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NC_070778.1__YP_010650704.1__PP425_gp288__00164

Bact-Vir

NC_070778.1__YP_010650704.1__PP425_gp288__00164

Identity

Accession:
NC_070778 ↗
Kingdom:
phage

Quality

85.1 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Pantevenvirales› Straboviridae› Kanagawavirus› Enterobacter_phage_vB_EclM_Q7622

TaxID: 2908628

Cluster

View cluster (2 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 17-87
PDB
Domain cluster: representative
CATH (28)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
7oufB01 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.67 56.0 4.42e-01 93.0% 45.6%
1l3aA00 2.30.31.10 Mainly Beta › Roll › Transcriptional Co-activator pc4; Chain A › Transcriptional Coactivator Pc4; Chain A 0.65 58.0 4.42e-01 100.0% 79.5%
3qwmA00 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.65 45.0 3.75e-01 74.6% 40.9%
8b4hA01 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.65 54.0 4.15e-01 93.0% 45.7%
1bf5A04 3.30.505.10 Alpha Beta › 2-Layer Sandwich › SHC Adaptor Protein › SH2 domain 0.64 53.0 4.68e-01 97.2% 75.2%
3ecrB03 3.30.160.40 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Porphobilinogen deaminase, C-terminal domain 0.63 45.0 3.99e-01 74.6% 76.5%
1tzzB01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.63 43.0 3.64e-01 70.4% 89.1%
2f9wA01 3.30.420.40 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › ATPase, nucleotide binding domain 0.63 56.0 4.54e-01 98.6% 59.5%
2d9wA01 2.30.29.30 Mainly Beta › Roll › PH-domain like › Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB) 0.61 41.0 3.56e-01 74.6% 44.5%
4cgyA03 2.70.20.10 Mainly Beta › Distorted Sandwich › Topoisomerase I; domain 3 › Topoisomerase I, domain 3 0.61 44.0 3.60e-01 76.1% 47.7%
4w9rB01 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.60 42.0 2.87e-01 74.6% 19.9%
2d5lA02 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.59 41.0 2.84e-01 73.2% 24.0%
4e19A00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.58 50.0 4.12e-01 97.2% 69.9%
3u3gA00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.57 50.0 4.04e-01 98.6% 82.1%
3fm2A00 3.40.1570.10 Alpha Beta › 3-Layer(aba) Sandwich › Heme iron utilization protein-like fold › HemS/ChuS/ChuX like domains 0.57 45.0 3.66e-01 85.9% 46.6%
3dohA02 3.40.50.1820 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Alpha/Beta hydrolase fold, catalytic domain 0.57 40.0 2.83e-01 74.6% 26.7%
2b5lB01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.55 48.0 3.04e-01 98.6% 70.2%
1s9rA01 3.75.10.10 Alpha Beta › 5-stranded Propeller › L-arginine/glycine Amidinotransferase; Chain A › L-arginine/glycine Amidinotransferase; Chain A 0.55 41.0 2.77e-01 84.5% 73.4%
2rs7A01 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.54 37.0 3.68e-01 71.8% 71.6%
2ab5A02 3.10.28.10 Alpha Beta › Roll › Endonuclease I-creI › Homing endonucleases 0.53 47.0 3.85e-01 100.0% 67.2%
3cawA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.53 42.0 3.93e-01 87.3% 96.7%
3a58A01 2.30.29.90 Mainly Beta › Roll › PH-domain like › 0.53 44.0 3.45e-01 100.0% 44.8%
1f21A00 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.52 44.0 3.56e-01 98.6% 77.0%
3l81A01 2.60.40.1170 Mainly Beta › Sandwich › Immunoglobulin-like › Mu homology domain, subdomain B 0.52 47.0 3.74e-01 100.0% 97.1%
7r97A02 3.30.160.20 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › 0.52 35.0 3.62e-01 71.8% 75.0%
5hp6A01 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.51 43.0 2.85e-01 98.6% 79.4%
3kf8A00 2.40.50.1040 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.51 36.0 2.69e-01 76.1% 45.9%
1fguB02 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.50 35.0 2.96e-01 73.2% 41.9%
ECOD (60)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3947082 243.3.1.0 ↗ a+b two layers › Cystatin-like › Cystatin/monellin › Cystatin/monellin 0.73 50.0 4.65e-01 73.2% 56.7%
3496857 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.72 51.0 4.50e-01 74.6% 50.5%
3272573 4210.1.1.0 ↗ a+b two layers › WGR domain › WGR domain › WGR domain 0.66 50.0 4.96e-01 90.1% 76.0%
3814983 2484.1.1.67 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RVT_3 0.65 50.0 4.93e-01 81.7% 94.7%
4943192 2484.1.1.22 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DUF99 0.65 59.0 4.27e-01 98.6% 64.6%
4524129 330.4.1.1 ↗ a+b two layers › dsRBD-like › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobil_deamC 0.65 46.0 4.21e-01 74.6% 76.8%
3321360 4210.1.1.1 ↗ a+b two layers › WGR domain › WGR domain › WGR domain › WGR 0.65 48.0 4.79e-01 91.5% 74.7%
3214480 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.65 57.0 3.44e-01 98.6% 18.4%
3599949 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.64 54.0 4.94e-01 93.0% 78.9%
3724785 2484.1.1.41 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › AnmK 0.64 57.0 4.15e-01 98.6% 81.1%
4127407 2484.1.1.22 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › DUF99 0.63 54.0 4.10e-01 98.6% 68.3%
5043517 2484.1.1.43 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Endonuclease_5 0.63 55.0 4.06e-01 98.6% 52.1%
4434012 330.4.1.1 ↗ a+b two layers › dsRBD-like › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobilinogen deaminase (hydroxymethylbilane synthase), C-terminal domain › Porphobil_deamC 0.63 45.0 4.25e-01 76.1% 74.1%
3244569 330.1.1.1 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like › dsrm 0.63 43.0 4.10e-01 71.8% 64.7%
5846 218.1.1.1 ↗ a+b two layers › Enolase-N/ribosomal protein › Enolase N-terminal domain-like › Enolase N-terminal domain-like › MR_MLE_N 0.63 43.0 3.50e-01 70.4% 80.9%
3370997 2484.1.1.67 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RVT_3 0.62 53.0 4.29e-01 97.2% 65.0%
3375711 2484.1.1.67 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RVT_3 0.62 53.0 4.97e-01 97.2% 91.1%
3351393 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.61 46.0 4.26e-01 83.1% 83.2%
3248836 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.61 42.0 3.32e-01 73.2% 34.2%
3924626 2484.1.1.4 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RNase_H 0.61 52.0 4.89e-01 94.4% 90.6%
3326860 2484.1.1.67 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RVT_3 0.60 53.0 5.07e-01 100.0% 89.4%
2771818 2484.1.1.9 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › rve 0.60 50.0 3.86e-01 95.8% 42.4%
3827309 244.3.1.0 ↗ a+b two layers › FAD-linked reductases, C-terminal domain-like › SufE/NifU › SufE/NifU 0.60 52.0 4.85e-01 100.0% 93.3%
4151202 2484.1.1.41 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › AnmK 0.60 51.0 3.73e-01 100.0% 59.0%
4106730 264.2.1.1 ↗ beta barrels › LigT-like › Prokaryotic type I DNA topoisomerase beta-barrel domain › Prokaryotic type I DNA topoisomerase beta-barrel domain › Topoisom_bac 0.60 43.0 3.47e-01 76.1% 53.3%
3435767 2484.1.1.67 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RVT_3 0.59 51.0 4.50e-01 97.2% 88.6%
4527322 223.2.1.18 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like › Longin_2 0.59 40.0 3.06e-01 71.8% 35.7%
3941314 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.59 51.0 4.35e-01 98.6% 83.3%
3215398 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.59 51.0 4.05e-01 98.6% 99.3%
None — 0.58 41.0 3.85e-01 73.2% 97.6%
3358595 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.58 51.0 4.71e-01 98.6% 88.9%
3495550 605.1.1.0 ↗ alpha duplicates or obligate multimers › ROP-like › Homodimeric domain of signal transducing histidine kinase › Homodimeric domain of signal transducing histidine kinase 0.58 40.0 3.53e-01 71.8% 56.2%
4534723 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.58 49.0 3.79e-01 97.2% 60.0%
3935534 375.1.9.2 ↗ few secondary structure elements › Rubredoxin-like › Rubredoxin-related › Zinc-nucleated domain of serine integrase › SANTA 0.57 49.0 4.10e-01 100.0% 69.6%
4015004 2003.1.2.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › FAD/NAD(P)-binding domain 0.57 46.0 2.79e-01 91.5% 78.2%
3937984 330.1.1.0 ↗ a+b two layers › dsRBD-like › dsRNA-binding domain-like › dsRNA-binding domain-like 0.57 39.0 3.56e-01 73.2% 70.0%
5071146 330.2.1.5 ↗ a+b two layers › dsRBD-like › Ribosome binding protein Y (YfiA homologue) › Ribosome binding protein Y (YfiA homologue) › PF29181 0.56 38.0 3.49e-01 71.8% 53.0%
4237828 2484.1.1.41 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › AnmK 0.56 48.0 3.60e-01 100.0% 65.1%
4116831 2484.1.1.41 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › AnmK 0.56 47.0 3.07e-01 98.6% 37.0%
3685060 2484.1.1.41 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › AnmK 0.56 48.0 3.04e-01 100.0% 38.7%
3834310 2484.1.1.67 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RVT_3 0.55 47.0 3.76e-01 97.2% 61.3%
3508084 220.1.1.7 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › IRS 0.55 38.0 3.66e-01 74.6% 61.2%
3211133 2484.1.1.0 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like 0.55 45.0 3.57e-01 95.8% 55.2%
4383357 2484.1.1.67 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › RVT_3 0.55 45.0 3.67e-01 93.0% 72.9%
3637624 216.1.1.4 ↗ a+b two layers › UBC-like › UBC-like › UBC-like › RWD 0.55 37.0 3.22e-01 71.8% 50.8%
4338527 5.1.5.145 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed › eIF2A 0.54 46.0 2.79e-01 93.0% 19.8%
3495452 2006.1.1.0 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › HAD-like 0.54 47.0 3.18e-01 100.0% 36.2%
4210059 2484.1.1.41 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › AnmK 0.54 45.0 3.34e-01 100.0% 62.3%
3275009 220.1.1.8 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › GRAM 0.54 39.0 3.18e-01 90.1% 39.2%
3638957 3561.1.1.1 ↗ a+b complex topology › Mediator of RNA polymerase II transcription subunit 17 › Mediator of RNA polymerase II transcription subunit 17 › Mediator of RNA polymerase II transcription subunit 17 › Med17 0.54 44.0 2.63e-01 91.5% 17.6%
3265334 216.1.1.0 ↗ a+b two layers › UBC-like › UBC-like › UBC-like 0.53 37.0 3.27e-01 73.2% 64.5%
3572103 220.1.1.74 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › PIG-H 0.53 46.0 3.79e-01 100.0% 65.9%
3253779 242.2.1.6 ↗ a+b two layers › Homing endonucleases-like › tRNA-intron endonuclease N-terminal domain-like › tRNA-intron endonuclease N-terminal domain-like › tRNA_int_end_N2 0.53 45.0 4.53e-01 100.0% 95.7%
4976982 330.6.1.0 ↗ a+b two layers › dsRBD-like › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain › 2-isopropylmalate synthase LeuA, allosteric (dimerisation) domain 0.53 36.0 3.22e-01 71.8% 47.3%
3870810 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.53 46.0 2.49e-01 98.6% 11.0%
3215886 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.51 45.0 3.56e-01 100.0% 52.7%
3696392 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.51 44.0 2.71e-01 97.2% 32.2%
3317394 304.48.1.21 ↗ a+b two layers › Alpha-beta plaits › Adenylyl and guanylyl cyclase catalytic domain-like › Adenylyl and guanylyl cyclase catalytic domain-like › Thg1,Thg1C 0.51 44.0 3.08e-01 100.0% 76.6%
3516854 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.51 44.0 3.79e-01 100.0% 67.0%
5013672 295.1.1.0 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain 0.50 37.0 3.83e-01 93.0% 87.7%