←Back to structures

MZ568829.1__QYW06342.1__M163_p52__00052

Bact-Vir

MZ568829.1__QYW06342.1__M163_p52__00052

Identity

Accession:
MZ568829 ↗
Kingdom:
phage

Quality

92.1 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 7-87
PDB
Domain cluster: representative
CATH (42)
Domain IDClass IDClassificationTM-scoreBitsE-valueQ covT cov
1rj1A00 1.20.140.40 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Invertase/pectin methylesterase inhibitor family protein 0.78 71.0 5.78e-01 100.0% 70.9%
1xg2B00 1.20.140.40 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Invertase/pectin methylesterase inhibitor family protein 0.75 67.0 5.48e-01 100.0% 65.6%
1yo7A00 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.75 68.0 5.95e-01 100.0% 86.7%
3cazB00 1.20.1270.60 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Arfaptin homology (AH) domain/BAR domain 0.75 61.0 4.47e-01 87.7% 84.3%
1x8zB00 1.20.140.40 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Invertase/pectin methylesterase inhibitor family protein 0.75 66.0 5.48e-01 100.0% 67.3%
2rldA00 1.20.1440.60 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 23S rRNA-intervening sequence 0.74 67.0 5.97e-01 100.0% 84.2%
5figA00 1.20.1270.360 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.74 64.0 5.97e-01 97.5% 97.0%
3vadA01 1.20.140.20 Mainly Alpha › Up-down Bundle › Butyryl-CoA Dehydrogenase, subunit A; domain 3 › Alpha-ketoacid/pyruvate dehydrogenase kinase, N-terminal domain 0.73 64.0 5.22e-01 100.0% 76.3%
3m7gA02 1.10.8.1010 Mainly Alpha › Orthogonal Bundle › Helicase, Ruva Protein; domain 3 › 0.72 60.0 5.67e-01 90.1% 85.3%
5h5mA02 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.71 58.0 4.99e-01 90.1% 74.6%
1lq7A00 1.20.1270.70 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › Designed single chain three-helix bundle 0.70 51.0 5.51e-01 88.9% 94.0%
2clbA01 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.70 56.0 4.60e-01 90.1% 86.2%
1cm5A00 3.20.70.20 Alpha Beta › Alpha-Beta Barrel › Anaerobic Ribonucleotide-triphosphate Reductase Large Chain › 0.70 57.0 3.31e-01 88.9% 67.3%
5cy5B00 1.20.1200.10 Mainly Alpha › Up-down Bundle › Hypothetical Protein Ta1238; Chain: A; › Cobalamin adenosyltransferase-like 0.70 56.0 4.61e-01 88.9% 89.9%
2pmrA00 1.20.1270.90 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › AF1782-like 0.70 54.0 5.54e-01 88.9% 89.5%
2ip6A00 1.20.1440.140 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 0.69 61.0 5.99e-01 97.5% 100.0%
2b5dX02 1.20.1430.10 Mainly Alpha › Up-down Bundle › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase, middle domain 0.69 57.0 5.09e-01 90.1% 70.2%
1k04A02 1.20.120.330 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Nucleotidyltransferases domain 2 0.69 56.0 5.24e-01 90.1% 83.7%
6xz3A01 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.69 56.0 5.01e-01 90.1% 72.6%
1sj8A02 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.69 61.0 5.35e-01 100.0% 86.9%
4nwpD00 1.20.1200.10 Mainly Alpha › Up-down Bundle › Hypothetical Protein Ta1238; Chain: A; › Cobalamin adenosyltransferase-like 0.69 55.0 4.61e-01 90.1% 87.2%
2gscC00 1.20.1440.60 Mainly Alpha › Up-down Bundle › de novo design (two linked rop proteins) › 23S rRNA-intervening sequence 0.68 59.0 5.36e-01 98.8% 89.1%
4mudC00 1.20.1260.10 Mainly Alpha › Up-down Bundle › Ferritin › Ferritin, core subunit, four-helix bundle 0.67 60.0 4.38e-01 100.0% 71.8%
3cr3A00 1.25.40.340 Mainly Alpha › Alpha Horseshoe › Serine Threonine Protein Phosphatase 5, Tetratricopeptide repeat › DhaL domain 0.67 59.0 4.54e-01 100.0% 95.3%
1qkrB00 1.20.120.230 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › Alpha-catenin/vinculin-like 0.67 55.0 4.34e-01 92.6% 72.2%
8d3mA02 1.20.120.920 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › CRISPR-associated endonuclease Cas1, C-terminal domain 0.67 58.0 4.23e-01 100.0% 60.8%
3i1aA03 1.20.58.840 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.66 53.0 4.77e-01 88.9% 72.4%
2f2gA00 1.20.910.10 Mainly Alpha › Up-down Bundle › Heme Oxygenase; Chain A › Heme oxygenase-like 0.66 58.0 4.31e-01 100.0% 76.7%
3zciA00 1.20.58.1660 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › 0.65 56.0 4.36e-01 100.0% 84.3%
1dkxA02 1.20.1270.10 Mainly Alpha › Up-down Bundle › Substrate Binding Domain Of Dnak; Chain:A; Domain 2 › 0.65 51.0 5.12e-01 90.1% 87.5%
1wwmA00 1.20.910.10 Mainly Alpha › Up-down Bundle › Heme Oxygenase; Chain A › Heme oxygenase-like 0.64 56.0 4.35e-01 100.0% 82.8%
2m6uA00 1.20.81.20 Mainly Alpha › Up-down Bundle › Receptor-associated Protein › 0.62 50.0 4.99e-01 88.9% 93.9%
1nt2B03 1.10.246.90 Mainly Alpha › Orthogonal Bundle › Serum Albumin; Chain A, Domain 1 › Nop domain 0.61 48.0 4.57e-01 86.4% 99.0%
2hg2A01 3.40.605.10 Alpha Beta › 3-Layer(aba) Sandwich › Aldehyde Dehydrogenase; Chain A, domain 1 › Aldehyde Dehydrogenase; Chain A, domain 1 0.59 51.0 3.61e-01 100.0% 49.0%
4p9fA02 1.20.120.530 Mainly Alpha › Up-down Bundle › Four Helix Bundle (Hemerythrin (Met), subunit A) › GntR ligand-binding domain-like 0.59 47.0 3.95e-01 87.7% 81.9%
3akaA00 1.10.238.10 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › EF-hand 0.59 51.0 4.16e-01 100.0% 94.4%
7rkxR01 1.20.1070.10 Mainly Alpha › Up-down Bundle › Rhopdopsin 7-helix transmembrane proteins › Rhodopsin 7-helix transmembrane proteins 0.59 50.0 3.61e-01 98.8% 88.3%
1s7bA00 1.10.3730.20 Mainly Alpha › Orthogonal Bundle › ProC C-terminal domain-like fold › 0.59 46.0 4.29e-01 86.4% 67.9%
1n81A00 1.10.3030.10 Mainly Alpha › Orthogonal Bundle › Gametocyte protein Pfg27 › Gametocyte protein Pfg27 0.57 50.0 3.84e-01 98.8% 87.1%
2vwaA00 1.20.58.1330 Mainly Alpha › Up-down Bundle › Methane Monooxygenase Hydroxylase; Chain G, domain 1 › Plasmodium falciparum UIS3 membrane protein 0.55 36.0 3.42e-01 100.0% 54.5%
1nyaA00 1.10.238.10 Mainly Alpha › Orthogonal Bundle › Recoverin; domain 1 › EF-hand 0.54 47.0 3.74e-01 100.0% 91.5%
1h3lB00 1.10.1740.10 Mainly Alpha › Orthogonal Bundle › Rna Polymerase Sigma Factor; Chain: A › RNA polymerase sigma factor, region 2, helix turn helix motif 0.53 38.0 3.93e-01 91.4% 80.8%
ECOD (55)
UIDF-IDClassificationTM-scoreBitsE-valueQ covT cov
4029489 633.4.1.0 ↗ alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor 0.84 77.0 6.24e-01 100.0% 75.2%
3682340 633.4.1.0 ↗ alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor 0.81 74.0 5.95e-01 100.0% 69.3%
3802170 633.4.1.1 ↗ alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor › PMEI 0.81 74.0 5.95e-01 100.0% 72.0%
3301853 101.1.17.1 ↗ alpha arrays › HTH › HTH › FF domain › Ribosomal_S17e 0.80 72.0 5.98e-01 98.8% 65.7%
3301502 633.4.1.1 ↗ alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor › PMEI 0.80 73.0 5.90e-01 100.0% 68.7%
3725439 605.4.1.0 ↗ alpha duplicates or obligate multimers › ROP-like › ROP protein › ROP protein 0.79 65.0 4.97e-01 90.1% 54.1%
2512963 633.21.1.1 ↗ alpha bundles › Bromodomain-like › Uncharacterized protein PA2107 › Uncharacterized protein PA2107 › DUF326 0.79 71.0 6.03e-01 100.0% 77.3%
4383079 633.4.1.1 ↗ alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor › PMEI 0.79 71.0 5.72e-01 100.0% 69.0%
3352713 633.4.1.1 ↗ alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor › PMEI 0.79 71.0 5.39e-01 100.0% 61.2%
3405706 174.1.1.1 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin 0.76 67.0 5.71e-01 98.8% 76.2%
3396848 633.10.1.0 ↗ alpha bundles › Bromodomain-like › IVS-encoded protein-like › IVS-encoded protein-like 0.75 68.0 5.84e-01 98.8% 82.3%
5052538 632.22.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.75 62.0 6.23e-01 90.1% 96.2%
3775165 109.4.1.583 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › DNA_pol_phi 0.75 54.0 3.33e-01 88.9% 13.9%
3217241 633.10.1.0 ↗ alpha bundles › Bromodomain-like › IVS-encoded protein-like › IVS-encoded protein-like 0.75 68.0 5.33e-01 100.0% 53.9%
3829890 633.4.1.1 ↗ alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor › PMEI 0.74 67.0 5.59e-01 100.0% 68.3%
4025012 633.7.1.0 ↗ alpha bundles › Bromodomain-like › Bacillus cereus metalloprotein-like › Bacillus cereus metalloprotein-like 0.74 66.0 5.15e-01 100.0% 58.3%
3395581 174.1.1.0 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.74 66.0 5.59e-01 100.0% 83.0%
4564470 632.7.1.1 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain › HSP70 0.74 61.0 5.68e-01 88.9% 72.0%
3973500 601.1.2.144 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › I/LWEQ domain (Pfam 01608) › HBM 0.74 65.0 5.85e-01 100.0% 85.2%
4928363 150.1.1.1 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › Ferritin/Heme oxygenase › Ferritin › Ferritin 0.73 60.0 5.18e-01 88.9% 83.5%
3427223 633.4.1.1 ↗ alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor › PMEI 0.73 65.0 5.29e-01 100.0% 64.5%
3236017 174.1.1.0 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.73 64.0 5.36e-01 97.5% 95.7%
3251304 601.1.2.0 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › I/LWEQ domain (Pfam 01608) 0.73 64.0 5.84e-01 100.0% 91.8%
4142527 632.7.1.1 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain › HSP70 0.73 58.0 5.12e-01 90.1% 60.0%
3277476 174.1.1.0 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.72 64.0 5.26e-01 100.0% 72.7%
4365553 632.7.1.1 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain › HSP70 0.72 56.0 5.46e-01 88.9% 75.6%
3439339 611.8.1.2 ↗ alpha bundles › N-cbl like › C-terminal domain of E3 ubiquitin-protein ligase ARIH1 › C-terminal domain of E3 ubiquitin-protein ligase ARIH1 › Rx_N 0.72 60.0 5.00e-01 91.4% 70.7%
4528489 633.2.1.0 ↗ alpha bundles › Bromodomain-like › Carnobacteriocin B2 immunity protein › Carnobacteriocin B2 immunity protein 0.72 64.0 6.10e-01 98.8% 96.8%
3793073 632.22.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.71 58.0 5.27e-01 90.1% 67.3%
3621106 3755.3.1.0 ↗ alpha bundles › YscO-like › CT398 helical hairpin › CT398 helical hairpin 0.71 57.0 4.20e-01 90.1% 32.2%
None — 0.71 58.0 3.94e-01 98.8% 24.4%
3785572 632.22.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Cell division protein EzrA repeats › Cell division protein EzrA repeats 0.71 58.0 5.44e-01 91.4% 78.0%
5044025 632.1.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain 0.70 58.0 5.73e-01 90.1% 91.8%
4655075 632.7.1.1 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Heat shock protein 70kD (HSP70), C-terminal subdomain › Heat shock protein 70kD (HSP70), C-terminal subdomain › HSP70 0.70 55.0 5.37e-01 90.1% 76.7%
3530722 4177.1.1.150 ↗ alpha duplicates or obligate multimers › BAR/IMD domain-like › BAR/IMD domain-like › BAR/IMD domain-like › DUF4745 0.70 55.0 4.70e-01 86.4% 83.7%
3774114 5001.1.1.1 ↗ alpha bundles › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › Family A G protein-coupled receptor-like › 7tm_1 0.70 57.0 3.89e-01 90.1% 90.7%
3985675 3579.1.1.30 ↗ extended segments › NADH-quinone oxidoreductase subunit J › NADH-quinone oxidoreductase subunit J › NADH-quinone oxidoreductase subunit J › Imp-YgjV 0.69 62.0 5.18e-01 100.0% 92.9%
3325595 632.1.1.3 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › Families 57/38 glycoside transferase middle domain › Families 57/38 glycoside transferase middle domain › Alpha-mann_mid 0.69 57.0 5.10e-01 91.4% 75.7%
5035839 632.11.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.69 56.0 5.75e-01 88.9% 97.3%
3625011 174.1.1.0 ↗ few secondary structure elements › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain › Tetraspanin transmembrane domain 0.69 60.0 4.90e-01 98.8% 65.2%
4980730 632.11.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.69 50.0 5.04e-01 90.1% 77.5%
5038138 633.4.1.0 ↗ alpha bundles › Bromodomain-like › Plant invertase/pectin methylesterase inhibitor › Plant invertase/pectin methylesterase inhibitor 0.68 60.0 5.55e-01 100.0% 91.4%
4959917 109.4.1.207 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat › HEAT_2 0.68 55.0 3.42e-01 90.1% 15.5%
3286766 150.8.1.0 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › PPE › PPE 0.68 54.0 4.35e-01 86.4% 81.9%
3608933 1189.1.1.6 ↗ alpha bundles › VSG (variant surface glycoprotein) N-terminal domain and haptoglobin-hemoglobin receptor › VSG (variant surface glycoprotein) N-terminal domain and haptoglobin-hemoglobin receptor › VSG (variant surface glycoprotein) N-terminal domain and haptoglobin-hemoglobin receptor › ISG65-75 0.67 56.0 3.86e-01 91.4% 82.9%
3622690 601.1.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › alpha-catenin-related › alpha-catenin/vinculin 0.66 56.0 5.42e-01 96.3% 85.6%
3249291 3932.1.1.0 ↗ alpha bundles › CRISPR/Cas system-associated protein Csm6 6H domain › CRISPR/Cas system-associated protein Csm6 6H domain › CRISPR/Cas system-associated protein Csm6 6H domain 0.65 58.0 5.01e-01 100.0% 90.8%
3289578 150.8.1.0 ↗ alpha bundles › Ferritin/Heme oxygenase/4-helical cytokines › PPE › PPE 0.65 53.0 4.05e-01 88.9% 76.8%
3500009 109.4.1.0 ↗ alpha superhelices › Repetitive alpha hairpins › ARM repeat › ARM repeat 0.65 51.0 4.13e-01 87.7% 60.0%
5041255 601.18.1.0 ↗ alpha bundles › Four-helical up-and-down bundle › Oxygen-evolving enhancer protein 3 › Oxygen-evolving enhancer protein 3 0.64 51.0 4.72e-01 90.1% 68.6%
3796226 3860.1.1.0 ↗ alpha bundles › Myosin VI lever arm › Myosin VI lever arm › Myosin VI lever arm 0.62 50.0 3.95e-01 90.1% 41.7%
4966166 5038.2.1.12 ↗ alpha superhelices › Cytochrome c oxidase subunit I-like › MAPEG domain-like › MAPEG domain-like › TrbL_3 0.62 55.0 4.14e-01 98.8% 53.0%
5043950 632.11.1.0 ↗ alpha bundles › immunoglobulin/albumin-binding domain-like › AF1782-like › AF1782-like 0.60 54.0 5.48e-01 100.0% 100.0%
3241203 544.1.1.0 ↗ alpha bundles › Functional domain of the splicing factor Prp18 › Functional domain of the splicing factor Prp18 › Functional domain of the splicing factor Prp18 0.58 47.0 4.23e-01 91.4% 86.7%
3733776 7524.1.1.1 ↗ a/b three-layered sandwiches › ALDH-like › ALDH-like › ALDH-like › Aldedh 0.58 51.0 3.80e-01 100.0% 51.9%