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MH019215.1__AVP41368.1__SEA_YARA_34__00034

Bact-Vir

MH019215.1__AVP41368.1__SEA_YARA_34__00034

Identity

Accession:
MH019215 ↗
Kingdom:
phage

Quality

88.8 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Streptomyces_phage_Yara

TaxID: 2126736

Cluster

View cluster (35 members)

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 20-199
PDB
Domain cluster: rep: IMGVR_UViG_3300010237_000006-3300010237-Ga0136250_1000002017__D103-269
CATH (23)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4ep4A00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.76 66.0 6.91e-01 90.0% 97.6%
3thxB02 3.30.420.110 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › MutS, connector domain 0.76 54.0 5.82e-01 90.6% 84.9%
3cj1A01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.65 51.0 5.44e-01 93.3% 94.9%
4dkwA00 3.30.420.280 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › 0.63 56.0 5.52e-01 96.1% 89.7%
4wnyA00 3.40.50.620 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › HUPs 0.60 36.0 4.09e-01 90.0% 78.8%
3agrA01 3.30.420.530 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › 0.58 50.0 4.64e-01 92.8% 83.3%
2dstA00 3.40.50.12270 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.55 37.0 4.37e-01 100.0% 100.0%
1c2yA00 3.40.50.960 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Lumazine/riboflavin synthase 0.55 40.0 4.31e-01 91.1% 88.4%
3jy6A01 3.40.50.2300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Response regulator 0.54 36.0 4.17e-01 91.7% 93.8%
8b4hA01 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.54 37.0 3.91e-01 77.2% 77.2%
1j24A00 3.40.50.10130 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › 0.54 37.0 4.22e-01 100.0% 94.7%
4az3A00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.53 39.0 3.43e-01 74.4% 67.6%
1brwA02 3.40.1030.10 Alpha Beta › 3-Layer(aba) Sandwich › Pyrimidine Nucleoside Phosphorylase; Chain A, domain 2 › Nucleoside phosphorylase/phosphoribosyltransferase catalytic domain 0.53 46.0 4.06e-01 94.4% 82.7%
7oufB01 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.53 36.0 3.94e-01 80.0% 83.2%
3e1uA00 3.40.140.10 Alpha Beta › 3-Layer(aba) Sandwich › Cytidine Deaminase; domain 2 › Cytidine Deaminase, domain 2 0.53 38.0 3.84e-01 74.4% 80.4%
2btoA01 3.40.50.1440 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Tubulin/FtsZ, GTPase domain 0.52 45.0 3.94e-01 92.2% 96.2%
1sz2A02 3.40.367.20 Alpha Beta › 3-Layer(aba) Sandwich › Hexokinase; domain 1 › 0.52 37.0 3.60e-01 72.8% 99.0%
1rcqA02 3.20.20.10 Alpha Beta › Alpha-Beta Barrel › TIM Barrel › Alanine racemase 0.51 37.0 3.52e-01 78.9% 64.3%
7wkqB01 3.40.50.720 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › NAD(P)-binding Rossmann-like Domain 0.51 43.0 4.16e-01 90.6% 95.6%
2o14A02 3.40.50.1110 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › SGNH hydrolase 0.51 43.0 4.15e-01 92.2% 98.5%
3t1oA00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.51 45.0 4.41e-01 96.1% 98.4%
1t10A01 3.40.50.10490 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Glucose-6-phosphate isomerase like protein; domain 1 0.51 43.0 3.44e-01 92.8% 45.7%
1bwpA00 3.40.50.1110 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › SGNH hydrolase 0.50 46.0 4.40e-01 100.0% 89.6%
ECOD (32)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
1096260 2484.1.1.25 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RuvC 0.79 65.0 6.96e-01 90.6% 97.5%
4509992 2484.1.1.48 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › MutS_II 0.78 52.0 5.75e-01 91.1% 82.8%
3178498 2484.1.1.57 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Ydc2-catalyt 0.78 69.0 5.71e-01 92.8% 85.4%
4069907 2484.1.1.25 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RuvC 0.76 68.0 7.06e-01 92.8% 98.8%
3308941 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.76 67.0 6.34e-01 91.1% 85.9%
4938348 2484.1.1.25 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RuvC 0.75 65.0 6.76e-01 90.0% 97.6%
3396424 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.73 64.0 5.83e-01 91.1% 91.3%
4306325 2484.1.1.40 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RuvX 0.72 56.0 6.12e-01 91.7% 96.7%
4356839 2484.1.1.40 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RuvX 0.71 54.0 5.96e-01 89.4% 97.9%
4278305 2484.1.1.40 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RuvX 0.71 53.0 5.93e-01 90.0% 100.0%
4171807 2484.1.1.40 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RuvX 0.71 55.0 5.82e-01 92.8% 90.0%
4096365 2484.1.1.40 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RuvX 0.70 57.0 6.17e-01 88.9% 100.0%
4117581 2484.1.1.40 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RuvX 0.70 53.0 5.88e-01 90.0% 100.0%
4602919 2484.1.1.40 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RuvX 0.70 54.0 5.83e-01 91.7% 95.3%
3511625 2484.1.1.72 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › YqgF 0.70 60.0 5.76e-01 90.0% 83.0%
5049468 2484.1.1.6 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › FGGY_N 0.61 52.0 3.78e-01 90.0% 92.0%
3507332 2484.5.1.2 ↗ mixed a+b and a/b › Ribonuclease H-like › RNaseH-like domain in reverse transcriptase › RNaseH-like domain in reverse transcriptase › RT_RNaseH 0.57 42.0 4.68e-01 88.9% 95.7%
5038291 2007.1.13.1 ↗ a/b three-layered sandwiches › Flavodoxin-like › Class I glutamine amidotransferase-like › Lumazine synthase › DMRL_synthase 0.54 38.0 4.37e-01 90.6% 100.0%
4011211 2007.2.5.1 ↗ a/b three-layered sandwiches › Flavodoxin-like › Flavoproteins/Phosphotyrosine protein phosphatases-like › Rhodanese/Cell cycle control phosphatase › Rhodanese 0.54 37.0 4.00e-01 81.1% 80.6%
3396043 2004.1.1.132 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › DLIC 0.53 45.0 3.63e-01 90.6% 61.5%
3679340 216.1.1.0 ↗ a+b two layers › UBC-like › UBC-like › UBC-like 0.53 25.0 3.06e-01 93.3% 67.3%
3821194 7568.1.1.4 ↗ a/b three-layered sandwiches › BRCT domain › BRCT domain › BRCT domain › BRCT_2 0.52 32.0 3.78e-01 91.1% 89.9%
5048836 2004.1.1.16 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › Arf 0.52 37.0 3.83e-01 73.3% 95.4%
4957804 7512.1.1.3 ↗ a/b three-layered sandwiches › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › Glycos_transf_1 0.52 36.0 3.53e-01 81.1% 64.6%
2429326 2007.5.1.8 ↗ a/b three-layered sandwiches › Flavodoxin-like › SGNH hydrolase › SGNH hydrolase › Lipase_GDSL_2 0.52 39.0 3.87e-01 78.9% 82.1%
4160753 2002.1.1.53 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Ala_racemase_N 0.51 36.0 3.26e-01 78.9% 52.0%
4001994 2003.1.6.1 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › Tubulin nucleotide-binding domain-like › Tubulin 0.51 45.0 3.98e-01 92.2% 100.0%
3277881 7512.1.1.0 ↗ a/b three-layered sandwiches › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase › UDP-Glycosyltransferase/glycogen phosphorylase 0.51 35.0 3.59e-01 78.9% 72.4%
3945724 2002.1.1.152 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels › Amidohydro_3 0.51 45.0 3.58e-01 96.7% 88.4%
4961874 2005.1.1.3 ↗ a/b three-layered sandwiches › HUP domain-like › HUP domains › HUP domains › Usp 0.51 34.0 3.99e-01 84.4% 94.6%
3374990 2011.2.1.7 ↗ a/b three-layered sandwiches › Phosphorylase/hydrolase-like › Peptidyl-tRNA hydrolase-like › Peptidyl-tRNA hydrolase-like › PAC2 0.51 46.0 4.00e-01 99.4% 89.3%
4882437 2003.1.6.1 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › Tubulin nucleotide-binding domain-like › Tubulin 0.50 43.0 3.88e-01 91.1% 100.0%