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NC_070964.1__YP_010670431.1__PQC14_gp121__00103

Bact-Vir

NC_070964.1__YP_010670431.1__PQC14_gp121__00103

Identity

Accession:
NC_070964 ↗
Kingdom:
phage

Quality

95.0 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pantevenvirales› Kyanoviridae› Yellowseavirus› Synechococcus_phage_S-H38

TaxID: 2783673

Cluster

Singleton — not in a non-trivial cluster

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 3-79
PDB
Domain cluster: representative
CATH (32)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1svdM00 3.30.190.10 Alpha Beta › 2-Layer Sandwich › Ribulose 1,5 Bisphosphate Carboxylase/Oxygenase › Ribulose bisphosphate carboxylase, small subunit 0.68 50.0 4.47e-01 77.9% 64.8%
6qm7J00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.66 48.0 3.53e-01 76.6% 89.7%
5hv6A02 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.62 45.0 3.82e-01 77.9% 96.1%
2xf1A00 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.61 48.0 4.18e-01 87.0% 64.8%
1r9fA01 3.30.390.180 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › RNA silencing suppressor P19 0.61 43.0 3.88e-01 75.3% 74.3%
3s98A01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.61 42.0 4.20e-01 77.9% 69.5%
3licA01 3.30.450.20 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PAS domain 0.60 48.0 3.74e-01 89.6% 78.1%
5wfiA01 2.60.120.1680 Mainly Beta › Sandwich › Jelly Rolls › 0.60 32.0 2.75e-01 98.7% 33.1%
1t3yA00 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.59 48.0 4.03e-01 88.3% 61.8%
1vq8B03 3.30.1430.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein L3; Chain: B; domain 2, › 0.59 42.0 3.76e-01 75.3% 81.1%
4ggmX02 3.40.140.80 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › LpxI C-terminal catalytic domain 0.58 46.0 3.82e-01 89.6% 73.3%
3vpbB03 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.58 42.0 3.72e-01 76.6% 70.5%
4iwxA03 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.58 42.0 3.73e-01 76.6% 70.3%
4kyzA00 3.30.70.600 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Ribosomal protein S10 0.58 49.0 3.94e-01 100.0% 94.0%
1yarH00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.58 45.0 3.40e-01 87.0% 67.5%
1qysA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.57 49.0 4.67e-01 100.0% 96.7%
6z46V01 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.57 45.0 3.45e-01 87.0% 75.3%
4jndA02 3.60.40.10 Alpha Beta › 4-Layer Sandwich › Phosphatase 2c; domain 1 › PPM-type phosphatase domain 0.57 41.0 2.89e-01 79.2% 51.4%
5i47B03 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.57 41.0 3.85e-01 76.6% 69.5%
3ix3A00 3.30.450.80 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Transcription factor LuxR-like, autoinducer-binding domain 0.56 41.0 3.35e-01 80.5% 74.8%
4bnqB00 3.90.950.10 Alpha Beta › Alpha-Beta Complex › Maf protein › 0.56 38.0 2.92e-01 70.1% 59.9%
2jvfA00 3.30.1710.10 Alpha Beta › 2-Layer Sandwich › top7, de novo designed protein › top7, de novo designed protein 0.53 44.0 4.24e-01 100.0% 94.7%
1uc8A03 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.53 39.0 3.61e-01 76.6% 66.0%
4ehoB03 3.30.450.270 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PHY domain 0.53 38.0 3.00e-01 77.9% 58.7%
6kbyA00 3.40.710.10 Alpha Beta › 3-Layer(aba) Sandwich › Beta-lactamase › DD-peptidase/beta-lactamase superfamily 0.52 46.0 2.99e-01 100.0% 92.0%
2pn1A03 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.52 45.0 3.86e-01 93.5% 96.7%
3hx1B00 2.60.200.20 Mainly Beta › Sandwich › Tumour Suppressor Smad4 › 0.52 41.0 3.73e-01 88.3% 99.1%
6etzA02 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 33.0 3.24e-01 75.3% 58.3%
1l3lA01 3.30.450.80 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › Transcription factor LuxR-like, autoinducer-binding domain 0.52 39.0 3.13e-01 84.4% 74.7%
3zq5A03 3.30.450.270 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › PHY domain 0.51 38.0 3.13e-01 81.8% 66.7%
2iq1A00 3.60.40.10 Alpha Beta › 4-Layer Sandwich › Phosphatase 2c; domain 1 › PPM-type phosphatase domain 0.51 42.0 3.08e-01 100.0% 68.1%
2cs4A00 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.50 37.0 3.49e-01 77.9% 84.2%
ECOD (42)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4985428 3986.2.1.0 ↗ a+b two layers › GTP-binding protein lepA C-terminal domain-like › Antitoxin Dmd › Antitoxin Dmd 0.74 54.0 5.37e-01 76.6% 96.2%
5065765 210.1.1.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.71 50.0 3.69e-01 74.0% 92.0%
4952123 3986.2.1.0 ↗ a+b two layers › GTP-binding protein lepA C-terminal domain-like › Antitoxin Dmd › Antitoxin Dmd 0.71 51.0 5.72e-01 76.6% 98.3%
4948083 210.1.1.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.70 50.0 3.70e-01 75.3% 89.3%
3543547 210.1.1.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.69 50.0 3.64e-01 76.6% 84.1%
5059796 4326.1.1.0 ↗ a+b two layers › ERH-like › ERH-like › ERH-like 0.69 49.0 5.14e-01 74.0% 85.5%
4669954 210.1.1.0 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits 0.69 48.0 3.59e-01 74.0% 90.5%
4354137 210.1.1.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.68 49.0 3.57e-01 76.6% 84.6%
4979383 210.1.1.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.67 48.0 3.55e-01 76.6% 87.8%
4167904 210.1.1.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.67 49.0 3.59e-01 77.9% 88.3%
4556297 210.1.1.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.66 49.0 3.62e-01 77.9% 91.4%
3966318 223.1.1.84 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains › PHY+GAF 0.64 46.0 2.94e-01 77.9% 34.0%
4880303 11.2.1.1 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › C2 0.63 46.0 4.17e-01 77.9% 59.0%
3933905 224.1.1.1 ↗ a+b three layers › Gelsolin-like › Gelsolin-like › Gelsolin-like › Cofilin_ADF 0.62 49.0 4.07e-01 87.0% 62.1%
4394562 223.1.1.0 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains 0.61 44.0 2.74e-01 76.6% 30.2%
None — 0.61 45.0 3.27e-01 76.6% 38.0%
3932239 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.61 45.0 4.12e-01 77.9% 79.0%
3998367 11.2.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain 0.61 46.0 3.91e-01 79.2% 74.2%
5062623 206.1.3.0 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp 0.60 45.0 3.33e-01 77.9% 41.1%
4974741 304.125.1.0 ↗ a+b two layers › Alpha-beta plaits › ferredoxin-like domain in Api92-like proteins › ferredoxin-like domain in Api92-like proteins 0.59 42.0 4.17e-01 76.6% 98.8%
3706132 304.8.1.0 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like 0.59 43.0 4.18e-01 77.9% 100.0%
3988217 241.12.1.0 ↗ a+b two layers › Type III secretory system chaperone-like › YktB/PF0168-like › YktB/PF0168-like 0.58 42.0 3.13e-01 75.3% 36.0%
3787619 206.1.3.21 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › RimK 0.58 43.0 3.76e-01 77.9% 70.4%
5045395 821.1.1.0 ↗ a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease 0.58 41.0 3.71e-01 75.3% 97.2%
3282305 4187.1.1.0 ↗ a+b two layers › NosL/MerB-like › NosL/MerB-like › NosL/MerB-like 0.58 40.0 4.17e-01 76.6% 80.0%
5046788 377.1.1.0 ↗ few secondary structure elements › Glucocorticoid receptor-like › LIM domain-like › LIM domain-like 0.58 39.0 3.48e-01 71.4% 45.8%
4223132 210.1.1.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.58 45.0 3.42e-01 87.0% 68.0%
3479367 822.1.1.1 ↗ a+b two layers › GYF/BRK domain-like › GYF domain › GYF domain › GYF 0.57 40.0 4.27e-01 72.7% 87.5%
4992167 2004.1.1.42 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › T2SSE 0.57 46.0 2.87e-01 90.9% 39.2%
5035535 210.1.1.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.57 45.0 3.37e-01 88.3% 65.7%
3319149 224.1.1.3 ↗ a+b three layers › Gelsolin-like › Gelsolin-like › Gelsolin-like › Staygreen 0.57 47.0 3.82e-01 94.8% 62.6%
4331897 235.1.1.41 ↗ a+b complex topology › Lysozyme-like › Lysozyme-like › Lysozyme-like › TraH_2 0.56 43.0 3.54e-01 84.4% 72.0%
5030141 210.1.1.1 ↗ a+b four layers › Ntn/PP2C › Ntn › Proteasome subunits › Proteasome 0.56 44.0 3.26e-01 87.0% 62.7%
4954188 2492.1.1.7 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like › FdhD-NarQ 0.55 47.0 3.88e-01 100.0% 69.8%
4967778 329.1.1.2 ↗ a+b two layers › Prokaryotic AspRS, insert domain › Prokaryotic AspRS, insert domain › Prokaryotic AspRS, insert domain › DUF4443 0.54 44.0 4.05e-01 94.8% 73.6%
5075402 210.1.3.3 ↗ a+b four layers › Ntn/PP2C › Ntn › Class II glutamine amidotransferases › GATase_4 0.54 41.0 2.88e-01 84.4% 65.3%
3683687 109.4.1.1267 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, DYW_deaminase, E_motif 0.54 41.0 2.48e-01 85.7% 40.2%
1566366 223.1.1.1 ↗ a+b three layers › Profilin-like › sensor domains › sensor domains › PHY 0.53 40.0 3.07e-01 81.8% 55.6%
3942306 206.1.3.21 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › RimK 0.52 46.0 3.41e-01 100.0% 61.5%
4405336 206.1.3.21 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › RimK 0.51 41.0 3.02e-01 89.6% 75.3%
5054740 206.1.3.21 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › RimK 0.50 41.0 3.06e-01 89.6% 63.6%
3310614 2008.1.1.146 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › EDRF1_N 0.50 36.0 2.43e-01 76.6% 32.5%