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NC_070948.1__YP_010667038.1__PQB84_gp059__00065

Bact-Vir

NC_070948.1__YP_010667038.1__PQB84_gp059__00065

Identity

Accession:
NC_070948 ↗
Kingdom:
phage

Quality

75.3 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Mollymurvirus› Gordonia_phage_Mollymur

TaxID: 2590895

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 34-125
PDB
Domain cluster: representative
CATH (1)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2fh5B00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.52 40.0 3.26e-01 83.7% 95.7%
ECOD (3)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4015074 267.1.1.0 ↗ a+b complex topology › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain 0.55 39.0 2.91e-01 72.8% 35.3%
4015767 267.1.1.0 ↗ a+b complex topology › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain › Metal cation-transporting ATPase, ATP-binding domain 0.53 37.0 2.80e-01 73.9% 40.0%
3923166 5001.1.1.44 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7TM_GPCR_Srv 0.52 39.0 2.68e-01 81.5% 59.4%
D2 high residues 132-193
PDB
Domain cluster: representative
CATH (39)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1gqeA03 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.86 74.0 6.61e-01 91.9% 91.6%
3k6qA02 3.30.160.620 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.83 66.0 5.83e-01 91.9% 59.6%
2yztA00 3.30.160.250 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.74 55.0 5.41e-01 85.5% 74.2%
2rqlA00 3.30.160.100 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Ribosome hibernation promotion factor-like 0.74 68.0 5.82e-01 100.0% 65.3%
2dmyA00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.74 57.0 4.92e-01 83.9% 57.7%
2nugB02 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.73 59.0 5.64e-01 87.1% 80.3%
3rauA00 1.25.40.280 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › alix/aip1 like domains 0.67 50.0 3.06e-01 79.0% 24.3%
3hxlA02 2.60.40.4290 Mainly Beta › Sandwich › Immunoglobulin-like › 0.66 47.0 4.20e-01 79.0% 52.2%
2d9xA01 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.64 48.0 3.99e-01 98.4% 45.5%
3razA00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.64 44.0 3.49e-01 72.6% 87.4%
3us4A00 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.64 46.0 3.95e-01 75.8% 68.0%
1nrvA00 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.63 45.0 3.84e-01 75.8% 66.0%
1kz7C02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.62 51.0 3.94e-01 90.3% 40.1%
2ci9B00 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.62 50.0 4.23e-01 87.1% 68.0%
4nwyA00 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.61 47.0 3.82e-01 85.5% 83.6%
1httA02 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.61 41.0 3.58e-01 71.0% 95.9%
2i1yA00 3.90.190.10 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily 0.61 51.0 3.27e-01 91.9% 98.3%
1milA00 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.59 45.0 3.80e-01 80.6% 66.3%
1wu7A03 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.59 42.0 3.65e-01 75.8% 100.0%
2kv1A01 2.170.150.20 Mainly Beta › Beta Complex › Metal Binding Protein, Guanine Nucleotide Exchange Factor; Chain A › Peptide methionine sulfoxide reductase. 0.59 44.0 4.08e-01 83.9% 95.3%
2q5iA03 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.59 46.0 3.75e-01 87.1% 84.3%
1vw5A00 3.30.70.1420 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › Structure from the mobile metagenome of cole harbour salt marsh: integron cassette protein hfx_cass1 0.59 49.0 3.73e-01 93.5% 43.0%
2rghA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.59 47.0 3.20e-01 90.3% 84.3%
2j3lA01 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.58 42.0 3.48e-01 77.4% 89.4%
2pn2A00 3.30.300.20 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › K homology (KH) domain 0.58 45.0 3.65e-01 91.9% 46.0%
4chjA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.57 43.0 3.44e-01 82.3% 91.1%
4ge6A00 3.90.190.10 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily 0.56 47.0 3.03e-01 95.2% 93.7%
4eqsA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.55 36.0 2.59e-01 93.5% 24.1%
5c3vA01 3.30.800.10 Alpha Beta › 2-Layer Sandwich › Phosphatidylinositol Phosphate Kinase II Beta › Phosphatidylinositol Phosphate Kinase II Beta 0.55 39.0 2.92e-01 75.8% 52.1%
2bzlA00 3.90.190.10 Alpha Beta › Alpha-Beta Complex › Protein-Tyrosine Phosphatase; Chain A › Protein tyrosine phosphatase superfamily 0.55 42.0 2.74e-01 82.3% 78.9%
2lg1A02 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.55 45.0 3.68e-01 91.9% 48.7%
1fumA01 3.50.50.60 Alpha Beta › 3-Layer(bba) Sandwich › FAD/NAD(P)-binding domain › FAD/NAD(P)-binding domain 0.54 45.0 2.98e-01 100.0% 96.4%
2yvtA00 3.60.21.10 Alpha Beta › 4-Layer Sandwich › Purple Acid Phosphatase; chain A, domain 2 › Metallo-dependent phosphatases 0.52 38.0 2.56e-01 100.0% 19.5%
7ne4A01 2.130.10.120 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › Prolyl oligopeptidase, N-terminal domain 0.52 37.0 2.41e-01 79.0% 14.9%
4f9zA01 3.40.30.10 Alpha Beta › 3-Layer(aba) Sandwich › Glutaredoxin › Glutaredoxin 0.51 37.0 3.25e-01 80.6% 81.6%
2wfbA00 3.30.420.130 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Dinitrogenase iron-molybdenum cofactor biosynthesis domain 0.51 39.0 3.18e-01 83.9% 52.5%
1atiB02 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.51 39.0 3.37e-01 90.3% 94.6%
1rpyB00 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.50 43.0 3.85e-01 93.5% 97.7%
1nj1A02 3.40.50.800 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Anticodon-binding domain 0.50 36.0 3.21e-01 82.3% 100.0%
ECOD (59)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4992374 4100.1.1.0 ↗ a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like 0.90 75.0 7.42e-01 100.0% 84.6%
5020790 4100.1.1.0 ↗ a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like 0.89 63.0 6.74e-01 82.3% 83.6%
4959886 4100.1.1.0 ↗ a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like 0.87 65.0 6.92e-01 83.9% 87.3%
5015133 4100.1.1.9 ↗ a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › DUF7387 0.87 65.0 6.68e-01 85.5% 81.7%
4965851 4100.1.1.9 ↗ a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › DUF7387 0.86 61.0 6.47e-01 79.0% 83.6%
5020788 4100.1.1.0 ↗ a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like 0.86 66.0 6.50e-01 88.7% 76.9%
4969162 4100.1.1.0 ↗ a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like 0.85 64.0 6.56e-01 85.5% 81.7%
3390566 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.84 75.0 6.33e-01 100.0% 61.0%
5032509 4100.1.1.0 ↗ a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like 0.83 70.0 6.88e-01 96.8% 87.7%
4646999 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.82 74.0 6.61e-01 96.8% 84.3%
3517888 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.81 70.0 6.10e-01 93.5% 70.0%
3661468 330.3.1.1 ↗ a+b two layers › dsRBD-like › Peptidyl-tRNA hydrolase domain-like › Peptidyl-tRNA hydrolase domain-like › RF-1 0.79 73.0 6.23e-01 100.0% 76.8%
3708684 330.3.1.1 ↗ a+b two layers › dsRBD-like › Peptidyl-tRNA hydrolase domain-like › Peptidyl-tRNA hydrolase domain-like › RF-1 0.79 70.0 6.23e-01 96.8% 85.9%
4665955 330.3.1.0 ↗ a+b two layers › dsRBD-like › Peptidyl-tRNA hydrolase domain-like › Peptidyl-tRNA hydrolase domain-like 0.78 71.0 6.31e-01 100.0% 85.9%
4969758 7089.1.1.0 ↗ a+b two layers › Methane monooxygenase hydroxylase, MmoD › Methane monooxygenase hydroxylase, MmoD › Methane monooxygenase hydroxylase, MmoD 0.77 66.0 5.83e-01 98.4% 64.4%
4959885 4100.1.1.0 ↗ a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like 0.77 67.0 5.92e-01 93.5% 69.4%
3591242 330.3.1.1 ↗ a+b two layers › dsRBD-like › Peptidyl-tRNA hydrolase domain-like › Peptidyl-tRNA hydrolase domain-like › RF-1 0.74 64.0 5.06e-01 95.2% 56.0%
3785552 330.3.1.1 ↗ a+b two layers › dsRBD-like › Peptidyl-tRNA hydrolase domain-like › Peptidyl-tRNA hydrolase domain-like › RF-1 0.74 64.0 4.86e-01 95.2% 51.4%
1396826 4100.1.1.0 ↗ a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like 0.73 55.0 5.39e-01 85.5% 74.6%
3715871 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.73 60.0 4.75e-01 90.3% 48.8%
3753952 330.3.1.1 ↗ a+b two layers › dsRBD-like › Peptidyl-tRNA hydrolase domain-like › Peptidyl-tRNA hydrolase domain-like › RF-1 0.72 61.0 4.89e-01 95.2% 56.0%
3820953 330.3.1.1 ↗ a+b two layers › dsRBD-like › Peptidyl-tRNA hydrolase domain-like › Peptidyl-tRNA hydrolase domain-like › RF-1 0.69 60.0 5.36e-01 100.0% 88.9%
4024573 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.68 52.0 4.33e-01 100.0% 48.6%
5072324 101.1.2.70 ↗ alpha arrays › HTH › HTH › winged helix domain › PqqD 0.67 46.0 4.02e-01 72.6% 75.8%
3261192 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.66 54.0 4.26e-01 88.7% 45.0%
3757091 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.65 52.0 4.08e-01 88.7% 41.5%
3699899 214.1.1.6 ↗ a+b two layers › SH2 › SH2 › SH2 › SH2_2 0.64 48.0 3.95e-01 100.0% 42.5%
3403344 386.1.1.4 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › zf-BED 0.64 45.0 4.63e-01 77.4% 78.3%
3271679 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.64 53.0 4.00e-01 90.3% 37.9%
4823230 220.1.1.66 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › SOS1_NGEF_PH 0.64 52.0 4.76e-01 88.7% 80.2%
3524527 220.1.1.33 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_8 0.63 52.0 4.34e-01 98.4% 50.9%
3798262 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.63 52.0 3.92e-01 90.3% 38.0%
3733331 708.1.2.10 ↗ beta complex topology › ETN0001 domain-like › ETN0001 domain-like › Mss4-like › HECT_2 0.63 51.0 4.23e-01 91.9% 74.8%
3407061 220.1.1.47 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_16 0.62 50.0 3.81e-01 90.3% 37.2%
3620293 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.62 57.0 4.38e-01 100.0% 63.8%
3882796 1021.1.1.2 ↗ a+b two layers › C-terminal domain in RNA helicases › C-terminal domain in RNA helicases › C-terminal domain in RNA helicases › RNA_hel_CTD 0.62 47.0 4.26e-01 87.1% 60.0%
3533362 220.1.1.47 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_16 0.61 50.0 3.71e-01 93.5% 34.5%
4989864 375.1.1.0 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related 0.61 39.0 2.99e-01 88.7% 27.3%
3597599 214.1.1.0 ↗ a+b two layers › SH2 › SH2 › SH2 0.60 48.0 4.10e-01 87.1% 76.0%
3300134 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.60 40.0 4.39e-01 79.0% 95.6%
3548274 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.59 54.0 4.29e-01 100.0% 94.2%
3937948 220.1.1.47 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_16 0.58 47.0 3.53e-01 88.7% 35.5%
3199911 708.1.2.0 ↗ beta complex topology › ETN0001 domain-like › ETN0001 domain-like › Mss4-like 0.57 44.0 3.57e-01 85.5% 89.6%
3233071 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.57 44.0 3.71e-01 87.1% 48.6%
4994848 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.57 42.0 3.65e-01 82.3% 96.2%
3222762 386.1.1.0 ↗ few secondary structure elements › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers › beta-beta-alpha zinc fingers 0.56 44.0 4.15e-01 90.3% 92.5%
4098704 4167.1.1.1 ↗ beta complex topology › Flagellar hook protein flgE D1 domain › Flagellar hook protein flgE D1 domain › Flagellar hook protein flgE D1 domain › LlgE_F_G_D1 0.56 47.0 3.67e-01 98.4% 84.8%
3424116 4.1.1.12 ↗ beta barrels › SH3 › SH3 › SH3 › PWWP 0.56 46.0 3.73e-01 91.9% 82.5%
3766764 214.1.1.0 ↗ a+b two layers › SH2 › SH2 › SH2 0.56 45.0 2.90e-01 88.7% 25.6%
3381974 2003.1.2.47 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › NDH2_C 0.55 39.0 2.69e-01 98.4% 20.4%
4275104 7502.1.1.0 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS 0.55 45.0 3.84e-01 100.0% 100.0%
3453746 5.1.3.117 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › Kelch_1+Kelch_KLHDC2_KLHL20_DRC7 0.54 39.0 2.57e-01 80.6% 25.1%
4369733 375.1.1.145 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Rubredoxin-related › FdhE_C 0.54 38.0 3.56e-01 72.6% 88.0%
3812754 5.1.3.67 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › FBA_1 0.54 40.0 2.63e-01 77.4% 98.7%
4677990 7502.1.1.1 ↗ a/b three-layered sandwiches › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › Anticodon-binding domain of Class II aaRS › HGTP_anticodon 0.53 40.0 3.31e-01 82.3% 88.7%
3560565 220.1.1.47 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH_16 0.52 42.0 2.97e-01 98.4% 26.7%
4971601 241.14.1.0 ↗ a+b two layers › Type III secretory system chaperone-like › SARS-unique domain-C › SARS-unique domain-C 0.51 40.0 3.90e-01 87.1% 91.4%
3641336 2003.1.5.353 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › PIP5K 0.51 36.0 2.57e-01 95.2% 22.9%
3783912 59.1.1.6 ↗ beta complex topology › triple barrel › triple barrel › Rap30/74 interaction domains-like › TFIIIC_sub6 0.50 35.0 3.34e-01 72.6% 82.4%