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MN379460.1__QGH75021.1__RostovM3_00059__00023

Bact-Vir

MN379460.1__QGH75021.1__RostovM3_00059__00023

Identity

Accession:
MN379460 ↗
Kingdom:
phage

Quality

83.1 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Vibrio_phage_Rostov_M3

TaxID: 2660724

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 10-69
PDB
Domain cluster: representative
CATH (38)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3ngxA02 3.40.50.10860 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Leucine Dehydrogenase, chain A, domain 1 0.71 44.0 3.99e-01 86.7% 45.2%
2j5bB01 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.69 45.0 3.14e-01 71.7% 20.8%
3qq5A02 3.40.50.11420 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.64 43.0 3.59e-01 73.3% 38.5%
1nj1A02 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.64 44.0 3.64e-01 95.0% 41.3%
2qu8A00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.63 46.0 3.29e-01 96.7% 24.7%
1u6zA04 3.30.70.2260 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.63 44.0 4.60e-01 100.0% 84.9%
2yv9A01 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.62 48.0 3.95e-01 88.3% 46.4%
3r3pB00 3.40.960.10 Alpha Beta › 3-Layer(aba) Sandwich › Endonuclease; Chain A › VSR Endonuclease 0.60 42.0 3.62e-01 100.0% 44.9%
4joqA01 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.60 44.0 3.42e-01 83.3% 34.0%
4dddA01 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.60 42.0 3.07e-01 91.7% 27.2%
3qk7A01 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.60 40.0 3.14e-01 95.0% 30.4%
3a1iA02 3.90.1300.10 Alpha Beta › Alpha-Beta Complex › Amidase signature (AS) enzymes › Amidase signature (AS) domain 0.60 41.0 2.47e-01 73.3% 9.7%
3q6oA01 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.59 42.0 3.35e-01 98.3% 35.4%
1xknA00 3.75.10.10 Alpha Beta › 5-stranded Propeller › L-arginine/glycine Amidinotransferase; Chain A › L-arginine/glycine Amidinotransferase; Chain A 0.59 43.0 2.70e-01 100.0% 13.6%
3qi7A02 3.40.50.11390 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.59 43.0 3.12e-01 98.3% 28.1%
2dxnA02 3.30.750.180 Alpha Beta › 2-Layer Sandwich › Transcription Regulator spoIIAA › GpdQ, beta-strand dimerisation domain 0.57 42.0 3.41e-01 100.0% 38.9%
4m9rB00 3.40.50.1460 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.56 41.0 2.81e-01 78.3% 28.3%
4yleA01 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.56 37.0 2.92e-01 71.7% 29.9%
2vxbA02 3.40.50.10190 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › BRCT domain 0.56 35.0 3.22e-01 73.3% 45.7%
3bblA01 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.55 37.0 2.91e-01 95.0% 30.4%
4ze8A03 3.10.105.10 Alpha Beta › Roll › Dipeptide-binding Protein; domain 3 › Dipeptide-binding Protein; Domain 3 0.55 44.0 3.03e-01 86.7% 92.9%
4cp8E00 3.90.1300.10 Alpha Beta › Alpha-Beta Complex › Amidase signature (AS) enzymes › Amidase signature (AS) domain 0.55 45.0 2.75e-01 98.3% 32.4%
4eadA02 3.40.1030.10 Alpha Beta › 3-Layer(aba) Sandwich › Pyrimidine Nucleoside Phosphorylase; Chain A, domain 2 › Nucleoside phosphorylase/phosphoribosyltransferase catalytic domain 0.55 43.0 2.96e-01 90.0% 37.1%
4c0rA02 3.40.190.10 Alpha Beta › 3-Layer(aba) Sandwich › D-Maltodextrin-Binding Protein; domain 2 › Periplasmic binding protein-like II 0.54 34.0 2.94e-01 100.0% 37.3%
5xilA02 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.54 41.0 3.26e-01 91.7% 39.1%
2fp3A01 3.40.50.1460 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.54 39.0 2.66e-01 86.7% 20.7%
1pyoC00 3.40.50.1460 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.53 40.0 2.96e-01 88.3% 30.4%
4g6uA02 3.40.1350.110 Alpha Beta › 3-Layer(aba) Sandwich › Trna Endonuclease; Chain: A, domain 1 › 0.52 44.0 3.49e-01 100.0% 66.7%
3ausA00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.52 46.0 3.00e-01 100.0% 66.8%
5ewqC00 3.90.1300.10 Alpha Beta › Alpha-Beta Complex › Amidase signature (AS) enzymes › Amidase signature (AS) domain 0.52 40.0 2.50e-01 95.0% 28.1%
2hw4A01 3.50.20.20 Alpha Beta › 3-Layer(bba) Sandwich › Pyruvoyl-Dependent Histidine Decarboxylase; Chain B › Janus/Ocnus 0.52 35.0 2.96e-01 100.0% 39.1%
3w5xA00 3.30.70.1350 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Cation efflux protein, cytoplasmic domain 0.52 41.0 3.76e-01 100.0% 65.0%
3if5A02 3.30.750.24 Alpha Beta › 2-Layer Sandwich › Transcription Regulator spoIIAA › STAS domain 0.52 45.0 4.02e-01 100.0% 82.0%
3m9wA02 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.51 37.0 2.77e-01 100.0% 28.4%
1zbqA01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.51 45.0 3.02e-01 100.0% 73.4%
6hcdD00 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.51 45.0 3.51e-01 100.0% 52.6%
3ksuB00 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.50 42.0 2.87e-01 95.0% 26.9%
3bghB01 3.30.160.180 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Putative neuraminyllactose-binding hemagglutinin homolog like domain 0.50 37.0 2.68e-01 91.7% 28.1%
ECOD (35)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
None — 0.75 50.0 3.59e-01 73.3% 24.7%
3290834 2007.2.1.3 ↗ a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › Flavoproteins › FMN_red 0.69 47.0 3.25e-01 91.7% 21.2%
3958053 2007.2.1.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › Flavoproteins 0.68 49.0 3.64e-01 76.7% 30.3%
3955459 2007.2.1.3 ↗ a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › Flavoproteins › FMN_red 0.68 49.0 3.25e-01 76.7% 20.0%
3275661 2007.1.3.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › CheY-like 0.65 43.0 3.26e-01 71.7% 28.3%
4030490 2008.1.1.124 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › DUF6831 0.65 47.0 3.94e-01 100.0% 44.8%
3808446 7568.1.1.0 ↗ a/b three-layered sandwiches › BRCT domain › BRCT domain › BRCT domain 0.62 45.0 3.58e-01 76.7% 42.6%
4028819 2008.1.1.86 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › RAP 0.61 45.0 3.74e-01 100.0% 44.8%
3673147 2008.1.1.86 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › RAP 0.61 44.0 3.62e-01 100.0% 40.9%
3949791 2004.1.1.84 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › TsaE 0.58 43.0 3.32e-01 100.0% 33.3%
3971663 2003.1.10.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › PreATP-grasp domain 0.57 39.0 3.31e-01 75.0% 41.0%
4400197 7503.1.1.5 ↗ a/b three-layered sandwiches › TolB, N-terminal domain › TolB, N-terminal domain › TolB, N-terminal domain › NLBH 0.57 40.0 3.18e-01 75.0% 40.0%
4955395 2007.1.1.59 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Class I glutamine amidotransferase-like › PF27344 0.57 39.0 2.71e-01 90.0% 20.5%
1070075 7552.1.1.1 ↗ a/b three-layered sandwiches › Amidase signature (AS) enzymes › Amidase signature (AS) enzymes › Amidase signature (AS) enzymes › Amidase 0.56 46.0 2.80e-01 95.0% 23.4%
3732183 7510.1.1.1 ↗ a/b three-layered sandwiches › Isocitrate/Isopropylmalate dehydrogenase-like › Isocitrate/Isopropylmalate dehydrogenase-like › Isocitrate/Isopropylmalate dehydrogenase-like › Iso_dh 0.56 47.0 3.59e-01 100.0% 90.3%
3568683 2008.1.1.127 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › FAST_2+RAP 0.56 48.0 3.85e-01 100.0% 55.2%
1836756 2007.1.2.0 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Periplasmic binding protein-like I 0.55 37.0 3.12e-01 93.3% 39.4%
3971833 7552.1.1.1 ↗ a/b three-layered sandwiches › Amidase signature (AS) enzymes › Amidase signature (AS) enzymes › Amidase signature (AS) enzymes › Amidase 0.54 44.0 2.71e-01 95.0% 24.6%
3855879 2006.1.4.0 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like 0.54 36.0 2.72e-01 70.0% 26.5%
3394261 327.11.1.4 ↗ a+b two layers › Alpha-lytic protease prodomain-like › KH-domains › Prokaryotic type KH domain (KH-domain type II) › MRP-S24 0.54 39.0 3.03e-01 100.0% 34.1%
3747042 7552.1.1.1 ↗ a/b three-layered sandwiches › Amidase signature (AS) enzymes › Amidase signature (AS) enzymes › Amidase signature (AS) enzymes › Amidase 0.54 44.0 2.64e-01 96.7% 22.1%
204339 7552.1.1.1 ↗ a/b three-layered sandwiches › Amidase signature (AS) enzymes › Amidase signature (AS) enzymes › Amidase signature (AS) enzymes › Amidase 0.54 42.0 2.56e-01 93.3% 34.4%
4027911 2485.1.1.90 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like › Thioredox_PDIA6_C 0.53 37.0 3.06e-01 93.3% 36.8%
3915267 328.8.1.1 ↗ a+b two layers › IF3-like › Schlafen 8 › Schlafen 8 › SLFN_AlbA_2 0.53 41.0 3.40e-01 100.0% 46.4%
5079619 4143.1.1.1 ↗ a+b two layers › THUMP domain-like › THUMP domain-like › THUMP domain-like › THUMP 0.53 38.0 3.37e-01 98.3% 52.9%
4026875 2485.1.1.0 ↗ a+b three layers › Thioredoxin-like › Thioredoxin-like › Thioredoxin-like 0.53 36.0 3.39e-01 90.0% 55.0%
3740058 2003.1.1.30 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › ApbA 0.53 44.0 3.16e-01 100.0% 32.7%
3658604 2004.1.1.30 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Helicase_C 0.52 43.0 2.77e-01 91.7% 18.6%
3443018 2003.1.1.53 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains › NmrA 0.52 45.0 3.15e-01 100.0% 71.0%
5063412 206.1.3.19 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › ATP-grasp › Dala_Dala_lig_C 0.52 39.0 2.49e-01 81.7% 56.0%
4114093 2484.1.1.40 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RuvX 0.52 46.0 3.56e-01 100.0% 65.2%
5034795 327.7.1.1 ↗ a+b two layers › Alpha-lytic protease prodomain-like › Cation efflux protein cytoplasmic domain-like › Cation efflux protein cytoplasmic domain-like › ZT_dimer 0.52 39.0 3.78e-01 100.0% 72.0%
3271694 314.1.1.0 ↗ a+b three layers › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases › Class II aaRS and biotin synthetases 0.52 43.0 2.91e-01 93.3% 31.9%
4488030 2484.1.1.40 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RuvX 0.51 45.0 3.40e-01 100.0% 60.7%
3927513 109.4.1.192 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_8 0.50 41.0 2.98e-01 91.7% 31.4%