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CP011103.1__AQY52619.1__UE46_p05165__00008

Bact-Vir

CP011103.1__AQY52619.1__UE46_p05165__00008

Identity

Accession:
CP011103 ↗
Kingdom:
phage

Quality

71.4 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Listeria_phage_LWP01

TaxID: 1633782

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 2-83
PDB
Domain cluster: representative
CATH (41)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1sfeA01 3.30.160.70 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Methylated DNA-protein cysteine methyltransferase domain 0.74 44.0 4.44e-01 75.6% 59.3%
1wrjA01 3.30.160.70 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Methylated DNA-protein cysteine methyltransferase domain 0.70 32.0 3.55e-01 75.6% 52.2%
3nyiA02 3.30.1180.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Protein Tm841; Chain: A;domain 3 › 0.67 54.0 4.55e-01 87.8% 67.9%
2dt8A02 3.30.1180.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Protein Tm841; Chain: A;domain 3 › 0.64 49.0 4.20e-01 81.7% 71.5%
4ktwA00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.63 49.0 3.94e-01 82.9% 57.5%
1nyeA00 3.30.300.20 Alpha Beta › 2-Layer Sandwich › GMP Synthetase; Chain A, domain 3 › K homology (KH) domain 0.63 47.0 3.97e-01 81.7% 92.3%
3k6qA02 3.30.160.620 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.62 50.0 4.93e-01 87.8% 94.4%
1mgpA02 3.30.1180.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Protein Tm841; Chain: A;domain 3 › 0.62 49.0 4.30e-01 85.4% 71.9%
2oq1A03 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.61 42.0 3.97e-01 89.0% 58.0%
3wxmB02 3.30.420.60 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › eRF1 domain 2 0.61 46.0 4.00e-01 79.3% 76.2%
1pzxA03 3.30.1180.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Protein Tm841; Chain: A;domain 3 › 0.61 49.0 4.28e-01 86.6% 65.6%
3rv0B03 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.60 41.0 4.23e-01 73.2% 87.3%
3g1jA00 2.30.30.350 Mainly Beta › Roll › SH3 type barrels. › mobile metagenome of vibrio cholerae. Integron cassette protein vch_cass4. 0.59 41.0 3.98e-01 72.0% 93.3%
3fdjA03 3.30.1180.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Protein Tm841; Chain: A;domain 3 › 0.58 48.0 4.13e-01 90.2% 71.1%
2ltrA00 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.58 50.0 4.62e-01 97.6% 84.8%
1ti2A01 2.20.25.340 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › 0.58 31.0 3.42e-01 93.9% 62.1%
1e8oA00 3.30.720.10 Alpha Beta › 2-Layer Sandwich › Signal recognition particle alu RNA binding heterodimer, srp9/1 › Signal recognition particle alu RNA binding heterodimer, srp9/1 0.57 39.0 4.10e-01 79.3% 78.4%
4x9xA02 3.30.1180.10 Alpha Beta › 2-Layer Sandwich › Hypothetical Protein Tm841; Chain: A;domain 3 › 0.57 47.0 4.19e-01 90.2% 69.7%
7nn3B01 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.57 50.0 3.39e-01 100.0% 39.0%
6i8xA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.57 45.0 3.71e-01 85.4% 87.9%
6c1zA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.57 45.0 3.80e-01 85.4% 90.6%
5eoxB03 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.57 46.0 3.98e-01 87.8% 95.3%
1okjB01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.57 46.0 4.01e-01 89.0% 96.9%
3agkA02 3.30.420.60 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › eRF1 domain 2 0.56 42.0 3.76e-01 81.7% 76.6%
2hc5A01 3.30.160.170 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › FlaG-like 0.56 39.0 3.75e-01 74.4% 63.3%
1m1hA02 2.60.320.10 Mainly Beta › Sandwich › mini-chromosome maintenance (MCM) complex, domain 2 › N-utilization substance G protein NusG, insert domain 0.56 37.0 3.76e-01 100.0% 68.3%
1miqA02 2.40.70.10 Mainly Beta › Beta Barrel › Cathepsin D, subunit A; domain 1 › Acid Proteases 0.56 38.0 3.17e-01 70.7% 83.6%
6k34A00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.54 44.0 3.10e-01 92.7% 52.5%
2nn5A00 3.30.530.20 Alpha Beta › 2-Layer Sandwich › Alpha-D-Glucose-1,6-Bisphosphate; Chain A, domain 4 › START domain 0.54 47.0 3.76e-01 98.8% 57.3%
4xvcA00 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.54 44.0 3.07e-01 91.5% 52.2%
1dt9A02 3.30.420.60 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › eRF1 domain 2 0.54 42.0 3.84e-01 85.4% 66.1%
1yw5A01 2.20.70.10 Mainly Beta › Single Sheet › Ubiquitin Ligase Nedd4; Chain: W; › 0.54 33.0 3.62e-01 91.5% 79.4%
2nvnA00 2.30.31.10 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › Transcriptional Coactivator Pc4; Chain A 0.54 45.0 4.03e-01 95.1% 96.7%
2bs6A01 2.40.128.190 Mainly Beta › Beta Barrel › Lipocalin › 0.54 41.0 4.13e-01 96.3% 79.8%
3fm2A00 3.40.1570.10 Alpha Beta › 3-Layer(aba) Sandwich › Heme iron utilization protein-like fold › HemS/ChuS/ChuX like domains 0.53 45.0 3.95e-01 98.8% 91.0%
6my0A02 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.53 39.0 4.23e-01 92.7% 98.5%
6w0pA02 1.50.10.10 Mainly Alpha › Alpha/alpha barrel › Glycosyltransferase › 0.52 44.0 2.79e-01 93.9% 30.6%
3cwxA00 3.40.1420.20 Alpha Beta › 3-Layer(aba) Sandwich › Inhibitor of vertebrate lysozyme, Ivy › Pathogenicity island component CagD 0.52 38.0 3.35e-01 80.5% 52.0%
1lfoA00 2.40.128.20 Mainly Beta › Beta Barrel › Lipocalin › Calycin beta-barrel core domain 0.51 41.0 3.53e-01 85.4% 93.7%
5ucoA02 3.40.47.10 Alpha Beta › 3-Layer(aba) Sandwich › Peroxisomal Thiolase; Chain A, domain 1 › Thiolase/Chalcone synthase 0.51 42.0 3.47e-01 91.5% 68.6%
1mdaH00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.50 43.0 2.83e-01 96.3% 38.3%
ECOD (38)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
5061231 4100.1.1.0 ↗ a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like 0.77 53.0 6.02e-01 81.7% 96.7%
11242 2484.2.1.1 ↗ mixed a+b and a/b › Ribonuclease H-like › Methylated DNA-protein cysteine methyltransferase domain › Methylated DNA-protein cysteine methyltransferase domain › Methyltransf_1N 0.74 44.0 4.44e-01 75.6% 59.3%
5020788 4100.1.1.0 ↗ a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like 0.71 45.0 5.01e-01 74.4% 81.5%
5015133 4100.1.1.9 ↗ a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › DUF7387 0.71 46.0 5.31e-01 75.6% 91.7%
5013176 4100.1.1.0 ↗ a+b duplicates or obligate multimers › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like › TTHA1013/TTHA0281-like 0.67 51.0 5.32e-01 89.0% 89.3%
2162577 301.13.1.1 ↗ a+b three layers › Bacillus chorismate mutase-like › DAK1/DegV C-terminal domain › DAK1/DegV C-terminal domain › DegV 0.66 53.0 4.46e-01 85.4% 66.4%
3945055 2484.2.1.1 ↗ mixed a+b and a/b › Ribonuclease H-like › Methylated DNA-protein cysteine methyltransferase domain › Methylated DNA-protein cysteine methyltransferase domain › Methyltransf_1N 0.66 41.0 4.11e-01 74.4% 60.0%
4944239 301.13.1.0 ↗ a+b three layers › Bacillus chorismate mutase-like › DAK1/DegV C-terminal domain › DAK1/DegV C-terminal domain 0.64 51.0 4.45e-01 87.8% 69.2%
4634374 2484.1.1.38 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › eRF1_2 0.64 48.0 4.23e-01 79.3% 78.3%
3245311 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.63 48.0 4.46e-01 92.7% 63.8%
5022798 5.1.3.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.63 46.0 2.82e-01 76.8% 13.7%
4134161 301.13.1.1 ↗ a+b three layers › Bacillus chorismate mutase-like › DAK1/DegV C-terminal domain › DAK1/DegV C-terminal domain › DegV 0.63 51.0 4.33e-01 89.0% 71.9%
1937542 301.13.1.1 ↗ a+b three layers › Bacillus chorismate mutase-like › DAK1/DegV C-terminal domain › DAK1/DegV C-terminal domain › DegV 0.62 49.0 4.29e-01 85.4% 71.4%
3299579 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.62 43.0 4.62e-01 72.0% 85.7%
3584264 220.1.1.1 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH 0.62 39.0 3.45e-01 72.0% 42.4%
4026701 180.1.1.1 ↗ alpha bundles › Acid phosphatase/Vanadium-dependent haloperoxidase › Acid phosphatase/Vanadium-dependent haloperoxidase › Acid phosphatase/Vanadium-dependent haloperoxidase › PAP2 0.61 55.0 4.12e-01 100.0% 53.0%
3234330 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.61 52.0 4.73e-01 95.1% 93.6%
4946414 301.13.1.0 ↗ a+b three layers › Bacillus chorismate mutase-like › DAK1/DegV C-terminal domain › DAK1/DegV C-terminal domain 0.58 46.0 4.11e-01 87.8% 72.4%
2764515 7579.1.1.49 ↗ a/b three-layered sandwiches › alpha/beta-Hydrolases › alpha/beta-Hydrolases › alpha/beta-Hydrolases › GCE_fung 0.58 48.0 3.21e-01 96.3% 78.1%
3604653 2003.1.2.15 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain › FAD_binding_3 0.57 45.0 2.95e-01 86.6% 71.1%
3743864 109.4.1.1787 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › Nup188_N-subdom_III 0.56 46.0 2.56e-01 91.5% 18.8%
3577264 207.1.1.0 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.56 43.0 3.54e-01 81.7% 62.0%
3944443 2484.1.1.21 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › BcrAD_BadFG 0.56 44.0 3.15e-01 85.4% 47.1%
3437716 219.1.1.16 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Peptidase_C48 0.55 47.0 4.08e-01 91.5% 96.7%
3219544 207.1.1.0 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.54 45.0 3.04e-01 97.6% 24.4%
4376375 2484.1.1.49 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Hydant_A_N 0.54 43.0 3.68e-01 90.2% 81.4%
5001282 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.54 40.0 3.38e-01 80.5% 97.9%
3213706 207.1.1.0 ↗ beta duplicates or obligate multimers › Single-stranded right-handed beta-helix › Leucine-rich repeats › Leucine-rich repeats 0.53 44.0 3.29e-01 92.7% 45.0%
4121439 220.1.1.217 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PH, GRAM 0.53 42.0 2.73e-01 85.4% 40.8%
135504 224.1.1.2 ↗ a+b three layers › Gelsolin-like › Gelsolin-like › Gelsolin-like › Gelsolin 0.53 41.0 3.77e-01 100.0% 64.2%
4933539 2484.1.1.302 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Cas12f1-like_TNB 0.53 41.0 3.07e-01 85.4% 67.4%
3706768 3407.1.1.0 ↗ mixed a+b and a/b › Nop N-terminal domain › Nop N-terminal domain › Nop N-terminal domain 0.52 44.0 3.74e-01 93.9% 98.5%
3998279 9.1.1.0 ↗ beta barrels › Lipocalins/Streptavidin › Lipocalins › Lipocalins 0.51 39.0 3.53e-01 95.1% 60.9%
3899825 224.1.1.2 ↗ a+b three layers › Gelsolin-like › Gelsolin-like › Gelsolin-like › Gelsolin 0.51 40.0 3.52e-01 86.6% 65.6%
3242183 224.1.1.2 ↗ a+b three layers › Gelsolin-like › Gelsolin-like › Gelsolin-like › Gelsolin 0.51 40.0 3.58e-01 85.4% 71.3%
4936812 2484.1.1.49 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Hydant_A_N 0.50 41.0 3.61e-01 90.2% 80.8%
4997310 224.1.1.2 ↗ a+b three layers › Gelsolin-like › Gelsolin-like › Gelsolin-like › Gelsolin 0.50 40.0 3.88e-01 87.8% 86.2%
3526495 224.1.1.2 ↗ a+b three layers › Gelsolin-like › Gelsolin-like › Gelsolin-like › Gelsolin 0.50 41.0 3.79e-01 98.8% 70.5%