34.0 3.61e-01 100.0% 70.5%
2qcuA02 3.30.9.10 Alpha Beta › 2-Layer Sandwich › D-Amino Acid Oxidase; Chain A, domain 2 › D-Amino Acid Oxidase, subunit A, domain 2 0.54 34.0 3.01e-01 86.9% 41.0%
3lydA01 3.40.1000.10 Alpha Beta › 3-Layer(aba) Sandwich › Protein Transport Mog1p; Chain A › Mog1/PsbP, alpha/beta/alpha sandwich 0.54 47.0 4.28e-01 100.0% 71.1%
6dw1A00 2.70.170.10 Mainly Beta › Distorted Sandwich › Acetylcholine Binding Protein; Chain: A, › Neurotransmitter-gated ion-channel ligand-binding domain 0.54 44.0 3.51e-01 100.0% 44.3%
5xoyB02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.54 38.0 3.82e-01 73.8% 72.0%
3jafA01 2.70.170.10 Mainly Beta › Distorted Sandwich › Acetylcholine Binding Protein; Chain: A, › Neurotransmitter-gated ion-channel ligand-binding domain 0.54 44.0 3.51e-01 100.0% 44.5%
4q7aC02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.54 38.0 3.83e-01 73.8% 72.2%
4btfA03 3.30.200.20 Alpha Beta › 2-Layer Sandwich › Phosphorylase Kinase; domain 1 › Phosphorylase Kinase; domain 1 0.54 35.0 3.49e-01 100.0% 62.5%
3uebF00 3.30.300.100 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › MTH677-like 0.53 33.0 3.47e-01 72.9% 67.0%
6u6pA01 3.30.1070.10 Alpha Beta › 2-Layer Sandwich › Cell Cycle; Chain A › Cell division topological specificity factor MinE 0.52 37.0 4.24e-01 98.1% 100.0%
2yh6D00 3.30.530.50 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › 0.52 38.0 3.77e-01 97.2% 72.7%
2ausC02 3.30.2350.10 Alpha Beta › 2-Layer Sandwich › Pseudouridine synthase › Pseudouridine synthase 0.52 41.0 3.46e-01 86.9% 65.1%
2qrrA00 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.52 33.0 3.50e-01 98.1% 71.1%
4labA00 3.30.2350.10 Alpha Beta › 2-Layer Sandwich › Pseudouridine synthase › Pseudouridine synthase 0.52 36.0 3.08e-01 100.0% 41.7%
2wdoA00 3.90.470.20 Alpha Beta › Alpha-Beta Complex › Ribosomal Protein L22; Chain A › 4'-phosphopantetheinyl transferase domain 0.51 36.0 3.48e-01 72.9% 100.0%
1k8wA01 3.30.2350.10 Alpha Beta › 2-Layer Sandwich › Pseudouridine synthase › Pseudouridine synthase 0.51 44.0 3.51e-01 100.0% 53.5%
ECOD (39)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3941539 1.1.13.40 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Phage_min_tail 0.85 73.0 7.44e-01 100.0% 92.4%
3981654 1.1.13.40 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Phage_min_tail 0.82 70.0 6.93e-01 100.0% 88.2%
3969448 1.1.13.0 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins 0.82 70.0 7.13e-01 100.0% 93.3%
3164699 1.1.13.33 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › DNA_circ_N 0.73 63.0 6.18e-01 100.0% 87.0%
3980535 1.1.13.51 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Phage_P2_GpU 0.72 66.0 6.06e-01 100.0% 77.8%
4001378 389.1.1.47 ↗ few secondary structure elements › EGF-like › EGF-related › EGF/Laminin › TIL_2 0.72 34.0 4.19e-01 95.3% 70.0%
3369744 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.71 43.0 4.23e-01 100.0% 56.5%
4034209 1.1.13.4 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › Sipho_tail 0.71 65.0 6.04e-01 100.0% 82.1%
4995819 1.1.5.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 0.68 62.0 5.51e-01 100.0% 80.0%
4964284 256.1.1.1 ↗ a+b two layers › MTH1598-like › MTH1598-like › MTH1598-like › Archease 0.67 38.0 4.67e-01 72.0% 90.8%
2471641 1.1.5.24 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Phage_T4_gp19 0.66 60.0 5.35e-01 100.0% 74.5%
3942828 1.1.13.39 ↗ beta barrels › cradle loop barrel › RIFT-related › Phage tail proteins › KPP10_Orf10 0.66 58.0 5.27e-01 100.0% 73.1%
3842648 11.1.1.586 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › CATSPERE_Ig-like 0.65 41.0 3.78e-01 100.0% 49.6%
4961856 1.1.9.0 ↗ beta barrels › cradle loop barrel › RIFT-related › PUA domain 0.65 40.0 3.71e-01 100.0% 47.9%
4883824 304.124.1.6 ↗ a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like › DUF5072 0.64 46.0 4.38e-01 100.0% 62.8%
4100027 225.1.1.0 ↗ a+b two layers › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase-like › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase › ATPase domain of HSP90 chaperone/DNA topoisomerase II/histidine kinase 0.62 37.0 3.39e-01 100.0% 46.7%
4081025 1.1.9.5 ↗ beta barrels › cradle loop barrel › RIFT-related › PUA domain › LON_substr_bdg 0.61 43.0 3.25e-01 100.0% 29.8%
4002543 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.60 40.0 4.13e-01 100.0% 70.5%
3237694 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.58 35.0 3.21e-01 94.4% 45.0%
3961758 331.3.1.7 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like › COXG 0.57 39.0 3.45e-01 70.1% 75.3%
6333 331.3.1.7 ↗ a+b two layers › TBP-like › Bet v1-like › Bet v1-like › COXG 0.56 40.0 3.56e-01 72.9% 76.2%
5029745 304.133.1.1 ↗ a+b two layers › Alpha-beta plaits › 26 kDa periplasmic immunogenic protein › 26 kDa periplasmic immunogenic protein › SIMPL 0.56 40.0 4.52e-01 73.8% 100.0%
3496210 11.12.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Nicotinic receptor ligand binding domain-like › Nicotinic receptor ligand binding domain-like 0.56 43.0 3.59e-01 100.0% 47.6%
3967714 241.1.1.6 ↗ a+b two layers › Type III secretory system chaperone-like › Type III secretory system chaperone › Type III secretory system chaperone › YbjN 0.55 33.0 3.05e-01 99.1% 43.6%
3964886 304.124.1.0 ↗ a+b two layers › Alpha-beta plaits › Phage tail protein-like › Phage tail protein-like 0.55 50.0 4.56e-01 100.0% 81.4%
4943376 304.10.1.3 ↗ a+b two layers › Alpha-beta plaits › RuBisCO, large subunit, small (N-terminal) domain › RuBisCO, large subunit, small (N-terminal) domain › RuBisCO_large 0.54 35.0 3.43e-01 93.5% 59.1%
3502475 304.102.1.2 ↗ a+b two layers › Alpha-beta plaits › Pseudouridine synthase › Pseudouridine synthase › TruD 0.54 49.0 3.93e-01 100.0% 87.1%
3893621 11.1.1.99 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › V-set 0.54 41.0 3.98e-01 100.0% 71.7%
3247018 872.3.1.0 ↗ a+b two layers › Dodecin subunit-like › YbjQ-like › YbjQ-like 0.53 40.0 4.03e-01 91.6% 77.3%
4152362 881.4.1.2 ↗ a+b three layers › Mog1p/PsbP-like › C-terminal domain in sigma-E factor regulatory protein rseB › C-terminal domain in sigma-E factor regulatory protein rseB › DUF4367 0.53 33.0 3.29e-01 100.0% 59.1%
3962603 881.1.1.0 ↗ a+b three layers › Mog1p/PsbP-like › Mog1p/PsbP-like › Mog1p/PsbP-like 0.53 38.0 3.78e-01 74.8% 80.9%
5032543 301.8.1.1 ↗ a+b three layers › Bacillus chorismate mutase-like › 4'-phosphopantetheinyl transferase › 4'-phosphopantetheinyl transferase › ACPS 0.53 37.0 3.46e-01 72.0% 100.0%
3254832 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.53 29.0 3.13e-01 100.0% 61.1%
3280926 881.1.1.6 ↗ a+b three layers › Mog1p/PsbP-like › Mog1p/PsbP-like › Mog1p/PsbP-like › Lpp-LpqN 0.52 47.0 4.03e-01 100.0% 75.3%
2516709 881.1.1.6 ↗ a+b three layers › Mog1p/PsbP-like › Mog1p/PsbP-like › Mog1p/PsbP-like › Lpp-LpqN 0.52 47.0 3.99e-01 100.0% 75.7%
5010242 314.1.1.6 ↗ a+b three layers › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › BPL_LplA_LipB 0.51 44.0 3.64e-01 100.0% 53.5%
3967554 5085.1.1.1 ↗ a+b duplicates or obligate multimers › Outer membrane efflux proteins (OEP) › Outer membrane efflux proteins (OEP) › Outer membrane efflux proteins (OEP) › OEP 0.51 35.0 2.34e-01 70.1% 85.1%
3611302 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.50 31.0 2.88e-01 86.0% 46.7%
3244753 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.50 39.0 3.23e-01 91.6% 47.5%