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NC_041929.1__YP_009601193.1__FDH46_gp068__00068

Bact-Vir

NC_041929.1__YP_009601193.1__FDH46_gp068__00068

Identity

Accession:
NC_041929 ↗
Kingdom:
phage

Quality

86.3 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Emdodecavirus› Sinorhizobium_phage_phiM7

TaxID: 1647403

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 5-95
PDB
Domain cluster: rep: MZ577098.1__QZI95070.1__Melnitz3EXVC039M_120__00115__D6-90
CATH (13)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3f42A00 3.30.1310.10 Alpha Beta › 2-Layer Sandwich › Ybab; Chain: A; › Nucleoid-associated protein YbaB-like domain 0.71 30.0 3.07e-01 100.0% 39.8%
3msyA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.56 42.0 4.01e-01 82.4% 73.9%
2j8gA03 2.20.120.10 Mainly Beta › Single Sheet › Multimodular pneumococcal cell wall endolysin, domain 3 › Multimodular pneumococcal cell wall endolysin, domain 3 0.54 31.0 3.62e-01 76.9% 84.5%
3iteB01 3.40.50.12780 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › ANL, N-terminal domain 0.54 44.0 2.99e-01 94.5% 99.0%
3vfcA01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.52 39.0 3.40e-01 81.3% 61.1%
3k5iA03 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.52 38.0 3.05e-01 79.1% 97.5%
4it1B01 3.30.390.10 Alpha Beta › 2-Layer Sandwich › Enolase-like; domain 1 › Enolase-like, N-terminal domain 0.52 40.0 3.47e-01 85.7% 59.5%
1y13A00 3.30.479.10 Alpha Beta › 2-Layer Sandwich › Tetrahydropterin Synthase; Chain A › 6-pyruvoyl tetrahydropterin synthase/QueD 0.51 37.0 3.15e-01 76.9% 84.0%
4gnxA00 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.51 32.0 3.05e-01 70.3% 51.9%
6g6qA01 2.130.10.10 Mainly Beta › 7 Propeller › Methylamine Dehydrogenase; Chain H › YVTN repeat-like/Quinoprotein amine dehydrogenase 0.51 41.0 3.62e-01 91.2% 78.5%
2a5hA03 6.20.120.40 Special › Other non-globular › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.51 26.0 3.01e-01 90.1% 67.7%
3votB02 3.30.470.20 Alpha Beta › 2-Layer Sandwich › D-amino Acid Aminotransferase; Chain A, domain 1 › ATP-grasp fold, B domain 0.50 40.0 2.88e-01 89.0% 96.6%
1rypK00 3.60.20.10 Alpha Beta › 4-Layer Sandwich › Glutamine Phosphoribosylpyrophosphate, subunit 1, domain 1 › Aminohydrolase, N-terminal nucleophile (Ntn) domain 0.50 35.0 2.82e-01 74.7% 46.5%
ECOD (19)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4003988 391.1.1.7 ↗ few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › Fibronectin type I module › Fn1_2 0.67 33.0 3.61e-01 82.4% 56.0%
3579519 391.1.1.7 ↗ few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › Fibronectin type I module › Fn1_2 0.67 30.0 3.65e-01 76.9% 65.0%
4446833 2008.1.1.107 ↗ a/b three-layered sandwiches › Restriction endonuclease-like › Restriction endonuclease-like › Restriction endonuclease-like › NERD 0.67 36.0 2.98e-01 95.6% 29.7%
3230187 391.1.2.9 ↗ few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › VWC domain-related › Fn1_2 0.66 31.0 3.46e-01 79.1% 54.7%
5009635 3534.1.1.5 ↗ beta barrels › Pfam PF06938 (DUF1285) › Pfam PF06938 (DUF1285) › Pfam PF06938 (DUF1285) › DUF1854 0.60 28.0 3.04e-01 75.8% 50.7%
5013411 3407.1.1.2 ↗ mixed a+b and a/b › Nop N-terminal domain › Nop N-terminal domain › Nop N-terminal domain › Nop5_56-rel_N_Arc 0.57 35.0 3.21e-01 75.8% 45.8%
4003420 3735.1.1.0 ↗ beta meanders › Rearrangement hotspot (RHS) repeats protein › Rearrangement hotspot (RHS) repeats protein › Rearrangement hotspot (RHS) repeats protein 0.56 47.0 2.55e-01 90.1% 5.9%
4625183 6020.1.1.1 ↗ a+b two layers › Beta domain of DivIB/FtsQ › Beta domain of DivIB/FtsQ › Beta domain of DivIB/FtsQ › FtsQ_DivIB_C 0.56 40.0 3.67e-01 74.7% 94.3%
3940660 3343.1.1.2 ↗ alpha complex topology › gamma-tubulin complex protein 4 (GCP4) › gamma-tubulin complex protein 4 (GCP4) › gamma-tubulin complex protein 4 (GCP4) › GCP_C_terminal,GCP_N_terminal 0.56 43.0 2.68e-01 84.6% 76.2%
4948345 223.2.1.0 ↗ a+b three layers › Profilin-like › profilin-like › profilin-like 0.56 38.0 3.51e-01 71.4% 62.4%
3559914 3735.1.1.0 ↗ beta meanders › Rearrangement hotspot (RHS) repeats protein › Rearrangement hotspot (RHS) repeats protein › Rearrangement hotspot (RHS) repeats protein 0.55 45.0 2.46e-01 90.1% 6.0%
4845615 5.1.3.128 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › TEN_NHL 0.54 44.0 2.98e-01 90.1% 26.6%
4014861 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.53 43.0 3.14e-01 86.8% 62.4%
4018320 5.1.8.3 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › putative conserved lipoprotein NT01CX_1156 › WD40 0.52 40.0 3.21e-01 83.5% 41.1%
3999890 5.1.4.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed 0.52 43.0 2.92e-01 94.5% 34.6%
4019781 5.1.4.1 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › WD40 0.51 41.0 2.95e-01 85.7% 43.1%
3996624 5.1.5.164 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 8-bladed › Beta-prop_IFT140_1st, Beta-prop_IFT140_2nd 0.51 41.0 2.73e-01 91.2% 21.3%
3865926 5.1.3.180 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed › Kelch_1, DUF1668, Kelch_KLHDC2_KLHL20_DRC7 0.50 39.0 2.68e-01 83.5% 28.8%
5048104 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.50 34.0 3.77e-01 71.4% 90.0%