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KY606587.1__ARB06055.1__vBDshSR5C_1__00001

Bact-Vir

KY606587.1__ARB06055.1__vBDshSR5C_1__00001

Identity

Accession:
KY606587 ↗
Kingdom:
phage

Quality

82.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Nanhaivirus› Dinoroseobacter_phage_vB_DshS-R5C

TaxID: 1965368

Cluster

Singleton — not in a non-trivial cluster

3D Structure

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Domains

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

D1 high residues 2-87
PDB
Domain cluster: rep: SR-VP_0-2_scaffold_141_4750547_curated_closed_complete_prodigal-single.1__X__X__00186__D6-86
CATH (39)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1in0A01 3.30.70.860 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.65 49.0 5.40e-01 95.3% 100.0%
2wadA02 3.90.1310.10 Alpha Beta › Alpha-Beta Complex › Penicillin-binding protein 2a (Domain 2) › Penicillin-binding protein 2a (Domain 2) 0.63 36.0 3.05e-01 100.0% 31.1%
3rpiB01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.61 42.0 4.09e-01 96.5% 63.3%
3dfeA00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.60 50.0 5.15e-01 100.0% 95.1%
1fo0B00 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.60 45.0 4.10e-01 100.0% 60.7%
1zbuB01 1.10.720.30 Mainly Alpha › Orthogonal Bundle › Transcription Termination Factor Rho, Rna-binding Domain; Chain A, Domain 1 › SAP domain 0.60 29.0 3.15e-01 90.7% 52.7%
2cpdA01 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.59 48.0 5.08e-01 96.5% 100.0%
3pyfA02 3.30.70.890 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › GHMP kinase, C-terminal domain 0.59 53.0 4.49e-01 97.7% 93.4%
4gvbB00 3.30.70.440 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Killer toxin KP6 alpha-subunit 0.58 44.0 4.62e-01 98.8% 97.3%
2hvzA01 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.58 45.0 4.79e-01 91.9% 100.0%
2g9oA00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.57 45.0 4.72e-01 95.3% 96.1%
2qv6A01 3.30.70.1230 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Nucleotide cyclase, GGDEF domain 0.56 50.0 4.41e-01 100.0% 71.1%
3p96A02 3.30.70.260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › ACT domain 0.56 48.0 4.88e-01 97.7% 96.4%
1yhqH00 3.90.1170.10 Alpha Beta › Alpha-Beta Complex › Aldehyde Oxidoreductase; domain 3 › Ribosomal protein L16/L10 0.56 48.0 3.98e-01 96.5% 71.2%
1vwxI01 3.90.1170.10 Alpha Beta › Alpha-Beta Complex › Aldehyde Oxidoreductase; domain 3 › Ribosomal protein L16/L10 0.56 49.0 3.97e-01 100.0% 74.0%
2cz4A00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.56 51.0 4.85e-01 100.0% 91.9%
1lxjA00 3.30.70.930 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.54 48.0 4.55e-01 100.0% 88.3%
4ewtA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.54 47.0 4.33e-01 97.7% 96.5%
2efpA02 3.30.70.920 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Lrp/AsnC effector binding domain/regulation of amino acid metabolism (RAM) domain 0.54 46.0 4.47e-01 100.0% 82.7%
1rtzA00 3.30.70.560 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 7,8-Dihydro-6-hydroxymethylpterin-pyrophosphokinase HPPK 0.54 47.0 3.97e-01 100.0% 88.8%
1lxnA00 3.30.70.930 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.54 47.0 4.54e-01 100.0% 94.9%
1o51A00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.54 48.0 4.78e-01 100.0% 98.9%
5d4nC00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.54 48.0 4.61e-01 100.0% 89.8%
1darA05 3.30.70.240 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.53 40.0 4.06e-01 97.7% 81.6%
2ia0B02 3.30.70.920 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Lrp/AsnC effector binding domain/regulation of amino acid metabolism (RAM) domain 0.53 44.0 4.27e-01 100.0% 80.8%
3ce8A00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.53 47.0 4.71e-01 100.0% 96.6%
3smzA03 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.53 46.0 4.51e-01 100.0% 88.7%
2mgzA00 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.53 44.0 4.35e-01 100.0% 87.2%
1y0hB00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.53 45.0 4.42e-01 100.0% 94.9%
2dbbA02 3.30.70.920 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Lrp/AsnC effector binding domain/regulation of amino acid metabolism (RAM) domain 0.52 43.0 4.26e-01 100.0% 86.0%
1a9nD00 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.52 46.0 4.54e-01 98.8% 94.6%
3rjaA02 3.40.462.20 Alpha Beta › 3-Layer(aba) Sandwich › Vanillyl-alcohol Oxidase; Chain A, domain 3 › 0.52 45.0 3.40e-01 100.0% 38.0%
2asyA00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.52 46.0 4.41e-01 100.0% 97.0%
4dpoB00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.52 45.0 4.30e-01 98.8% 93.1%
2cqiA00 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.52 45.0 4.24e-01 97.7% 80.6%
1whwA01 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.52 46.0 4.47e-01 100.0% 92.6%
6qlyA01 3.10.20.90 Alpha Beta › Roll › Ubiquitin-like (UB roll) › Phosphatidylinositol 3-kinase Catalytic Subunit; Chain A, domain 1 0.52 30.0 3.13e-01 97.7% 59.0%
3bm7A00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.52 44.0 4.22e-01 100.0% 89.6%
4qu7A00 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.51 41.0 4.22e-01 96.5% 95.1%
ECOD (60)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4547125 375.14.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-like domain in leucyl-tRNA synthetase (LS1) › Rubredoxin-like domain in leucyl-tRNA synthetase (LS1) 0.66 34.0 4.26e-01 97.7% 84.0%
3596989 304.24.1.0 ↗ a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like 0.62 51.0 5.26e-01 98.8% 96.2%
4137321 304.56.1.2 ↗ a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like › CRISPR_Cas2 0.61 46.0 4.71e-01 98.8% 83.5%
4929401 304.56.1.2 ↗ a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like › CRISPR_Cas2 0.61 46.0 4.73e-01 100.0% 87.5%
3471440 304.24.1.3 ↗ a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like › EFG_III 0.60 51.0 5.20e-01 100.0% 95.3%
4170381 304.56.1.2 ↗ a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like › CRISPR_Cas2 0.60 46.0 4.50e-01 100.0% 75.5%
4663993 304.56.1.2 ↗ a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like › CRISPR_Cas2 0.60 46.0 4.67e-01 100.0% 84.7%
3208942 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.59 53.0 5.21e-01 97.7% 92.2%
4123628 304.56.1.2 ↗ a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like › CRISPR_Cas2 0.59 45.0 4.62e-01 100.0% 88.7%
3603749 304.5.1.0 ↗ a+b two layers › Alpha-beta plaits › GlnB-like › GlnB-like 0.59 48.0 4.95e-01 100.0% 95.0%
5045666 304.1.1.1 ↗ a+b two layers › Alpha-beta plaits › GHMP Kinase, C-terminal domain › GHMP Kinase, C-terminal domain › GHMP_kinases_C 0.58 52.0 4.37e-01 97.7% 96.5%
3284562 304.8.1.9 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › ACT_6 0.58 49.0 5.01e-01 100.0% 96.5%
2325515 304.5.1.1 ↗ a+b two layers › Alpha-beta plaits › GlnB-like › GlnB-like › P-II 0.57 50.0 4.80e-01 100.0% 82.2%
3509103 221.4.1.18 ↗ a+b two layers › beta-Grasp › Nudix › Nudix › NUDT9_N 0.57 49.0 3.56e-01 96.5% 50.8%
3594462 304.24.1.0 ↗ a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like 0.57 44.0 4.62e-01 97.7% 96.0%
4070229 304.48.1.22 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › GCH_III 0.57 51.0 4.70e-01 100.0% 82.7%
3622719 304.9.1.69 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RBD_DGKtheta 0.57 50.0 4.80e-01 98.8% 84.0%
3225101 304.44.1.1 ↗ a+b two layers › Alpha-beta plaits › Ribosomal protein S10 › Ribosomal protein S10 › Ribosomal_S10 0.57 49.0 4.37e-01 97.7% 66.4%
3534565 11.1.1.2 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › fn3 0.57 33.0 3.25e-01 100.0% 51.6%
3974782 304.28.1.1 ↗ a+b two layers › Alpha-beta plaits › Ferredoxin domains in multidrug efflux transporter › Multidrug efflux transporter AcrB pore domain › ACR_tran 0.56 49.0 4.82e-01 98.8% 95.8%
4989562 304.3.1.4 ↗ a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain › MCR_D 0.56 50.0 4.22e-01 100.0% 69.7%
4455848 304.1.1.1 ↗ a+b two layers › Alpha-beta plaits › GHMP Kinase, C-terminal domain › GHMP Kinase, C-terminal domain › GHMP_kinases_C 0.56 48.0 4.29e-01 93.0% 96.7%
5052336 304.4.1.75 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › GYD 0.56 51.0 4.93e-01 100.0% 90.5%
4949497 304.8.1.111 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › MCR_D 0.56 49.0 4.16e-01 100.0% 78.0%
4239482 304.1.1.1 ↗ a+b two layers › Alpha-beta plaits › GHMP Kinase, C-terminal domain › GHMP Kinase, C-terminal domain › GHMP_kinases_C 0.56 50.0 4.45e-01 97.7% 98.3%
5202 304.5.1.1 ↗ a+b two layers › Alpha-beta plaits › GlnB-like › GlnB-like › P-II 0.56 51.0 4.85e-01 100.0% 91.0%
4448436 304.44.1.1 ↗ a+b two layers › Alpha-beta plaits › Ribosomal protein S10 › Ribosomal protein S10 › Ribosomal_S10 0.56 48.0 4.22e-01 96.5% 80.0%
4967083 304.5.1.1 ↗ a+b two layers › Alpha-beta plaits › GlnB-like › GlnB-like › P-II 0.56 51.0 4.75e-01 100.0% 89.5%
4452423 304.9.1.1 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_1 0.55 45.0 4.23e-01 95.3% 72.4%
3404106 304.44.1.1 ↗ a+b two layers › Alpha-beta plaits › Ribosomal protein S10 › Ribosomal protein S10 › Ribosomal_S10 0.55 47.0 4.19e-01 96.5% 80.8%
5014123 304.24.1.0 ↗ a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like 0.55 45.0 4.59e-01 96.5% 91.8%
3173372 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.55 46.0 4.58e-01 93.0% 87.8%
5036489 304.25.1.1 ↗ a+b two layers › Alpha-beta plaits › Bacterial exopeptidase dimerisation domain › Bacterial exopeptidase dimerisation domain › M20_dimer 0.55 47.0 4.34e-01 97.7% 95.7%
3245368 304.44.1.1 ↗ a+b two layers › Alpha-beta plaits › Ribosomal protein S10 › Ribosomal protein S10 › Ribosomal_S10 0.55 48.0 4.65e-01 97.7% 90.5%
5082143 304.26.1.1 ↗ a+b two layers › Alpha-beta plaits › MTH1187/YkoF-like › MTH1187/YkoF-like › Thiamine_BP 0.54 47.0 4.47e-01 100.0% 87.6%
4930471 304.4.1.79 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › MCR_D 0.54 48.0 4.60e-01 100.0% 87.0%
4413532 304.3.1.4 ↗ a+b two layers › Alpha-beta plaits › HMA-related › HMA, heavy metal-associated domain › MCR_D 0.54 48.0 4.01e-01 100.0% 75.3%
5071360 304.1.1.1 ↗ a+b two layers › Alpha-beta plaits › GHMP Kinase, C-terminal domain › GHMP Kinase, C-terminal domain › GHMP_kinases_C 0.54 47.0 3.50e-01 98.8% 93.5%
3166936 304.9.1.1 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_1 0.54 46.0 4.47e-01 96.5% 85.9%
5073020 304.26.1.0 ↗ a+b two layers › Alpha-beta plaits › MTH1187/YkoF-like › MTH1187/YkoF-like 0.54 47.0 4.53e-01 100.0% 94.9%
3726378 304.4.1.4 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › ABM 0.54 47.0 4.44e-01 100.0% 92.4%
4953444 304.8.1.111 ↗ a+b two layers › Alpha-beta plaits › ACT-like › ACT-like › MCR_D 0.54 47.0 4.08e-01 100.0% 69.6%
4243720 304.56.1.2 ↗ a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like › CRISPR_Cas2 0.53 44.0 4.26e-01 100.0% 79.0%
5007807 304.26.1.1 ↗ a+b two layers › Alpha-beta plaits › MTH1187/YkoF-like › MTH1187/YkoF-like › Thiamine_BP 0.53 46.0 4.50e-01 100.0% 95.8%
5176 304.4.1.4 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › ABM 0.53 46.0 4.41e-01 100.0% 93.1%
5069565 304.26.1.0 ↗ a+b two layers › Alpha-beta plaits › MTH1187/YkoF-like › MTH1187/YkoF-like 0.53 46.0 4.52e-01 100.0% 92.6%
3919443 304.9.1.11 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › Nup35_RRM 0.53 45.0 4.13e-01 100.0% 72.2%
1039103 304.4.1.4 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › ABM 0.52 46.0 4.51e-01 100.0% 100.0%
3549981 304.24.1.1 ↗ a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like › EFG_C 0.52 41.0 3.55e-01 98.8% 53.6%
4248541 10.12.1.1 ↗ beta sandwiches › jelly-roll › Double-stranded beta-helix › Double-stranded beta-helix › cNMP_binding 0.52 39.0 3.34e-01 82.6% 82.0%
166596 304.4.1.4 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › ABM 0.52 45.0 4.37e-01 100.0% 99.0%
3382793 304.9.1.1 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_1 0.52 46.0 4.23e-01 98.8% 78.2%
3487000 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.52 45.0 4.55e-01 96.5% 97.6%
3933395 304.24.1.1 ↗ a+b two layers › Alpha-beta plaits › EF-G C-terminal domain-like › EF-G C-terminal domain-like › EFG_C 0.51 43.0 4.33e-01 97.7% 95.3%
5020049 304.4.1.4 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › ABM 0.51 44.0 4.29e-01 98.8% 97.9%
4512887 304.1.1.1 ↗ a+b two layers › Alpha-beta plaits › GHMP Kinase, C-terminal domain › GHMP Kinase, C-terminal domain › GHMP_kinases_C 0.51 45.0 4.03e-01 97.7% 97.5%
4987446 298.2.1.1 ↗ a+b two layers › FwdE/GAPDH domain-like › FwdE-like › FwdE-like › FmdE 0.51 39.0 3.29e-01 82.6% 79.3%
4666097 212.1.1.0 ↗ a+b two layers › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like › Ribosomal protein S5 domain 2-like 0.51 38.0 2.82e-01 97.7% 27.8%
1933419 304.4.1.4 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › ABM 0.51 44.0 3.92e-01 100.0% 80.6%
3250126 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.51 44.0 4.23e-01 97.7% 86.0%