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MH729379.1__AXY81210.1__AVP_94__00094

Bact-Vir

MH729379.1__AXY81210.1__AVP_94__00094

Identity

Accession:
MH729379 ↗
Kingdom:
phage

Quality

75.9 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Herelleviridae› Aerococcus_phage_vB_AviM_AVP

TaxID: 2495576

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 304-341
PDB
Domain cluster: rep: OQ864999.1__WJZ70209.1__F341_109__00109__D60-95
CATH (24)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1goiB03 2.10.10.20 Mainly Beta › Ribbon › Seminal Fluid Protein PDC-109 (Domain B) › Carbohydrate-binding module superfamily 5/12 0.89 75.0 6.77e-01 94.7% 68.6%
1wvvB01 2.10.10.20 Mainly Beta › Ribbon › Seminal Fluid Protein PDC-109 (Domain B) › Carbohydrate-binding module superfamily 5/12 0.83 71.0 6.58e-01 97.4% 75.0%
2rtsA00 2.10.10.20 Mainly Beta › Ribbon › Seminal Fluid Protein PDC-109 (Domain B) › Carbohydrate-binding module superfamily 5/12 0.81 68.0 5.47e-01 94.7% 49.3%
1yueA02 2.10.10.40 Mainly Beta › Ribbon › Seminal Fluid Protein PDC-109 (Domain B) › 0.80 66.0 5.70e-01 94.7% 77.0%
3wx7A02 2.10.10.90 Mainly Beta › Ribbon › Seminal Fluid Protein PDC-109 (Domain B) › 0.80 71.0 5.23e-01 100.0% 73.7%
1ed7A00 2.10.10.20 Mainly Beta › Ribbon › Seminal Fluid Protein PDC-109 (Domain B) › Carbohydrate-binding module superfamily 5/12 0.73 59.0 5.68e-01 94.7% 86.7%
4m1xD00 3.30.1360.240 Alpha Beta › 2-Layer Sandwich › Gyrase A; domain 2 › 0.68 51.0 4.20e-01 100.0% 44.4%
3prbA02 2.40.10.330 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.67 54.0 5.20e-01 100.0% 77.3%
2nqwA00 3.30.465.10 Alpha Beta › 2-Layer Sandwich › Uridine Diphospho-n-acetylenolpyruvylglucosamine Reductase; domain 3 › 0.63 46.0 3.59e-01 94.7% 35.6%
1ti2A01 2.20.25.340 Mainly Beta › Single Sheet › N-terminal domain of TfIIb › 0.60 40.0 3.46e-01 86.8% 40.9%
5vmzA01 3.30.160.60 Alpha Beta › 2-Layer Sandwich › Double Stranded RNA Binding Domain › Classic Zinc Finger 0.60 38.0 3.83e-01 84.2% 59.0%
1iz6A01 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.58 47.0 4.00e-01 97.4% 59.4%
7razA01 3.30.70.100 Alpha Beta › 2-Layer Sandwich › Alpha-Beta Plaits › 0.58 43.0 3.46e-01 100.0% 38.8%
5tw4A02 2.30.140.20 Mainly Beta › Roll › Spermidine Synthase; Chain: A, domain 2 › Penicillin-binding protein 4, C-terminal domain 0.56 43.0 3.80e-01 100.0% 95.7%
2ljwA00 3.30.428.40 Alpha Beta › 2-Layer Sandwich › HIT family, subunit A › Protein of unknown function DUF3067 0.54 41.0 3.08e-01 86.8% 70.2%
1ji8A01 3.30.1420.10 Alpha Beta › 2-Layer Sandwich › Dissimilatory Siroheme-sulfite Reductase; Chain: A; domain 1 › DsrC protein, N-terminal domain 0.54 39.0 3.75e-01 84.2% 80.9%
1u04A04 3.30.420.10 Alpha Beta › 2-Layer Sandwich › Nucleotidyltransferase; domain 5 › Ribonuclease H-like superfamily/Ribonuclease H 0.54 39.0 2.49e-01 94.7% 14.3%
4bndA02 3.30.1240.20 Alpha Beta › 2-Layer Sandwich › Hypothetical Protein, Haloacid Dehalogenase-like Hydrolase; Chain: A; domain 2 › Eukaryotic phosphomannomutase, cap domain 0.52 40.0 3.21e-01 100.0% 65.6%
2f5kA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.52 35.0 3.30e-01 71.1% 80.0%
3a27A00 3.40.50.150 Alpha Beta › 3-Layer(aba) Sandwich › Rossmann fold › Vaccinia Virus protein VP39 0.50 39.0 2.58e-01 97.4% 46.1%
3hiaA00 2.10.270.10 Mainly Beta › Ribbon › left handed beta-beta-3-solenoid › Cholin Binding 0.50 41.0 3.55e-01 97.4% 80.3%
1b3qA04 2.40.50.180 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › CheA-289, Domain 4 0.50 38.0 3.38e-01 92.1% 85.7%
2rsxA00 3.10.450.420 Alpha Beta › Roll › Nuclear Transport Factor 2; Chain: A, › 0.50 38.0 2.62e-01 86.8% 36.5%
2iw3A05 2.40.50.990 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.50 41.0 3.05e-01 97.4% 45.9%
ECOD (36)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4026053 64.3.1.0 ↗ beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain 0.95 82.0 8.05e-01 94.7% 87.5%
2389402 64.3.1.0 ↗ beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain 0.91 77.0 6.79e-01 94.7% 64.8%
5026481 64.3.1.3 ↗ beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain › CBM_5_12_2 0.89 74.0 6.70e-01 94.7% 68.0%
4307941 64.3.1.1 ↗ beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain › CBM_5_12 0.86 73.0 6.29e-01 94.7% 83.1%
3971347 64.3.1.1 ↗ beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain › CBM_5_12 0.83 71.0 6.20e-01 97.4% 69.0%
1322863 64.3.1.1 ↗ beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain › CBM_5_12 0.83 71.0 6.63e-01 94.7% 84.8%
4110715 64.3.1.1 ↗ beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain › CBM_5_12 0.83 71.0 6.15e-01 97.4% 67.8%
3972100 64.3.1.0 ↗ beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain 0.82 70.0 5.80e-01 94.7% 55.4%
1694867 64.3.1.1 ↗ beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain › CBM_5_12 0.82 70.0 6.30e-01 97.4% 79.2%
1291025 64.3.1.1 ↗ beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain › CBM_5_12 0.81 68.0 5.47e-01 94.7% 49.3%
4009008 64.3.1.1 ↗ beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain › CBM_5_12 0.81 68.0 6.08e-01 97.4% 83.6%
1322862 64.3.1.1 ↗ beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain › CBM_5_12 0.80 69.0 6.41e-01 97.4% 83.3%
1002430 64.3.1.0 ↗ beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain 0.80 66.0 5.70e-01 94.7% 77.0%
4009007 64.3.1.0 ↗ beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain 0.79 66.0 6.04e-01 94.7% 76.0%
4444075 64.3.1.1 ↗ beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain › CBM_5_12 0.78 66.0 6.39e-01 97.4% 83.7%
2966957 64.3.1.0 ↗ beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain 0.78 63.0 4.82e-01 94.7% 51.1%
3981632 70.4.1.9 ↗ beta barrels › beta-clip › Head decoration protein D (gpD, major capsid protein D) › Head decoration protein D (gpD, major capsid protein D) › Phage_cement_2 0.76 59.0 5.81e-01 94.7% 80.0%
4149799 64.3.1.0 ↗ beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain 0.73 60.0 5.54e-01 94.7% 86.0%
5056597 243.6.1.0 ↗ a+b two layers › Cystatin-like › Pre-PUA domain › Pre-PUA domain 0.70 49.0 4.21e-01 84.2% 44.6%
2736861 64.3.1.1 ↗ beta meanders › WW domain-like › Carbohydrate binding domain › Carbohydrate binding domain › CBM_5_12 0.66 51.0 4.42e-01 94.7% 59.7%
5041150 239.1.1.15 ↗ beta barrels › Ribosomal protein L25-like › Ribosomal protein L25-like › Ribosomal protein L25-like › CPxCG_zf 0.64 55.0 4.52e-01 97.4% 64.3%
5014541 5090.1.1.11 ↗ beta complex topology › Viral glycoprotein, central and dimerisation domains-like › Viral glycoprotein, central and dimerisation domains › Viral glycoprotein, central and dimerisation domains › S_layer_N 0.61 41.0 3.02e-01 73.7% 70.0%
1684061 1001.1.1.6 ↗ a+b two layers › Formate dehydrogenase/DMSO reductase, domain 1 › Formate dehydrogenase/DMSO reductase, domain 1 › Formate dehydrogenase/DMSO reductase, domain 1 › AhtL-like_1st 0.60 40.0 3.34e-01 86.8% 37.0%
3502375 391.1.2.0 ↗ few secondary structure elements › Fibronectin type I module-like › Fibronectin type I module-like › VWC domain-related 0.59 54.0 5.08e-01 100.0% 100.0%
4499366 2003.1.5.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases 0.54 44.0 2.65e-01 100.0% 46.6%
3506274 331.2.1.7 ↗ a+b two layers › TBP-like › Phosphoglucomutase, C-terminal domain › Phosphoglucomutase, C-terminal domain › PGM1_C_vert_fung 0.54 45.0 3.21e-01 100.0% 36.8%
5056673 247.1.1.0 ↗ a+b four layers › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase › Metallo-hydrolase/oxidoreductase 0.54 45.0 2.79e-01 100.0% 25.7%
4929823 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.54 40.0 3.75e-01 84.2% 65.3%
4934987 4076.3.1.0 ↗ a+b two layers › L9 N-domain-like › GINS/PriA/YqbF domain › GINS/PriA/YqbF domain 0.52 36.0 3.47e-01 76.3% 62.2%
3824503 5.1.4.550 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 7-bladed › Kelch_FKB95 0.52 44.0 2.68e-01 100.0% 15.7%
None — 0.51 41.0 2.53e-01 100.0% 44.4%
3240361 379.1.1.3 ↗ few secondary structure elements › Kazal-type serine protease inhibitors-like › Kazal-type serine protease inhibitors › Kazal-type serine protease inhibitors › Kazal_2 0.51 38.0 3.12e-01 84.2% 53.3%
4611556 2003.1.5.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases 0.51 41.0 2.49e-01 100.0% 42.3%
3887525 2003.1.5.0 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases 0.51 40.0 2.44e-01 100.0% 42.1%
4933531 2003.1.5.24 ↗ a/b three-layered sandwiches › Rossmann-like › Rossmann-related › S-adenosyl-L-methionine-dependent methyltransferases › Met_10 0.51 40.0 2.50e-01 100.0% 51.6%
184919 243.1.1.31 ↗ a+b two layers › Cystatin-like › NTF2-like › NTF2-like › Endopep_inhib 0.50 38.0 2.62e-01 86.8% 36.5%
D2 medium residues 32-105
PDB
Domain cluster: representative
ECOD (1)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3254493 2004.1.1.153 ↗ a/b three-layered sandwiches › P-loop domains-like › P-loop domains-related › P-loop containing nucleoside triphosphate hydrolases › AAA_2 0.75 48.0 3.19e-01 77.0% 18.5%
D3 medium residues 106-164
PDB
Domain cluster: representative
ECOD (4)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3223707 2006.1.4.1 ↗ a/b three-layered sandwiches › HAD domain-like › HAD domain-related › PIN domain-like › XPG_N,XPG_I 0.75 58.0 3.79e-01 83.1% 21.3%
3824167 633.6.1.0 ↗ alpha bundles › Bromodomain-like › Acyl-CoA dehydrogenase C-terminal domain-like › Acyl-CoA dehydrogenase C-terminal domain-like 0.70 52.0 3.65e-01 78.0% 28.0%
3637724 149.1.1.0 ↗ alpha arrays › Cytochrome P450 › Cytochrome P450 › Cytochrome P450 0.63 55.0 3.31e-01 100.0% 49.4%
3329805 101.1.1.30 ↗ alpha arrays › HTH › HTH › Three-helical HTH › Sigma70_r3,Sigma70_r4 0.63 50.0 3.69e-01 88.1% 37.5%
D4 medium residues 165-262
PDB
Domain cluster: rep: HQ634153.1__AGH31830.1__SLPG_00036__00036__D1-78
Pfam (1)
AccessionNameScoreE-valueQ covHMM cov
PF02839.20 best CBM_5_12 39.2 7.60e-10 37.8% 77.3%
CATH (2)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
3wx7A02 2.10.10.90 Mainly Beta › Ribbon › Seminal Fluid Protein PDC-109 (Domain B) › 0.62 49.0 5.03e-01 100.0% 91.6%
4cp6A00 3.80.10.10 Alpha Beta › Alpha-Beta Horseshoe › Leucine-rich repeat, LRR (right-handed beta-alpha superhelix) › Ribonuclease Inhibitor 0.51 46.0 3.03e-01 100.0% 36.3%
ECOD (1)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4419948 4.1.1.57 ↗ beta barrels › SH3 › SH3 › SH3 › EFP_N 0.57 28.0 3.37e-01 89.8% 70.8%