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NC_049371.1__YP_009875485.1__HYO98_gp07__00007

Bact-Vir

NC_049371.1__YP_009875485.1__HYO98_gp07__00007

Identity

Accession:
NC_049371 ↗
Kingdom:
phage

Quality

85.7 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Schitoviridae› Sanyabayvirus› Dinoroseobacter_phage_DS-1410Ws-06

TaxID: 1815983

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 5-63
PDB
Domain cluster: representative
CATH (41)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3b4nA01 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.71 56.0 4.96e-01 100.0% 59.1%
1lzwA00 3.30.1390.10 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein L30; Chain: A, › Ribosomal protein L7/L12, C-terminal domain/Adaptor protein ClpS 0.70 62.0 5.33e-01 96.6% 92.3%
1pzxA03 3.30.1180.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Protein Tm841; Chain: A;domain 3 › 0.68 51.0 3.98e-01 79.7% 88.5%
1qm9A02 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.67 58.0 5.10e-01 100.0% 92.1%
1svdM00 3.30.190.10 Alpha Beta › 2-Layer Sandwich › Ribulose 1,5 Bisphosphate Carboxylase/Oxygenase › Ribulose bisphosphate carboxylase, small subunit 0.65 55.0 4.63e-01 100.0% 54.6%
7wq5A01 3.30.730.10 Alpha Beta › 2-Layer Sandwich › GCC-box Binding Domain › AP2/ERF domain 0.64 44.0 4.46e-01 78.0% 72.4%
2rijA01 3.30.70.2010 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.61 52.0 3.89e-01 100.0% 65.7%
6a48A01 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.59 51.0 3.81e-01 100.0% 38.4%
2cg4A02 3.30.70.920 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Lrp/AsnC effector binding domain/regulation of amino acid metabolism (RAM) domain 0.59 49.0 4.41e-01 93.2% 90.5%
4ozjA00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.59 52.0 4.33e-01 100.0% 82.7%
4rx6D00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.59 52.0 4.29e-01 100.0% 86.0%
2zf8A01 2.60.40.2540 Mainly Beta › Sandwich › Immunoglobulin-like › 0.58 49.0 3.77e-01 100.0% 40.9%
1o51A00 3.30.70.120 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.58 50.0 4.46e-01 100.0% 97.8%
3n5fA02 3.30.70.360 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.58 48.0 3.97e-01 96.6% 100.0%
5tdeA02 3.30.1490.20 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › ATP-grasp fold, A domain 0.57 49.0 4.48e-01 98.3% 73.2%
1x4dA00 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.57 48.0 4.09e-01 98.3% 79.4%
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 0.57 48.0 4.11e-01 96.6% 80.8%
4b6uA00 3.30.760.10 Alpha Beta › 2-Layer Sandwich › RNA Cap, Translation Initiation Factor Eif4e › RNA Cap, Translation Initiation Factor Eif4e 0.56 48.0 3.36e-01 98.3% 29.5%
1zpwX00 3.30.70.240 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.56 47.0 4.31e-01 98.3% 84.1%
1tljB00 3.30.1960.10 Alpha Beta › 2-Layer Sandwich › SSo0622-like fold › tRNA wybutosine-synthesizing-like 0.55 45.0 3.33e-01 100.0% 39.4%
5abxA00 3.30.760.10 Alpha Beta › 2-Layer Sandwich › RNA Cap, Translation Initiation Factor Eif4e › RNA Cap, Translation Initiation Factor Eif4e 0.55 47.0 3.42e-01 98.3% 33.5%
3m1hD00 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.55 46.0 3.42e-01 100.0% 62.5%
2rilA00 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.54 45.0 4.00e-01 100.0% 97.9%
2cphA01 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.54 41.0 3.84e-01 86.4% 100.0%
5tf0B03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.54 46.0 3.77e-01 96.6% 64.0%
3vtiA01 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.54 44.0 3.87e-01 98.3% 83.3%
2hiyA01 3.30.70.1280 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › SP0830-like domains 0.54 43.0 3.95e-01 98.3% 92.0%
2mgzA00 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.53 44.0 3.86e-01 94.9% 87.2%
1gtdA00 3.30.1280.10 Alpha Beta › 2-Layer Sandwich › Mth169; Chain: A , › Phosphoribosylformylglycinamidine synthase subunit PurS 0.53 43.0 4.03e-01 98.3% 100.0%
2i8eA01 3.30.70.240 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.52 42.0 3.96e-01 94.9% 100.0%
5z9sA03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.52 45.0 3.56e-01 98.3% 61.8%
4gwmA02 2.60.120.200 Mainly Beta › Sandwich › Jelly Rolls › 0.52 44.0 3.30e-01 100.0% 56.1%
2yweA04 3.30.70.240 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.52 43.0 3.61e-01 100.0% 93.0%
1a7gE00 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.52 42.0 3.89e-01 96.6% 100.0%
2mzsA00 3.30.70.330 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › RRM (RNA recognition motif) domain 0.51 41.0 3.59e-01 94.9% 79.8%
2x41A03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.51 44.0 3.55e-01 98.3% 85.7%
2xqyA03 2.60.40.3190 Mainly Beta › Sandwich › Immunoglobulin-like › Herpesvirus glycoprotein H, C-terminal domain 0.51 42.0 3.37e-01 98.3% 85.0%
7bi2A02 2.60.40.150 Mainly Beta › Sandwich › Immunoglobulin-like › C2 domain 0.50 42.0 3.37e-01 100.0% 48.5%
3rgzA02 3.30.1490.310 Alpha Beta › 2-Layer Sandwich › Dna Ligase; domain 1 › 0.50 40.0 4.05e-01 98.3% 91.8%
3unpA00 2.60.120.260 Mainly Beta › Sandwich › Jelly Rolls › Galactose-binding domain-like 0.50 42.0 3.02e-01 100.0% 46.6%
5jp0A03 2.60.40.10 Mainly Beta › Sandwich › Immunoglobulin-like › Immunoglobulins 0.50 42.0 3.36e-01 94.9% 83.9%
ECOD (38)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3188457 3335.1.1.0 ↗ beta barrels › Handle domain in transferrin-binding protein B › Handle domain in transferrin-binding protein B › Handle domain in transferrin-binding protein B 0.75 62.0 5.47e-01 91.5% 100.0%
4981060 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.68 56.0 4.67e-01 100.0% 52.4%
3372009 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.66 58.0 5.10e-01 96.6% 97.6%
3986774 821.1.1.9 ↗ a+b three layers › GIY-YIG endonuclease › GIY-YIG endonuclease › GIY-YIG endonuclease › PF30054 0.63 48.0 4.08e-01 83.1% 75.0%
4945733 2006.1.3.0 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › Toprim domain 0.62 56.0 3.63e-01 100.0% 34.4%
3857592 382.1.1.1 ↗ few secondary structure elements › Snake toxin-like › Snake toxin-like › Snake toxin-like › UPAR_LY6 0.61 52.0 4.56e-01 98.3% 64.4%
3208942 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.60 53.0 4.64e-01 100.0% 95.6%
3884004 11.1.1.1016 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › PF30511 0.60 51.0 4.25e-01 100.0% 54.3%
3737645 304.9.1.1 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_1 0.59 51.0 4.56e-01 98.3% 94.1%
3932868 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.59 48.0 4.01e-01 100.0% 50.0%
4137585 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 50.0 4.53e-01 98.3% 81.2%
3932136 317.1.1.1 ↗ a+b two layers › Translation initiation factor eIF4e and phosphothreonine lyase › Translation initiation factor eIF4e and phosphothreonine lyase › Translation initiation factor eIF4e and phosphothreonine lyase › IF4E 0.59 48.0 3.47e-01 98.3% 51.0%
3197966 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.59 51.0 4.40e-01 100.0% 89.5%
3935834 304.9.1.1 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_1 0.59 49.0 3.97e-01 94.9% 90.4%
162529 317.1.1.1 ↗ a+b two layers › Translation initiation factor eIF4e and phosphothreonine lyase › Translation initiation factor eIF4e and phosphothreonine lyase › Translation initiation factor eIF4e and phosphothreonine lyase › IF4E 0.58 50.0 3.42e-01 98.3% 44.2%
4141632 304.12.1.1 ↗ a+b two layers › Alpha-beta plaits › Ribosomal protein S6 › Ribosomal protein S6 › Ribosomal_S6 0.58 50.0 4.31e-01 98.3% 100.0%
4987580 304.4.1.1 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › AsnC_trans_reg 0.58 48.0 4.28e-01 98.3% 83.3%
3935475 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.57 48.0 3.25e-01 100.0% 22.7%
3576143 221.1.1.113 ↗ a+b two layers › beta-Grasp › Ubiquitin-related › Ubiquitin-like › RA_3 0.57 48.0 3.99e-01 96.6% 60.9%
3268425 304.9.1.1 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_1 0.57 47.0 2.76e-01 94.9% 14.7%
3894642 11.1.1.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like 0.57 48.0 4.02e-01 100.0% 54.3%
3261320 317.1.1.1 ↗ a+b two layers › Translation initiation factor eIF4e and phosphothreonine lyase › Translation initiation factor eIF4e and phosphothreonine lyase › Translation initiation factor eIF4e and phosphothreonine lyase › IF4E 0.57 48.0 3.55e-01 98.3% 36.5%
3412857 11.1.1.469 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › fn3_4 0.56 48.0 3.99e-01 100.0% 55.5%
4356131 304.56.1.2 ↗ a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like › CRISPR_Cas2 0.56 47.0 4.22e-01 98.3% 82.4%
3397461 304.11.1.0 ↗ a+b two layers › Alpha-beta plaits › Probable ACP-binding domain of malonyl-CoA ACP transacylase › Probable ACP-binding domain of malonyl-CoA ACP transacylase 0.56 44.0 4.06e-01 93.2% 98.8%
4468258 304.56.1.2 ↗ a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like › CRISPR_Cas2 0.56 46.0 4.04e-01 98.3% 75.8%
4426624 304.56.1.2 ↗ a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like › CRISPR_Cas2 0.55 46.0 4.17e-01 98.3% 81.2%
3813495 304.9.1.0 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD 0.54 45.0 3.77e-01 96.6% 80.9%
166071 304.4.1.4 ↗ a+b two layers › Alpha-beta plaits › Dimeric alpha+beta barrel › Dimeric alpha+beta barrel › ABM 0.54 45.0 4.00e-01 100.0% 97.9%
4015473 11.1.3.0 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Cu,Zn superoxide dismutase-like 0.54 45.0 3.64e-01 100.0% 53.8%
3664975 207.1.1.323 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats › LRR_1, LRRNT_2, LRR_6, LRR_8, Island 0.54 43.0 2.44e-01 98.3% 6.9%
4260605 304.56.1.2 ↗ a+b two layers › Alpha-beta plaits › CRISPR associated protein Cas2-like › CRISPR associated protein Cas2-like › CRISPR_Cas2 0.54 44.0 3.96e-01 100.0% 75.3%
4977520 302.1.1.1 ↗ a+b two layers › Reverse ferredoxin › Lesion bypass DNA polymerase (Y-family), little finger domain › Lesion bypass DNA polymerase (Y-family), little finger domain › IMS_C 0.53 45.0 3.78e-01 100.0% 55.5%
3223720 11.1.1.2 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › fn3 0.53 41.0 3.54e-01 100.0% 51.4%
3387138 304.110.1.0 ↗ a+b two layers › Alpha-beta plaits › Acylphosphatase-like › Acylphosphatase-like 0.52 41.0 3.88e-01 93.2% 100.0%
4262316 11.1.1.68 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › Immunoglobulin-related › Immunoglobulin/Fibronectin type III/E set domains/PapD-like › ASF1_hist_chap 0.51 43.0 3.31e-01 100.0% 43.8%
3794768 10.32.1.28 ↗ beta sandwiches › jelly-roll › Galactose-binding domain-like › Galactose-binding domain-like › Sad1_UNC 0.51 44.0 3.18e-01 98.3% 52.0%
3690804 4121.1.1.0 ↗ a+b three layers › CorA soluble domain-like › CorA soluble domain-like › CorA soluble domain-like 0.50 40.0 2.61e-01 93.2% 47.6%