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NC_070804.1__YP_010653933.1__PP500_gp72__00072

Bact-Vir

NC_070804.1__YP_010653933.1__PP500_gp72__00072

Identity

Accession:
NC_070804 ↗
Kingdom:
phage

Quality

81.3 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Attisvirus› Gordonia_phage_Ebert

TaxID: 2201426

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 6-70
PDB
Domain cluster: representative
CATH (20)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2e9xA01 1.20.58.1030 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.72 49.0 3.83e-01 72.3% 35.2%
1h7cA00 1.20.58.90 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.72 42.0 3.61e-01 72.3% 36.9%
3uo2B02 1.20.1280.20 Mainly Alpha › Up-down Bundle › Monooxygenase › HscB, C-terminal domain 0.70 49.0 4.47e-01 72.3% 61.9%
6vmsR00 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.64 55.0 3.66e-01 100.0% 42.8%
1tqgA00 1.20.120.160 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › HPT domain 0.63 54.0 4.62e-01 95.4% 69.5%
1wolA00 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.63 55.0 4.46e-01 96.9% 82.8%
4aflA00 6.10.140.1740 Special › Helix non-globular › Helix Hairpins › 0.62 43.0 3.73e-01 72.3% 70.6%
8e9gJ01 1.20.120.1200 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › NADH-ubiquinone/plastoquinone oxidoreductase chain 6, subunit NuoJ 0.61 53.0 4.00e-01 100.0% 91.0%
3vprA02 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.59 50.0 3.89e-01 93.8% 91.7%
4u7iA00 1.20.58.80 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Phosphotransferase system, lactose/cellobiose-type IIA subunit 0.59 50.0 4.48e-01 95.4% 92.5%
3nymA00 6.10.290.10 Special › Helix non-globular › Four Helix Bundle (Hemerythrin (Met), subunit A) › 0.58 39.0 3.22e-01 72.3% 37.1%
6k41R00 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.58 45.0 3.08e-01 84.6% 61.3%
3c7jA02 1.20.120.530 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › GntR ligand-binding domain-like 0.58 49.0 3.82e-01 95.4% 71.9%
3sqiA01 1.10.150.540 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › 0.58 42.0 3.76e-01 80.0% 86.9%
3kyiA00 1.20.120.160 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › HPT domain 0.57 50.0 4.06e-01 100.0% 96.1%
5fglA00 1.10.357.10 Mainly Alpha › Orthogonal Bundle › Tetracycline Repressor; domain 2 › Tetracycline Repressor, domain 2 0.57 50.0 3.56e-01 100.0% 72.5%
1cipA02 1.10.400.10 Mainly Alpha › Orthogonal Bundle › GI Alpha 1, domain 2-like › GI Alpha 1, domain 2-like 0.57 46.0 3.86e-01 92.3% 68.9%
2i53A02 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.54 44.0 3.71e-01 89.2% 67.6%
2y51A01 3.40.605.10 Alpha Beta › 3-Layer(aba) Sandwich › Aldehyde Dehydrogenase; Chain A, domain 1 › Aldehyde Dehydrogenase; Chain A, domain 1 0.54 45.0 2.94e-01 95.4% 81.5%
3h4cA01 1.10.472.10 Mainly Alpha › Orthogonal Bundle › Cyclin A; domain 1 › Cyclin-like 0.52 41.0 3.65e-01 86.2% 69.8%
ECOD (15)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3906030 5001.1.1.3 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_2 0.74 67.0 4.57e-01 100.0% 69.1%
3686152 5001.1.1.6 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Bac_rhodopsin 0.73 59.0 3.86e-01 87.7% 38.9%
3600712 192.5.1.0 ↗ alpha bundles › Long alpha-hairpin › HR1 repeat › HR1 repeat 0.71 50.0 4.56e-01 73.8% 91.8%
2526901 5001.1.1.1 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1 0.68 60.0 4.29e-01 100.0% 58.8%
3899209 5001.1.1.1 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1 0.67 57.0 4.15e-01 100.0% 59.5%
3939877 11.2.1.7 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › Anillin 0.66 58.0 4.00e-01 100.0% 84.0%
3518448 11.2.1.7 ↗ beta sandwiches › Immunoglobulin-like beta-sandwich › C2 domain › C2 domain › Anillin 0.66 57.0 4.03e-01 100.0% 89.2%
5071763 601.7.1.2 ↗ alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain › HEPN 0.65 56.0 4.27e-01 96.9% 83.0%
4986724 601.7.1.2 ↗ alpha bundles › Four-helical up-and-down bundle › HEPN › Nucleotidyltransferase substrate binding subunit/domain › HEPN 0.65 56.0 4.33e-01 95.4% 74.3%
3614380 2003.1.1.4 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › NAD(P)-binding Rossmann-fold domains 0.60 50.0 3.03e-01 100.0% 45.2%
3659729 109.4.1.1254 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, E_motif 0.58 42.0 2.63e-01 98.5% 13.3%
3802293 109.4.1.2064 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR, PPR_2, DYW_deaminase, E_motif, TPR_24 0.55 38.0 2.40e-01 89.2% 11.9%
3344458 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.54 39.0 3.46e-01 92.3% 50.0%
3837315 109.4.1.420 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR 0.53 39.0 3.15e-01 92.3% 38.5%
3425984 109.4.1.420 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › PPR 0.51 45.0 3.12e-01 98.5% 31.4%
D2 high residues 77-177
PDB
Domain cluster: representative
CATH (3)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3w6sC00 3.40.630.30 Alpha Beta › 3-Layer(aba) Sandwich › Aminopeptidase › Gcn5-related N-acetyltransferase (GNAT) 0.56 42.0 3.31e-01 81.2% 84.3%
1t3yA00 3.40.20.10 Alpha Beta › 3-Layer(aba) Sandwich › Severin › Severin 0.52 39.0 3.59e-01 84.2% 61.8%
2crfA01 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.52 39.0 3.68e-01 81.2% 97.6%
ECOD (4)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3973606 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.53 24.0 2.99e-01 71.3% 67.3%
3484139 376.1.1.0 ↗ few secondary structure elements › RING/U-box-like › RING/U-box-like › RING/U-box 0.53 42.0 3.98e-01 86.1% 97.6%
4161981 219.1.1.111 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Transglut_core, Rad4 0.53 39.0 2.86e-01 79.2% 87.2%
4979416 2004.1.1.0 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases 0.53 46.0 2.96e-01 97.0% 56.6%
D3 medium residues 193-242
PDB
Domain cluster: representative
CATH (1)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2m0yA00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.53 36.0 3.36e-01 78.0% 70.3%