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NC_070907.1__YP_010663891.1__PQA59_gp04__00004

Bact-Vir

NC_070907.1__YP_010663891.1__PQA59_gp04__00004

Identity

Accession:
NC_070907 ↗
Kingdom:
phage

Quality

92.8 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Peduoviridae› Peduovirus› Yersinia_phage_P37

TaxID: 2724352

Cluster

View cluster (3 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 5-79
PDB
Domain cluster: rep: OY757066.1__CAK1257025.1__K70PH128C1_LOCUS37__00037__D2-65
Pfam (2)
AccessionNameScoreE-valueQ covHMM cov
PF12961.14 best DUF3850 67.7 1.10e-18 97.3% 100.0%
PF04266.21 ASCH 44.3 3.50e-11 94.7% 62.1%
D2 high residues 90-147
PDB
Domain cluster: representative
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF24187.2 best DUF7415 40.0 4.70e-10 70.7% 90.6%
CATH (21)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3kxyJ00 3.30.1460.10 Alpha Beta › 2-Layer Sandwich › Yope Regulator; Chain: A, › 0.63 44.0 3.39e-01 72.4% 32.6%
4czxA00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.60 46.0 2.93e-01 86.2% 41.0%
7z67A01 3.40.50.300 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › P-loop containing nucleotide triphosphate hydrolases 0.59 49.0 3.45e-01 100.0% 58.3%
4j0wA00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.58 45.0 2.92e-01 93.1% 83.5%
5c2vB00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.57 45.0 2.88e-01 93.1% 88.1%
3pm9A04 3.30.70.2740 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.55 38.0 3.43e-01 74.1% 52.9%
4ci8A01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.53 42.0 2.75e-01 94.8% 80.7%
6fcvB00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.53 41.0 2.62e-01 93.1% 82.5%
3jb9L00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.52 42.0 2.83e-01 98.3% 83.6%
1ug8A00 3.30.1370.50 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › R3H-like domain 0.52 39.0 3.50e-01 84.5% 58.6%
6g6qA01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.52 37.0 2.89e-01 77.6% 56.2%
2nnnC00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.52 43.0 3.41e-01 98.3% 55.3%
4akrA01 3.30.1140.60 Alpha Beta › 2-Layer Sandwich › Ribosomal protein S3 C-terminal domain › F-actin capping protein, alpha subunit 0.52 36.0 3.09e-01 75.9% 55.7%
3dsmA00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.52 41.0 2.70e-01 98.3% 89.0%
1mkmA03 3.30.450.40 Alpha Beta › 2-Layer Sandwich › Beta-Lactamase › GAF domain 0.51 37.0 2.74e-01 79.3% 26.7%
4oa3A00 3.10.310.50 Alpha Beta › Roll › Diaminopimelate Epimerase; Chain A, domain 1 › 0.51 40.0 3.19e-01 93.1% 95.7%
3vgzC00 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.51 41.0 2.69e-01 98.3% 78.9%
3g4eA00 2.120.10.30 Mainly Beta › 6 Propeller › Neuraminidase › TolB, C-terminal domain 0.51 41.0 2.72e-01 98.3% 81.1%
3broD00 1.10.10.10 Mainly Alpha › Orthogonal Bundle › Arc Repressor Mutant, subunit A › Winged helix-like DNA-binding domain superfamily/Winged helix DNA-binding domain 0.50 42.0 3.29e-01 96.6% 65.7%
3pieA02 3.30.1370.250 Alpha Beta › 2-Layer Sandwich › Ribosomal Protein S8; Chain: A, domain 1 › 0.50 42.0 3.61e-01 98.3% 97.0%
7d73A01 3.90.550.10 Alpha Beta › Alpha-Beta Complex › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A › Spore Coat Polysaccharide Biosynthesis Protein SpsA; Chain A 0.50 40.0 2.86e-01 100.0% 85.4%
ECOD (24)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3621626 5.1.4.61 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › PAN2_N 0.62 45.0 2.82e-01 81.0% 36.6%
3538071 5.1.4.61 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › PAN2_N 0.62 45.0 2.81e-01 81.0% 35.1%
3614060 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.59 42.0 2.54e-01 75.9% 19.3%
3713696 5.1.4.297 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40, NBCH_WD40 0.56 41.0 2.62e-01 84.5% 49.9%
3923606 2492.1.1.0 ↗ a+b three layers › Cytidine deaminase-like › Cytidine deaminase-like › Cytidine deaminase-like 0.56 45.0 3.52e-01 96.6% 90.3%
3539573 101.1.2.0 ↗ alpha arrays › HTH › HTH › winged helix domain 0.55 43.0 3.09e-01 89.7% 61.1%
3772257 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.54 44.0 2.90e-01 98.3% 82.2%
4014744 5.1.4.300 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40, Beta-prop_WDR5 0.54 42.0 2.66e-01 93.1% 85.4%
3622284 3075.1.1.0 ↗ a+b two layers › ubiquitin-binding domain from PLAA › ubiquitin-binding domain from PLAA › ubiquitin-binding domain from PLAA 0.54 39.0 2.38e-01 81.0% 19.6%
2219 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.54 42.0 2.67e-01 89.7% 55.6%
3347499 5.1.10.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 12-bladed 0.53 40.0 3.87e-01 86.2% 97.1%
3798068 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.53 37.0 2.62e-01 77.6% 88.4%
3398618 206.1.1.20 ↗ a+b complex topology › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase/SAICAR synthase/ATP-grasp › Protein kinase › PK_Tyr_Ser-Thr 0.53 43.0 2.88e-01 100.0% 66.6%
3809547 5.1.4.297 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40, NBCH_WD40 0.53 41.0 2.65e-01 93.1% 81.1%
3654274 5.1.5.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed › WD40 0.53 38.0 2.75e-01 79.3% 40.4%
3932730 70.3.1.1 ↗ beta barrels › beta-clip › SET domain-like › SET domain-like › SET 0.53 44.0 2.82e-01 98.3% 66.6%
3410353 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.53 43.0 2.90e-01 100.0% 47.9%
3465990 5.1.4.404 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40, Beta-prop_IP5PC_F 0.53 43.0 2.77e-01 98.3% 71.8%
None — 0.52 42.0 2.58e-01 94.8% 93.6%
3245035 2484.1.1.2 ↗ mixed a+b and a/b › Ribonuclease H-like › Ribonuclease H-like › Ribonuclease H-like › Actin 0.52 40.0 2.46e-01 89.7% 70.8%
3655121 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.51 37.0 2.28e-01 81.0% 19.0%
3990141 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.51 39.0 2.49e-01 86.2% 38.2%
3892185 304.9.1.70 ↗ a+b two layers › Alpha-beta plaits › RNA-binding domain, RBD › RNA-binding domain, RBD › RRM_PARP14_1 0.51 34.0 3.02e-01 70.7% 46.3%
3235977 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.50 40.0 2.56e-01 98.3% 67.6%