←Back to structures

MZ568829.1__QYW06308.1__M163_p18__00018

Bact-Vir

MZ568829.1__QYW06308.1__M163_p18__00018

Identity

Accession:
MZ568829 ↗
Kingdom:
phage

Quality

96.2 mean pLDDT

Taxonomy

Heunggongvirae› Uroviricota› Caudoviricetes› Peduoviridae› Arsenicumvirus› Shewanella_phage_vB_SspM_M16-3

TaxID: 2866684

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 13-74
PDB
Domain cluster: representative
CATH (28)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
4p5nA00 2.30.30.1060 Mainly Beta › Roll › SH3 type barrels. › 0.81 70.0 6.59e-01 100.0% 78.4%
3j7aF03 2.30.30.30 Mainly Beta › Roll › SH3 type barrels. › 0.73 57.0 5.42e-01 100.0% 71.8%
5kcoA01 2.30.30.140 Mainly Beta › Roll › SH3 type barrels. › 0.73 53.0 5.43e-01 95.2% 79.7%
2eyqA05 2.40.10.170 Mainly Beta › Beta Barrel › Thrombin, subunit H › 0.71 56.0 5.70e-01 100.0% 89.8%
1txqA00 2.30.30.190 Mainly Beta › Roll › SH3 type barrels. › CAP Gly-rich-like domain 0.69 64.0 6.01e-01 100.0% 91.9%
3zfnA02 2.30.140.40 Mainly Beta › Roll › Spermidine Synthase; Chain: A, domain 2 › Pestivirus Npro endopeptidase C53, interaction domain 0.65 42.0 4.41e-01 85.5% 73.7%
4hcsA00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.65 48.0 4.71e-01 93.5% 74.6%
1e0bA00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.62 46.0 4.66e-01 91.9% 82.0%
3vygD00 2.30.30.50 Mainly Beta › Roll › SH3 type barrels. › 0.61 55.0 4.37e-01 98.4% 72.3%
2e5wA01 2.30.140.10 Mainly Beta › Roll › Spermidine Synthase; Chain: A, domain 2 › Spermidine synthase, tetramerisation domain 0.61 44.0 4.59e-01 88.7% 87.5%
1eotA00 2.40.50.40 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › 0.61 47.0 4.47e-01 93.5% 71.6%
1iy9A02 2.30.140.10 Mainly Beta › Roll › Spermidine Synthase; Chain: A, domain 2 › Spermidine synthase, tetramerisation domain 0.60 43.0 4.60e-01 88.7% 94.2%
6gbuD00 2.30.30.40 Mainly Beta › Roll › SH3 type barrels. › SH3 Domains 0.59 53.0 5.27e-01 100.0% 95.3%
6jy5B00 2.40.50.220 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › EutN/Ccml 0.59 47.0 4.29e-01 87.1% 93.9%
1rl2A01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.59 42.0 4.37e-01 91.9% 83.9%
1inlC02 2.30.140.10 Mainly Beta › Roll › Spermidine Synthase; Chain: A, domain 2 › Spermidine synthase, tetramerisation domain 0.58 43.0 4.33e-01 90.3% 79.7%
2nwiB00 3.40.1410.10 Alpha Beta › 3-Layer(aba) Sandwich › Chorismate lyase › Chorismate lyase-like 0.57 42.0 3.25e-01 82.3% 39.9%
1vq8A01 2.40.50.140 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › Nucleic acid-binding proteins 0.57 43.0 3.98e-01 93.5% 64.1%
4yo1A03 2.30.42.10 Mainly Beta › Roll › Pdz3 Domain › PDZ domain 0.56 47.0 4.17e-01 98.4% 100.0%
1u04A02 3.90.70.180 Alpha Beta › Alpha-Beta Complex › Cathepsin B; Chain A › 0.56 47.0 3.90e-01 95.2% 78.6%
2o07A01 2.30.140.10 Mainly Beta › Roll › Spermidine Synthase; Chain: A, domain 2 › Spermidine synthase, tetramerisation domain 0.56 43.0 4.42e-01 90.3% 91.5%
3e5zA00 2.120.10.30 Mainly Beta › 6 Propeller › Neuraminidase › TolB, C-terminal domain 0.55 39.0 2.63e-01 79.0% 54.1%
3vhxF00 2.60.40.4330 Mainly Beta › Sandwich › Immunoglobulin-like › Kinesin-like protein Kif23, Arf6-interacting domain 0.55 37.0 3.22e-01 71.0% 89.2%
3o4fC01 2.30.140.10 Mainly Beta › Roll › Spermidine Synthase; Chain: A, domain 2 › Spermidine synthase, tetramerisation domain 0.55 40.0 4.30e-01 90.3% 96.1%
5nslA01 2.115.10.20 Mainly Beta › 5 Propeller › Tachylectin-2; Chain A › Glycosyl hydrolase domain; family 43 0.53 46.0 2.77e-01 100.0% 73.8%
1ss4A00 3.10.180.10 Alpha Beta › Roll › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase; domain 1 › 2,3-Dihydroxybiphenyl 1,2-Dioxygenase, domain 1 0.51 38.0 3.08e-01 87.1% 77.9%
7c38B01 2.120.10.70 Mainly Beta › 6 Propeller › Neuraminidase › Fucose-specific lectin 0.51 41.0 2.66e-01 91.9% 22.2%
1gutA00 2.40.50.100 Mainly Beta › Beta Barrel › OB fold (Dihydrolipoamide Acetyltransferase, E2P) › RNA polymerase II/Efflux pump adaptor protein, barrel-sandwich hybrid domain 0.51 39.0 3.87e-01 88.7% 77.6%
ECOD (36)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
3588979 4.1.1.137 ↗ beta barrels › SH3 › SH3 › SH3 › PcrA_UvrD_tudor 0.82 60.0 6.15e-01 98.4% 79.7%
3964666 4.1.1.137 ↗ beta barrels › SH3 › SH3 › SH3 › PcrA_UvrD_tudor 0.81 58.0 5.96e-01 98.4% 78.3%
4931822 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.80 59.0 5.83e-01 100.0% 73.8%
3818428 4.1.1.66 ↗ beta barrels › SH3 › SH3 › SH3 › LBR_tudor 0.76 58.0 5.48e-01 100.0% 68.0%
5026824 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.74 56.0 5.35e-01 100.0% 71.4%
4547406 4.1.1.32 ↗ beta barrels › SH3 › SH3 › SH3 › CarD_TRCF_RID 0.73 57.0 5.24e-01 100.0% 66.3%
4339993 4.1.1.32 ↗ beta barrels › SH3 › SH3 › SH3 › CarD_TRCF_RID 0.72 56.0 5.00e-01 100.0% 58.9%
3839369 4.1.1.32 ↗ beta barrels › SH3 › SH3 › SH3 › CarD_TRCF_RID 0.72 56.0 5.16e-01 100.0% 66.3%
3702154 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.71 57.0 5.38e-01 100.0% 72.0%
5043533 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.71 60.0 6.01e-01 100.0% 89.1%
3428120 1.1.5.33 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Trypsin_2 0.69 53.0 3.39e-01 83.9% 30.7%
5034724 4.1.1.482 ↗ beta barrels › SH3 › SH3 › SH3 › DUF4314 0.68 53.0 5.65e-01 90.3% 94.5%
3532116 1.1.5.33 ↗ beta barrels › cradle loop barrel › RIFT-related › FMN-binding split barrel › Trypsin_2 0.66 53.0 3.62e-01 87.1% 39.1%
3255737 4.1.1.140 ↗ beta barrels › SH3 › SH3 › SH3 › Pif1_2B_dom 0.65 58.0 4.62e-01 98.4% 67.5%
5020252 219.1.1.0 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases 0.65 48.0 3.97e-01 100.0% 42.5%
5065184 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.65 42.0 4.78e-01 87.1% 93.3%
5053225 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.63 57.0 4.85e-01 100.0% 71.0%
3927411 4.8.1.0 ↗ beta barrels › SH3 › Chromo domain-like › Chromo domain-like 0.62 43.0 4.84e-01 88.7% 100.0%
3620698 2.6.1.0 ↗ beta barrels › OB-fold › Staphylococcal nuclease › Staphylococcal nuclease 0.61 52.0 4.48e-01 91.9% 80.0%
4163458 3699.1.1.1 ↗ beta meanders › Spermidine synthase tetramerisation domain › Spermidine synthase tetramerisation domain › Spermidine synthase tetramerisation domain › Spermine_synt_N 0.60 43.0 4.55e-01 88.7% 89.1%
3260945 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.59 46.0 4.67e-01 100.0% 91.7%
3942573 4.1.1.0 ↗ beta barrels › SH3 › SH3 › SH3 0.58 42.0 4.37e-01 100.0% 87.9%
4039571 3699.1.1.1 ↗ beta meanders › Spermidine synthase tetramerisation domain › Spermidine synthase tetramerisation domain › Spermidine synthase tetramerisation domain › Spermine_synt_N 0.58 42.0 4.38e-01 90.3% 89.1%
4973274 2.1.1.2 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › Ribosomal_L2 0.57 43.0 4.54e-01 91.9% 90.9%
4456205 3699.1.1.1 ↗ beta meanders › Spermidine synthase tetramerisation domain › Spermidine synthase tetramerisation domain › Spermidine synthase tetramerisation domain › Spermine_synt_N 0.57 44.0 4.59e-01 90.3% 94.5%
5056181 3699.1.1.1 ↗ beta meanders › Spermidine synthase tetramerisation domain › Spermidine synthase tetramerisation domain › Spermidine synthase tetramerisation domain › Spermine_synt_N 0.56 41.0 4.32e-01 87.1% 90.9%
5013328 3699.1.1.1 ↗ beta meanders › Spermidine synthase tetramerisation domain › Spermidine synthase tetramerisation domain › Spermidine synthase tetramerisation domain › Spermine_synt_N 0.56 44.0 4.50e-01 90.3% 90.0%
185601 7505.1.1.1 ↗ a/b three-layered sandwiches › Kinesin-like protein KIF23 C-terminal domain › Kinesin-like protein KIF23 C-terminal domain › Kinesin-like protein KIF23 C-terminal domain › MKLP1_Arf_bdg 0.56 37.0 3.22e-01 71.0% 85.8%
3241447 5.1.3.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.54 44.0 3.59e-01 91.9% 83.3%
3597338 5.1.3.0 ↗ beta duplicates or obligate multimers › beta-propeller-like › beta-propeller › 6-bladed 0.54 43.0 3.06e-01 91.9% 38.5%
5066088 219.1.1.13 ↗ a+b complex topology › Cysteine proteinases-like › Cysteine proteinases › Cysteine proteinases › Transglut_core 0.52 42.0 3.24e-01 90.3% 84.7%
4598956 2.1.1.0 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein 0.52 42.0 3.59e-01 90.3% 53.3%
3496098 295.1.1.0 ↗ a+b two layers › ssDNA-binding transcriptional regulator domain-like › ssDNA-binding transcriptional regulator domain › ssDNA-binding transcriptional regulator domain 0.52 42.0 3.27e-01 95.2% 94.2%
4602962 2.1.1.2 ↗ beta barrels › OB-fold › Nucleic acid-binding protein › Nucleic acid-binding protein › Ribosomal_L2 0.52 42.0 3.23e-01 91.9% 42.7%
4024548 6127.1.1.2 ↗ beta meanders › Beta meander domain in PfEMP1 protein › Beta meander domain in PfEMP1 protein › Beta meander domain in PfEMP1 protein › PfEMP1_CIDRalpha1_dom 0.51 37.0 3.32e-01 82.3% 82.0%
4660220 4010.1.1.2 ↗ a+b complex topology › N-terminal domain in beta subunit of DNA dependent RNA-polymerase › N-terminal domain in beta subunit of DNA dependent RNA-polymerase › N-terminal domain in beta subunit of DNA dependent RNA-polymerase › RNA_pol_Rpb2_1,RNA_pol_Rpb2_3 0.50 39.0 2.63e-01 90.3% 41.0%