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NC_042082.1__YP_009620034.1__FDJ07_gp081__00139

Bact-Vir

NC_042082.1__YP_009620034.1__FDJ07_gp081__00139

Identity

Accession:
NC_042082 ↗
Kingdom:
phage

Quality

73.4 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Delepquintavirus› Stenotrophomonas_phage_vB_SmaS_DLP_5

TaxID: 2044561

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 16-72
PDB
Domain cluster: representative
CATH (13)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
2djhA00 3.30.2310.30 Alpha Beta › 2-Layer Sandwich › YaeB-like fold › Colicin E5 C-terminal ribonuclease domain (CRD) 0.72 61.0 5.26e-01 100.0% 87.5%
6n90A00 3.30.2310.20 Alpha Beta › 2-Layer Sandwich › YaeB-like fold › RelE-like 0.67 57.0 5.04e-01 100.0% 96.6%
3t69A02 3.30.420.310 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › 2-keto-3-deoxy-galactonokinase, C-terminal domain 0.56 49.0 3.25e-01 96.5% 37.6%
1ji0A00 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.56 38.0 2.55e-01 71.9% 90.0%
3fhmA00 3.10.580.10 Alpha Beta › Roll › CBS-domain › CBS-domain 0.56 45.0 3.54e-01 94.7% 78.7%
4esyA00 3.10.580.10 Alpha Beta › Roll › CBS-domain › CBS-domain 0.56 45.0 3.37e-01 94.7% 77.9%
3orgA02 3.10.580.10 Alpha Beta › Roll › CBS-domain › CBS-domain 0.56 45.0 3.60e-01 93.0% 80.2%
1aroP05 1.10.150.20 Mainly Alpha › Orthogonal Bundle › DNA polymerase; domain 1 › 5' to 3' exonuclease, C-terminal subdomain 0.52 38.0 2.77e-01 87.7% 43.1%
6xgzE01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.51 35.0 2.35e-01 73.7% 87.0%
8bypX01 3.90.1240.10 Alpha Beta › Alpha-Beta Complex › Zincin-like › "Metalloproteases (""zincins""), catalytic domain like" 0.51 38.0 2.32e-01 82.5% 52.2%
1c4kA04 3.90.100.10 Alpha Beta › Alpha-Beta Complex › Ornithine Decarboxylase; Chain A, domain 4 › Orn/Lys/Arg decarboxylase, C-terminal domain 0.51 41.0 3.23e-01 93.0% 55.0%
4ybaA00 1.10.260.40 Mainly Alpha › Orthogonal Bundle › 434 Repressor (Amino-terminal Domain) › lambda repressor-like DNA-binding domains 0.50 42.0 3.91e-01 100.0% 96.1%
2au3A02 3.90.980.10 Alpha Beta › Alpha-Beta Complex › DNA primase DNAg catalytic core, N-terminal domain › DNA primase, catalytic core, N-terminal domain 0.50 43.0 3.40e-01 100.0% 78.0%
ECOD (25)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4992633 4312.1.1.15 ↗ a+b two layers › RelE-like › RelE-like › RelE-like › DUF4258 0.85 77.0 6.97e-01 100.0% 92.0%
4968653 4312.1.1.15 ↗ a+b two layers › RelE-like › RelE-like › RelE-like › DUF4258 0.82 74.0 6.21e-01 100.0% 75.8%
4968449 4312.1.1.15 ↗ a+b two layers › RelE-like › RelE-like › RelE-like › DUF4258 0.81 71.0 6.81e-01 100.0% 100.0%
4966645 4312.1.1.15 ↗ a+b two layers › RelE-like › RelE-like › RelE-like › DUF4258 0.79 70.0 6.59e-01 100.0% 92.8%
5071733 4312.1.1.0 ↗ a+b two layers › RelE-like › RelE-like › RelE-like 0.78 68.0 5.89e-01 100.0% 81.1%
4942674 4312.1.1.15 ↗ a+b two layers › RelE-like › RelE-like › RelE-like › DUF4258 0.78 68.0 6.47e-01 100.0% 100.0%
5061264 4312.1.1.0 ↗ a+b two layers › RelE-like › RelE-like › RelE-like 0.78 66.0 5.99e-01 98.2% 93.8%
4993636 4312.1.1.15 ↗ a+b two layers › RelE-like › RelE-like › RelE-like › DUF4258 0.77 67.0 6.29e-01 100.0% 95.7%
4992522 4312.1.1.15 ↗ a+b two layers › RelE-like › RelE-like › RelE-like › DUF4258 0.75 66.0 5.99e-01 100.0% 93.6%
5061645 4312.1.1.15 ↗ a+b two layers › RelE-like › RelE-like › RelE-like › DUF4258 0.74 63.0 6.14e-01 100.0% 98.4%
4992459 4312.1.1.0 ↗ a+b two layers › RelE-like › RelE-like › RelE-like 0.73 63.0 5.97e-01 100.0% 100.0%
4993341 4312.1.1.0 ↗ a+b two layers › RelE-like › RelE-like › RelE-like 0.73 62.0 5.90e-01 98.2% 95.7%
5027650 4312.1.1.0 ↗ a+b two layers › RelE-like › RelE-like › RelE-like 0.69 57.0 5.51e-01 94.7% 98.5%
4526691 6043.1.1.0 ↗ a+b two layers › yfeY-like › yfeY-like › yfeY-like 0.64 49.0 4.70e-01 82.5% 100.0%
3290393 109.4.1.192 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › TPR_8 0.60 42.0 2.70e-01 96.5% 14.4%
3819688 2002.1.1.0 ↗ a/b barrels › TIM beta/alpha-barrel › TIM barrels › TIM barrels 0.59 48.0 3.83e-01 91.2% 88.3%
3316365 282.1.1.0 ↗ a+b duplicates or obligate multimers › CBS-domain › CBS-domain › CBS-domain 0.56 46.0 3.72e-01 93.0% 87.0%
5034736 282.1.1.1 ↗ a+b duplicates or obligate multimers › CBS-domain › CBS-domain › CBS-domain › CBS 0.56 46.0 3.63e-01 94.7% 87.2%
4953229 2004.1.1.5 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ABC_tran 0.54 39.0 2.67e-01 78.9% 91.7%
4020967 4019.1.1.1 ↗ alpha complex topology › alpha-helical domain in beta-lactamase/transpeptidase-like proteins › alpha-helical domain in beta-lactamase/transpeptidase-like proteins › alpha-helical domain in beta-lactamase/transpeptidase-like proteins › Beta-lactamase 0.53 44.0 2.72e-01 98.2% 83.9%
3577911 220.1.1.15 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like › BBL5 0.52 39.0 3.07e-01 87.7% 62.1%
3588211 2004.1.1.417 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › ABC_tran, AAA_21 0.52 37.0 2.48e-01 75.4% 86.5%
3413093 1.1.17.1 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 2 › Trypsin 0.51 40.0 2.73e-01 93.0% 54.1%
5047667 220.1.1.0 ↗ beta barrels › PH domain-like › PH domain-like › PH domain-like 0.51 37.0 3.30e-01 87.7% 84.0%
5054304 1.1.5.0 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel 0.50 37.0 3.04e-01 87.7% 96.2%
D2 medium residues 73-123
PDB