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MK308676.1__QAX96831.1__X__00205

Bact-Vir

MK308676.1__QAX96831.1__X__00205

Identity

Accession:
MK308676 ↗
Kingdom:
phage

Quality

64.5 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Vibrio_phage_vB_VmeM-Yong_MS31

TaxID: 2500764

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 6-61
PDB
Domain cluster: rep: OV032902.1__CAH0447865.1__SM033_00041__00041__D57-104
CATH (32)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1wvvB01 2.10.10.20 Mainly Beta › Ribbon › Seminal Fluid Protein PDC-109 (Domain B) › Carbohydrate-binding module superfamily 5/12 0.86 65.0 7.01e-01 85.7% 93.8%
1goiB03 2.10.10.20 Mainly Beta › Ribbon › Seminal Fluid Protein PDC-109 (Domain B) › Carbohydrate-binding module superfamily 5/12 0.81 62.0 6.50e-01 87.5% 90.2%
3wx7A02 2.10.10.90 Mainly Beta › Ribbon › Seminal Fluid Protein PDC-109 (Domain B) › 0.79 62.0 5.13e-01 83.9% 49.5%
1ed7A00 2.10.10.20 Mainly Beta › Ribbon › Seminal Fluid Protein PDC-109 (Domain B) › Carbohydrate-binding module superfamily 5/12 0.78 59.0 6.44e-01 80.4% 100.0%
2rtsA00 2.10.10.20 Mainly Beta › Ribbon › Seminal Fluid Protein PDC-109 (Domain B) › Carbohydrate-binding module superfamily 5/12 0.75 68.0 6.19e-01 100.0% 90.4%
1wxrA03 3.30.160.280 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.74 62.0 5.55e-01 91.1% 73.7%
1aiwA00 2.10.10.20 Mainly Beta › Ribbon › Seminal Fluid Protein PDC-109 (Domain B) › Carbohydrate-binding module superfamily 5/12 0.72 57.0 5.52e-01 85.7% 87.1%
1yueA02 2.10.10.40 Mainly Beta › Ribbon › Seminal Fluid Protein PDC-109 (Domain B) › 0.71 58.0 5.67e-01 91.1% 98.4%
4oj5A02 2.10.10.80 Mainly Beta › Ribbon › Seminal Fluid Protein PDC-109 (Domain B) › 0.65 52.0 4.89e-01 92.9% 93.0%
4m0hA01 2.60.120.1440 Mainly Beta › Sandwich › Jelly Rolls › 0.61 49.0 3.81e-01 94.6% 46.8%
2nqwA00 3.30.465.10 Alpha Beta › 2-Layer Sandwich › Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3 › 0.60 42.0 3.69e-01 82.1% 47.1%
4maaA02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.60 52.0 3.75e-01 100.0% 34.7%
1cb8A02 2.70.98.10 Mainly Beta › Distorted Sandwich › Beta-galactosidase; Chain A, domain 5 › 0.60 47.0 3.14e-01 89.3% 35.4%
4amcA01 2.30.30.20 Mainly Beta › Roll › SH3 type barrels. › Aspartate carbamoyltransferase regulatory subunit, C-terminal domain 0.60 37.0 4.07e-01 76.8% 78.3%
3agjF01 2.30.30.870 Mainly Beta › Roll › SH3 type barrels. › Pelota, domain A 0.59 48.0 3.69e-01 89.3% 57.5%
2k6pA00 3.10.290.10 Alpha Beta › Roll › Structural Genomics Hypothetical 15.5 Kd Protein In mrcA-pckA Intergenic Region; Chain A › RNA-binding S4 domain 0.59 45.0 4.02e-01 83.9% 95.2%
7ecrA01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.59 47.0 3.41e-01 96.4% 45.4%
4lqeA00 3.40.1350.140 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › MepB-like 0.58 48.0 3.72e-01 100.0% 73.2%
5gudA03 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.58 47.0 3.52e-01 98.2% 44.8%
3tqqA02 3.10.25.10 Alpha Beta › Roll › Methionyl-tRNA Fmet Formyltransferase; Chain A, domain 2 › Formyl transferase, C-terminal domain 0.57 46.0 3.79e-01 91.1% 77.4%
4p22A01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.56 45.0 3.11e-01 94.6% 49.3%
1xg9A02 3.10.25.20 Alpha Beta › Roll › Methionyl-tRNA Fmet Formyltransferase; Chain A, domain 2 › 0.55 43.0 4.26e-01 92.9% 96.8%
3qeeB00 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.54 40.0 2.58e-01 83.9% 53.8%
3v7dD02 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.53 41.0 2.52e-01 85.7% 48.4%
7x36A01 2.120.10.30 Mainly Beta › 6 Propeller › Neuraminidase › TolB, C-terminal domain 0.52 39.0 2.48e-01 83.9% 55.1%
3dasA00 2.120.10.30 Mainly Beta › 6 Propeller › Neuraminidase › TolB, C-terminal domain 0.52 43.0 2.75e-01 100.0% 33.5%
3vmaA03 3.30.2060.10 Alpha Beta › 2-Layer Sandwich › Penicillin-binding protein 1b fold › Penicillin-binding protein 1b domain 0.51 38.0 3.28e-01 94.6% 50.0%
2vsmA00 2.120.10.10 Mainly Beta › 6 Propeller › Neuraminidase › 0.51 38.0 2.33e-01 83.9% 62.5%
3klkA01 2.10.270.10 Mainly Beta › Ribbon › left handed beta-beta-3-solenoid › Cholin Binding 0.51 36.0 2.76e-01 80.4% 43.5%
3rp6A02 3.30.9.30 Alpha Beta › 2-Layer Sandwich › D-Amino Acid Oxidase; Chain A, domain 2 › 0.50 43.0 2.93e-01 100.0% 70.6%
2k6hA01 3.40.420.10 Alpha Beta › 3-Layer(aba) Sandwich › Ricin (A subunit); domain 1 › Ricin (A subunit), domain 1 0.50 42.0 3.10e-01 98.2% 81.7%
3dc4A00 3.40.850.10 Alpha Beta › 3-Layer(aba) Sandwich › Kinesin › Kinesin motor domain 0.50 36.0 2.31e-01 76.8% 94.5%
ECOD (40)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3972100 64.3.1.0 ↗ beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain 0.88 70.0 6.60e-01 87.5% 72.3%
4009008 64.3.1.1 ↗ beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain › CBM_5_12 0.85 66.0 6.70e-01 82.1% 96.4%
5026481 64.3.1.3 ↗ beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain › CBM_5_12_2 0.84 64.0 6.72e-01 87.5% 90.0%
4110715 64.3.1.1 ↗ beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain › CBM_5_12 0.84 66.0 6.55e-01 83.9% 81.4%
3971347 64.3.1.1 ↗ beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain › CBM_5_12 0.83 68.0 6.74e-01 87.5% 86.2%
1694867 64.3.1.1 ↗ beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain › CBM_5_12 0.83 66.0 6.83e-01 85.7% 96.2%
1322863 64.3.1.1 ↗ beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain › CBM_5_12 0.83 63.0 6.90e-01 80.4% 100.0%
1322862 64.3.1.1 ↗ beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain › CBM_5_12 0.83 65.0 7.00e-01 83.9% 97.9%
4307941 64.3.1.1 ↗ beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain › CBM_5_12 0.82 66.0 6.49e-01 85.7% 98.3%
3976685 64.3.1.1 ↗ beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain › CBM_5_12 0.81 65.0 6.65e-01 85.7% 98.1%
2389402 64.3.1.0 ↗ beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain 0.80 62.0 6.30e-01 87.5% 85.2%
4009007 64.3.1.0 ↗ beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain 0.80 63.0 6.65e-01 85.7% 96.0%
4026053 64.3.1.0 ↗ beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain 0.79 52.0 6.00e-01 73.2% 95.0%
3981632 70.4.1.9 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) › Phage_cement_2 0.77 49.0 5.61e-01 76.8% 92.5%
4233290 64.3.1.0 ↗ beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain 0.76 62.0 6.51e-01 92.9% 100.0%
1291025 64.3.1.1 ↗ beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain › CBM_5_12 0.75 68.0 6.19e-01 100.0% 90.4%
3222227 206.1.1.0 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase 0.74 47.0 2.86e-01 73.2% 11.1%
4177188 3312.1.1.0 ↗ a+b two layers › Domain 2 in immunoglobulin A protease › Domain 2 in immunoglobulin A protease › Domain 2 in immunoglobulin A protease 0.73 62.0 5.64e-01 94.6% 73.3%
4009012 64.3.1.0 ↗ beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain 0.69 58.0 5.57e-01 92.9% 82.8%
4887092 2002.1.1.0 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels 0.69 60.0 5.33e-01 100.0% 82.1%
4024504 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.68 43.0 3.50e-01 89.3% 36.0%
2736862 64.3.1.0 ↗ beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain 0.63 49.0 4.71e-01 89.3% 80.9%
5051212 506.2.1.2 ↗ beta meanders › Colicin E3 ribonuclease domain-like › UvrB interaction domain › UvrB interaction domain › UvrB_inter 0.61 39.0 3.44e-01 94.6% 41.1%
4135015 506.2.1.2 ↗ beta meanders › Colicin E3 ribonuclease domain-like › UvrB interaction domain › UvrB interaction domain › UvrB_inter 0.60 39.0 3.39e-01 94.6% 41.1%
3532104 219.1.1.97 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › CEPT76_peptidase 0.59 49.0 3.30e-01 100.0% 76.5%
4682340 325.1.7.2 ↗ a+b complex topology › alpha/beta-Hammerhead/Barrel-sandwich hybrid › alpha/beta-Hammerhead/Barrel-sandwich hybrid › Single hybrid motif › RNA_pol_Rpb2_6 0.58 44.0 3.42e-01 82.1% 67.2%
3285681 244.1.1.0 ↗ a+b two layers › FAD-linked reductases, C-terminal domain-like › FAD-linked reductases-C › FAD-linked reductases-C 0.57 45.0 3.66e-01 87.5% 91.8%
3494276 5104.1.1.4 ↗ a+b three layers › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › C-terminal domain in DHH phosphoesterases › UPF0160 0.57 47.0 3.73e-01 96.4% 70.4%
3955634 4052.1.1.0 ↗ beta complex topology › Acyl-CoA dehydrogenase middle domain-like › Acyl-CoA dehydrogenase middle domain-like › Acyl-CoA dehydrogenase middle domain-like 0.56 48.0 4.32e-01 96.4% 76.2%
4382986 2004.1.1.159 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Mur_ligase_M 0.55 48.0 3.24e-01 100.0% 26.4%
4594881 270.1.1.2 ↗ beta barrels › FMT C-terminal domain-like › FMT C-terminal domain-related › FMT C-terminal domain-related › Formyl_trans_C 0.54 44.0 3.62e-01 94.6% 79.1%
3164741 506.2.1.1 ↗ beta meanders › Colicin E3 ribonuclease domain-like › UvrB interaction domain › UvrB interaction domain › UB2H 0.54 39.0 3.54e-01 94.6% 56.2%
3216530 2007.2.3.1 ↗ a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › (Phosphotyrosine protein) phosphatases II › Y_phosphatase 0.53 43.0 2.70e-01 92.9% 16.5%
3587882 316.1.1.34 ↗ a+b three layers › Nucleotidyltransferase-like › Nucleotidyltransferase › Nucleotidyltransferase › DncV-like_NTFase 0.53 43.0 3.22e-01 98.2% 57.6%
3245872 2008.1.1.24 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › PDCD9 0.52 45.0 2.73e-01 100.0% 37.3%
3472174 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.52 43.0 2.49e-01 89.3% 27.8%
4119514 2004.1.1.159 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Mur_ligase_M 0.51 43.0 2.93e-01 100.0% 29.1%
4632179 506.2.1.1 ↗ beta meanders › Colicin E3 ribonuclease domain-like › UvrB interaction domain › UvrB interaction domain › UB2H 0.51 38.0 3.22e-01 94.6% 47.4%
None — 0.50 42.0 2.39e-01 96.4% 20.0%
3687155 244.1.1.0 ↗ a+b two layers › FAD-linked reductases, C-terminal domain-like › FAD-linked reductases-C › FAD-linked reductases-C 0.50 42.0 3.25e-01 100.0% 67.6%
D2 medium residues 64-164
PDB